Proteins
Linear POLYPEPTIDES that are synthesized on RIBOSOMES and may be further modified, crosslinked, cleaved, or assembled into complex proteins with several subunits. The specific sequence of AMINO ACIDS determines the shape the polypeptide will take, during PROTEIN FOLDING, and the function of the protein.
Protein Structure, Secondary
Models, Molecular
Protein Conformation
The characteristic 3-dimensional shape of a protein, including the secondary, supersecondary (motifs), tertiary (domains) and quaternary structure of the peptide chain. PROTEIN STRUCTURE, QUATERNARY describes the conformation assumed by multimeric proteins (aggregates of more than one polypeptide chain).
Databases, Protein
Sequence Analysis, Protein
Structural Homology, Protein
Protein Structure, Tertiary
The level of protein structure in which combinations of secondary protein structures (alpha helices, beta sheets, loop regions, and motifs) pack together to form folded shapes called domains. Disulfide bridges between cysteines in two different parts of the polypeptide chain along with other interactions between the chains play a role in the formation and stabilization of tertiary structure. Small proteins usually consist of only one domain but larger proteins may contain a number of domains connected by segments of polypeptide chain which lack regular secondary structure.
Software
Algorithms
Computational Biology
A field of biology concerned with the development of techniques for the collection and manipulation of biological data, and the use of such data to make biological discoveries or predictions. This field encompasses all computational methods and theories for solving biological problems including manipulation of models and datasets.
Sequence Alignment
The arrangement of two or more amino acid or base sequences from an organism or organisms in such a way as to align areas of the sequences sharing common properties. The degree of relatedness or homology between the sequences is predicted computationally or statistically based on weights assigned to the elements aligned between the sequences. This in turn can serve as a potential indicator of the genetic relatedness between the organisms.
Amino Acid Sequence
Internet
Computer Simulation
Models, Chemical
Molecular Sequence Data
Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories.
User-Computer Interface
Nuclear Magnetic Resonance, Biomolecular
Crystallography, X-Ray
Hydrogen Bonding
Computer Graphics
Thermodynamics
A rigorously mathematical analysis of energy relationships (heat, work, temperature, and equilibrium). It describes systems whose states are determined by thermal parameters, such as temperature, in addition to mechanical and electromagnetic parameters. (From Hawley's Condensed Chemical Dictionary, 12th ed)
Binding Sites
Amino Acids
Evolution, Molecular
Sequence Homology, Amino Acid
Molecular Dynamics Simulation
Structure-Activity Relationship
Protein Binding
Solvents
Hydrophobic and Hydrophilic Interactions
Magnetic Resonance Spectroscopy
Molecular Structure
Crystallography
Protein Structure, Quaternary
Databases, Factual
Extensive collections, reputedly complete, of facts and data garnered from material of a specialized subject area and made available for analysis and application. The collection can be automated by various contemporary methods for retrieval. The concept should be differentiated from DATABASES, BIBLIOGRAPHIC which is restricted to collections of bibliographic references.
Protein Denaturation
Muramidase
A basic enzyme that is present in saliva, tears, egg white, and many animal fluids. It functions as an antibacterial agent. The enzyme catalyzes the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in peptidoglycan and between N-acetyl-D-glucosamine residues in chitodextrin. EC 3.2.1.17.
Enzymes
Ligands
A molecule that binds to another molecule, used especially to refer to a small molecule that binds specifically to a larger molecule, e.g., an antigen binding to an antibody, a hormone or neurotransmitter binding to a receptor, or a substrate or allosteric effector binding to an enzyme. Ligands are also molecules that donate or accept a pair of electrons to form a coordinate covalent bond with the central metal atom of a coordination complex. (From Dorland, 27th ed)
Knowledge Bases
Artificial Intelligence
Information Storage and Retrieval
Database Management Systems
Protein Engineering
Procedures by which protein structure and function are changed or created in vitro by altering existing or synthesizing new structural genes that direct the synthesis of proteins with sought-after properties. Such procedures may include the design of MOLECULAR MODELS of proteins using COMPUTER GRAPHICS or other molecular modeling techniques; site-specific mutagenesis (MUTAGENESIS, SITE-SPECIFIC) of existing genes; and DIRECTED MOLECULAR EVOLUTION techniques to create new genes.
Amino Acid Motifs
Protein Stability
Circular Dichroism
Mutation
Membrane Proteins
Conserved Sequence
Myoglobin
Protein Interaction Domains and Motifs
Water
X-Ray Diffraction
The scattering of x-rays by matter, especially crystals, with accompanying variation in intensity due to interference effects. Analysis of the crystal structure of materials is performed by passing x-rays through them and registering the diffraction image of the rays (CRYSTALLOGRAPHY, X-RAY). (From McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)
Monte Carlo Method
In statistics, a technique for numerically approximating the solution of a mathematical problem by studying the distribution of some random variable, often generated by a computer. The name alludes to the randomness characteristic of the games of chance played at the gambling casinos in Monte Carlo. (From Random House Unabridged Dictionary, 2d ed, 1993)
Crystallization
Pattern Recognition, Automated
Models, Statistical
Peptides
Members of the class of compounds composed of AMINO ACIDS joined together by peptide bonds between adjacent amino acids into linear, branched or cyclical structures. OLIGOPEPTIDES are composed of approximately 2-12 amino acids. Polypeptides are composed of approximately 13 or more amino acids. PROTEINS are linear polypeptides that are normally synthesized on RIBOSOMES.
Cluster Analysis
A set of statistical methods used to group variables or observations into strongly inter-related subgroups. In epidemiology, it may be used to analyze a closely grouped series of events or cases of disease or other health-related phenomenon with well-defined distribution patterns in relation to time or place or both.
Temperature
Neural Networks (Computer)
A computer architecture, implementable in either hardware or software, modeled after biological neural networks. Like the biological system in which the processing capability is a result of the interconnection strengths between arrays of nonlinear processing nodes, computerized neural networks, often called perceptrons or multilayer connectionist models, consist of neuron-like units. A homogeneous group of units makes up a layer. These networks are good at pattern recognition. They are adaptive, performing tasks by example, and thus are better for decision-making than are linear learning machines or cluster analysis. They do not require explicit programming.
Solutions
Escherichia coli
A species of gram-negative, facultatively anaerobic, rod-shaped bacteria (GRAM-NEGATIVE FACULTATIVELY ANAEROBIC RODS) commonly found in the lower part of the intestine of warm-blooded animals. It is usually nonpathogenic, but some strains are known to produce DIARRHEA and pyogenic infections. Pathogenic strains (virotypes) are classified by their specific pathogenic mechanisms such as toxins (ENTEROTOXIGENIC ESCHERICHIA COLI), etc.
Entropy
Reproducibility of Results
The statistical reproducibility of measurements (often in a clinical context), including the testing of instrumentation or techniques to obtain reproducible results. The concept includes reproducibility of physiological measurements, which may be used to develop rules to assess probability or prognosis, or response to a stimulus; reproducibility of occurrence of a condition; and reproducibility of experimental results.
Chemistry, Physical
Physicochemical Phenomena
Base Sequence
Models, Theoretical
Disulfides
Amino Acid Substitution
The naturally occurring or experimentally induced replacement of one or more AMINO ACIDS in a protein with another. If a functionally equivalent amino acid is substituted, the protein may retain wild-type activity. Substitution may also diminish, enhance, or eliminate protein function. Experimentally induced substitution is often used to study enzyme activities and binding site properties.
Automation
Pliability
Spectrophotometry, Infrared
Catalytic Domain
Cryoelectron Microscopy
Enzyme Stability
Mathematical Concepts
Hydrogen
The first chemical element in the periodic table. It has the atomic symbol H, atomic number 1, and atomic weight [1.00784; 1.00811]. It exists, under normal conditions, as a colorless, odorless, tasteless, diatomic gas. Hydrogen ions are PROTONS. Besides the common H1 isotope, hydrogen exists as the stable isotope DEUTERIUM and the unstable, radioactive isotope TRITIUM.
Mutagenesis, Site-Directed
Deuterium Exchange Measurement
Markov Chains
Tryptophan
An essential amino acid that is necessary for normal growth in infants and for NITROGEN balance in adults. It is a precursor of INDOLE ALKALOIDS in plants. It is a precursor of SEROTONIN (hence its use as an antidepressant and sleep aid). It can be a precursor to NIACIN, albeit inefficiently, in mammals.
Electrons
Stable elementary particles having the smallest known negative charge, present in all elements; also called negatrons. Positively charged electrons are called positrons. The numbers, energies and arrangement of electrons around atomic nuclei determine the chemical identities of elements. Beams of electrons are called CATHODE RAYS.
Hemerythrin
Synchrotrons
Molecular Sequence Annotation
Bacteriophage T4
Normal Distribution
Mass Spectrometry
Peptide Fragments
Cattle
Surface Properties
Scattering, Small Angle
Scattering of a beam of electromagnetic or acoustic RADIATION, or particles, at small angles by particles or cavities whose dimensions are many times as large as the wavelength of the radiation or the de Broglie wavelength of the scattered particles. Also know as low angle scattering. (McGraw-Hill Dictionary of Scientific and Technical Terms, 6th ed) Small angle scattering (SAS) techniques, small angle neutron (SANS), X-ray (SAXS), and light (SALS, or just LS) scattering, are used to characterize objects on a nanoscale.
Rubredoxins
Systems Integration
Online Systems
Quantum Theory
Drug Design
The molecular designing of drugs for specific purposes (such as DNA-binding, enzyme inhibition, anti-cancer efficacy, etc.) based on knowledge of molecular properties such as activity of functional groups, molecular geometry, and electronic structure, and also on information cataloged on analogous molecules. Drug design is generally computer-assisted molecular modeling and does not include pharmacokinetics, dosage analysis, or drug administration analysis.
Spectroscopy, Fourier Transform Infrared
Data Interpretation, Statistical
Hydrogen-Ion Concentration
Ribonuclease, Pancreatic
Cloning, Molecular
Sequence Analysis
Bacteriorhodopsins
Crown Ethers
Macrocyclic polyethers with the repeating unit of (-CH2-CH2-O)n where n is greater than 2 and some oxygens may be replaced by nitrogen, sulfur or phosphorus. These compounds are useful for coordinating CATIONS. The nomenclature uses a prefix to indicate the size of the ring and a suffix for the number of heteroatoms.
Dimerization
Proline
Repetitive Sequences, Amino Acid
Apoproteins
Protein Multimerization
Databases as Topic
DNA
A deoxyribonucleotide polymer that is the primary genetic material of all cells. Eukaryotic and prokaryotic organisms normally contain DNA in a double-stranded state, yet several important biological processes transiently involve single-stranded regions. DNA, which consists of a polysugar-phosphate backbone possessing projections of purines (adenine and guanine) and pyrimidines (thymine and cytosine), forms a double helix that is held together by hydrogen bonds between these purines and pyrimidines (adenine to thymine and guanine to cytosine).
Amides
Fourier Analysis
Analysis based on the mathematical function first formulated by Jean-Baptiste-Joseph Fourier in 1807. The function, known as the Fourier transform, describes the sinusoidal pattern of any fluctuating pattern in the physical world in terms of its amplitude and its phase. It has broad applications in biomedicine, e.g., analysis of the x-ray crystallography data pivotal in identifying the double helical nature of DNA and in analysis of other molecules, including viruses, and the modified back-projection algorithm universally used in computerized tomography imaging, etc. (From Segen, The Dictionary of Modern Medicine, 1992)
Motion
Ions
Point Mutation
Multiprotein Complexes
Triose-Phosphate Isomerase
Biochemistry
Energy Transfer
The transfer of energy of a given form among different scales of motion. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 6th ed). It includes the transfer of kinetic energy and the transfer of chemical energy. The transfer of chemical energy from one molecule to another depends on proximity of molecules so it is often used as in techniques to measure distance such as the use of FORSTER RESONANCE ENERGY TRANSFER.
Pyrococcus furiosus
Substrate Specificity
Metalloproteins
Protons
Models, Biological
Exons
Spectrum Analysis, Raman
Lipid Bilayers
National Institute of General Medical Sciences (U.S.)
Component of the NATIONAL INSTITUTES OF HEALTH. It conducts and supports basic biomedical research that is not targeted to specific diseases and funds studies on genes, proteins, and cells, as well as on fundamental processes like communication within and between cells and metabolism. It was established in 1962.
Data Display
Nitrogen Isotopes
Ubiquitin
A highly conserved 76-amino acid peptide universally found in eukaryotic cells that functions as a marker for intracellular PROTEIN TRANSPORT and degradation. Ubiquitin becomes activated through a series of complicated steps and forms an isopeptide bond to lysine residues of specific proteins within the cell. These "ubiquitinated" proteins can be recognized and degraded by proteosomes or be transported to specific compartments within the cell.
Solubility
Catalysis
Deuterium
Trypsin
Multigene Family
A set of genes descended by duplication and variation from some ancestral gene. Such genes may be clustered together on the same chromosome or dispersed on different chromosomes. Examples of multigene families include those that encode the hemoglobins, immunoglobulins, histocompatibility antigens, actins, tubulins, keratins, collagens, heat shock proteins, salivary glue proteins, chorion proteins, cuticle proteins, yolk proteins, and phaseolins, as well as histones, ribosomal RNA, and transfer RNA genes. The latter three are examples of reiterated genes, where hundreds of identical genes are present in a tandem array. (King & Stanfield, A Dictionary of Genetics, 4th ed)
Databases, Nucleic Acid
Genome
Spectrophotometry
Micelles
Particles consisting of aggregates of molecules held loosely together by secondary bonds. The surface of micelles are usually comprised of amphiphatic compounds that are oriented in a way that minimizes the energy of interaction between the micelle and its environment. Liquids that contain large numbers of suspended micelles are referred to as EMULSIONS.
Mutation, Missense
Glycosylation
Torsion, Mechanical
Protein Footprinting
A method for determining points of contact between interacting proteins or binding sites of proteins to nucleic acids. Protein footprinting utilizes a protein cutting reagent or protease. Protein cleavage is inhibited where the proteins, or nucleic acids and protein, contact each other. After completion of the cutting reaction, the remaining peptide fragments are analyzed by electrophoresis.
Sequence Analysis, DNA
Peptide Library
Oxidation-Reduction
A chemical reaction in which an electron is transferred from one molecule to another. The electron-donating molecule is the reducing agent or reductant; the electron-accepting molecule is the oxidizing agent or oxidant. Reducing and oxidizing agents function as conjugate reductant-oxidant pairs or redox pairs (Lehninger, Principles of Biochemistry, 1982, p471).
Codon
A set of three nucleotides in a protein coding sequence that specifies individual amino acids or a termination signal (CODON, TERMINATOR). Most codons are universal, but some organisms do not produce the transfer RNAs (RNA, TRANSFER) complementary to all codons. These codons are referred to as unassigned codons (CODONS, NONSENSE).
Electron Spin Resonance Spectroscopy
A technique applicable to the wide variety of substances which exhibit paramagnetism because of the magnetic moments of unpaired electrons. The spectra are useful for detection and identification, for determination of electron structure, for study of interactions between molecules, and for measurement of nuclear spins and moments. (From McGraw-Hill Encyclopedia of Science and Technology, 7th edition) Electron nuclear double resonance (ENDOR) spectroscopy is a variant of the technique which can give enhanced resolution. Electron spin resonance analysis can now be used in vivo, including imaging applications such as MAGNETIC RESONANCE IMAGING.
Metals
Protein Processing, Post-Translational
Any of various enzymatically catalyzed post-translational modifications of PEPTIDES or PROTEINS in the cell of origin. These modifications include carboxylation; HYDROXYLATION; ACETYLATION; PHOSPHORYLATION; METHYLATION; GLYCOSYLATION; ubiquitination; oxidation; proteolysis; and crosslinking and result in changes in molecular weight and electrophoretic motility.
Molecular Docking Simulation
Models, Structural
Electrophoresis, Polyacrylamide Gel
Allosteric Regulation
Neutrons
Electrically neutral elementary particles found in all atomic nuclei except light hydrogen; the mass is equal to that of the proton and electron combined and they are unstable when isolated from the nucleus, undergoing beta decay. Slow, thermal, epithermal, and fast neutrons refer to the energy levels with which the neutrons are ejected from heavier nuclei during their decay.
Mathematical Computing
Heme
Urea
Macromolecular Substances
Detergents
Plant Proteins
Asparagine
Melatonin biosynthesis: the structure of serotonin N-acetyltransferase at 2.5 A resolution suggests a catalytic mechanism. (1/55031)
Conversion of serotonin to N-acetylserotonin, the precursor of the circadian neurohormone melatonin, is catalyzed by serotonin N-acetyltransferase (AANAT) in a reaction requiring acetyl coenzyme A (AcCoA). AANAT is a globular protein consisting of an eight-stranded beta sheet flanked by five alpha helices; a conserved motif in the center of the beta sheet forms the cofactor binding site. Three polypeptide loops converge above the AcCoA binding site, creating a hydrophobic funnel leading toward the cofactor and serotonin binding sites in the protein interior. Two conserved histidines not found in other NATs are located at the bottom of the funnel in the active site, suggesting a catalytic mechanism for acetylation involving imidazole groups acting as general acid/base catalysts. (+info)Structural basis of Rab effector specificity: crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A. (2/55031)
The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of activated Rab3A/GTP/Mg2+ bound to the effector domain of rabphilin-3A was solved to 2.6 A resolution. Rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion. (+info)Crystal structures of two Sm protein complexes and their implications for the assembly of the spliceosomal snRNPs. (3/55031)
The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F, and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs (snRNAs). These proteins share a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. Crystal structures of two Sm protein complexes, D3B and D1D2, show that these proteins have a common fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta sheet, and the D1D2 and D3B dimers superpose closely in their core regions, including the dimer interfaces. The crystal structures suggest that the seven Sm proteins could form a closed ring and the snRNAs may be bound in the positively charged central hole. (+info)A viral mechanism for inhibition of p300 and PCAF acetyltransferase activity. (4/55031)
Nucleosomal histone modification is believed to be a critical step in the activation of RNA polymerase II-dependent transcription. p300/CBP and PCAF histone acetyltransferases (HATs) are coactivators for several transcription factors, including nuclear hormone receptors, p53, and Stat1alpha, and participate in transcription by forming an activation complex and by promoting histone acetylation. The adenoviral E1A oncoprotein represses transcriptional signaling by binding to p300/CBP and displacing PCAF and p/CIP proteins from the complex. Here, we show that E1A directly represses the HAT activity of both p300/CBP and PCAF in vitro and p300-dependent transcription in vivo. Additionally, E1A inhibits nucleosomal histone modifications by the PCAF complex and blocks p53 acetylation. These results demonstrate the modulation of HAT activity as a novel mechanism of transcriptional regulation. (+info)Crystal structure of the cytoplasmic domain of the type I TGF beta receptor in complex with FKBP12. (5/55031)
Activation of the type I TGFbeta receptor (TbetaR-I) requires phosphorylation of a regulatory segment known as the GS region, located upstream of the serine/threonine kinase domain in the cytoplasmic portion of the receptor. The crystal structure of a fragment of unphosphorylated TbetaR-I, containing both the GS region and the catalytic domain, has been determined in complex with the FK506-binding protein FKBP12. TbetaR-I adopts an inactive conformation that is maintained by the unphosphorylated GS region. FKBP12 binds to the GS region of the receptor, capping the TbetaR-II phosphorylation sites and further stabilizing the inactive conformation of TbetaR-I. Certain structural features at the catalytic center of TbetaR-I are characteristic of tyrosine kinases rather than Ser/Thr kinases. (+info)Crystal structure of wild-type human procathepsin K. (6/55031)
Cathepsin K is a lysosomal cysteine protease belonging to the papain superfamily. It has been implicated as a major mediator of osteoclastic bone resorption. Wild-type human procathepsin K has been crystallized in a glycosylated and a deglycosylated form. The latter crystals diffract better, to 3.2 A resolution, and contain four molecules in the asymmetric unit. The structure was solved by molecular replacement and refined to an R-factor of 0.194. The N-terminal fragment of the proregion forms a globular domain while the C-terminal segment is extended and shows substantial flexibility. The proregion interacts with the enzyme along the substrate binding groove and along the proregion binding loop (residues Ser138-Asn156). It binds to the active site in the opposite direction to that of natural substrates. The overall binding mode of the proregion to cathepsin K is similar to that observed in cathepsin L, caricain, and cathepsin B, but there are local differences that likely contribute to the specificity of these proregions for their cognate enzymes. The main observed difference is in the position of the short helix alpha3p (67p-75p), which occupies the S' subsites. As in the other proenzymes, the proregion utilizes the S2 subsite for anchoring by placing a leucine side chain there, according to the specificity of cathepsin K toward its substrate. (+info)Tolerance of a protein to multiple polar-to-hydrophobic surface substitutions. (7/55031)
Hydrophobic substitutions at solvent-exposed positions in two alpha-helical regions of the bacteriophage P22 Arc repressor were introduced by combinatorial mutagenesis. In helix A, hydrophobic residues were tolerated individually at each of the five positions examined, but multiple substitutions were poorly tolerated as shown by the finding that mutants with more than two additional hydrophobic residues were biologically inactive. Several inactive helix A variants were purified and found to have reduced thermal stability relative to wild-type Arc, with a rough correlation between the number of polar-to-hydrophobic substitutions and the magnitude of the stability defect. Quite different results were obtained in helix B, where variants with as many as five polar-to-hydrophobic substitutions were found to be biologically active and one variant with three hydrophobic substitutions had a t(m) 6 degrees C higher than wild-type. By contrast, a helix A mutant with three similar polar-to-hydrophobic substitutions was 23 degrees C less stable than wild-type. Also, one set of three polar-to-hydrophobic substitutions in helix B was tolerated when introduced into the wild-type background but not when introduced into an equally active mutant having a nearly identical structure. Context effects occur both when comparing different regions of the same protein and when comparing the same region in two different homologues. (+info)Sequence specificity, statistical potentials, and three-dimensional structure prediction with self-correcting distance geometry calculations of beta-sheet formation in proteins. (8/55031)
A statistical analysis of a representative data set of 169 known protein structures was used to analyze the specificity of residue interactions between spatial neighboring strands in beta-sheets. Pairwise potentials were derived from the frequency of residue pairs in nearest contact, second nearest and third nearest contacts across neighboring beta-strands compared to the expected frequency of residue pairs in a random model. A pseudo-energy function based on these statistical pairwise potentials recognized native beta-sheets among possible alternative pairings. The native pairing was found within the three lowest energies in 73% of the cases in the training data set and in 63% of beta-sheets in a test data set of 67 proteins, which were not part of the training set. The energy function was also used to detect tripeptides, which occur frequently in beta-sheets of native proteins. The majority of native partners of tripeptides were distributed in a low energy range. Self-correcting distance geometry (SECODG) calculations using distance constraints sets derived from possible low energy pairing of beta-strands uniquely identified the native pairing of the beta-sheet in pancreatic trypsin inhibitor (BPTI). These results will be useful for predicting the structure of proteins from their amino acid sequence as well as for the design of proteins containing beta-sheets. (+info)
Domain combinations for Carbohydrate-binding domain superfamily in Proterospongia sp. ATCC 50818
Polbase - Structure of polymerase: Co(III)bleomycinB2 bithiazole/C-terminal tail domain bound to d(ATTTAGTTAACTAAAT) complexed...
Genetic Evidence that Transcription Activation by RhaS Involves Specific Amino Acid Contacts with Sigma 70 | Journal of...
Evolutionary classification of protein domain structures
Evolutionary classification of protein domain structures
The evolution of protein domain families | Biochemical Society Transactions
SMART: SAM domain annotation
SMART: SAM domain annotation
Signal peptide-binding domain superfamily
Auto-inhibition of Arabidopsis th... preview & related info | Mendeley
KH homology domain-containing protein elisa and antibody
CDD Conserved Protein Domain Family: PTK CCK4
CDD Conserved Protein Domain Family: NR LBD GR
CSF1R protein domain and mutation schematic. Schematic | Open-i
Domain combinations for 49899,55486, gap ,57535, gap ,57535,57535, gap superfamilies in groups of genomes
Redirect old domain to new domain SEO friendly - Webmasters Stack Exchange
cc Domain Names Search - Verisign
cc Domain Names Search - Verisign
Forkhead-associated domain-containing protein elisa and antibody
Domain combination pairs containing Dcp2 domain-like and Nudix in all archaea
Transmembrane domain architecture, symmetry and couplin | Open-i
GTLD Domain Names | New Domain Extensions Available - GoDaddy PH
Method for producing and identifying soluble protein domains - Domainex Limited
Tuning the Flexibility of Glycine-Serine Linkers ToAllow Rational Design of Multidomain Proteins - BioNMR
http://www.peopleeraconsulting.in/
Etk/Bmx, a tyrosine kinase with a pleckstrin-homology domain, is an effector of phosphatidylinositol 3-kinase and is involved...
NMR paper Solution NMR structures provide first structural coverage of the large protein domain family PF08369 and...
HOMER1 - Wikipedia
Heat shock protein 70kD (HSP70), peptide-binding domain superfamily
Genes | Free Full-Text | Reassessing Domain Architecture Evolution of Metazoan Proteins: Major Impact of Errors Caused by...
Modulation of Escherichia coli Cell Membrane by a Monotopic Lipid Glycosyltransferase - an Exploration of Potential Mechanisms
Mechanisms of membrane interaction and dimerization of K-Ras4B | NIH Research Festival
Zn2/Cys6 DNA-binding domain superfamily
ISMB 2006: Fortaleza, Brazil, August 6-10
Herb intracellular immune receptors comprise a large number of multi-domain proteins | immune-source.com
PROSITE
org.Rn.egSF @ dnet 1.1.2
Structures of the Sgt2/SGTA Dimerization Domain with the Get5/UBL4A UBL Domain Reveal an Interaction that Forms a Conserved...
1ira - Proteopedia, life in 3D
ILKBP Definition: Integrin-Linked Kinase-Binding Protein
Avoiding Adverse Effects on SEO through Domain Name Ownership History Checks
SVEP1 Gene - GeneCards | SVEP1 Protein | SVEP1 Antibody
Automated Recommendation of Related Model Elements for Domain Models | SpringerLink
Bacterial Protein Impairs Important Cellular Processes | The BioScientist
Purification and aggregation of the amyloid precursor protein intracellular domain<...
CT domain of CCN2/CTGF directly interacts with fibronectin and enhances cell adhesion of chondrocytes through integrin α5β1<...
How many ways protein protein interactions are regulated? - Biochemistry - BioForum
MAPPING THE TRANSCRIPTIONAL REGULATORY NETWORK OF THE AMYLOID PRECURSOR PROTEIN INTRACELLULAR DOMAIN (AICD) | [email protected]
Three-Dimensional Structure Of The Amyloid Precursor Protein Intracellular Domain (AICD) In Complex With Human FE65-PTB2 -...
BAR domains as sensors of membrane curvature: the amphiphysin BAR structure. - Nuffield Department of Surgical Sciences
Prediction of VH-VL domain orientation for antibody variable domain modeling
Charting the Landscape of Tandem BRCT Domain-Mediated Protein Interactions. - Science Exchange
nanoHUB.org - Resources: [Illinois] Beckman Graduate Seminar: Membrane Sculpting by F-BAR Domains Studied by Molecular Dynamics...
The structure of the Myo4p globular tail and its function in ASH1 mRNA localization | JCB
CATH: Protein Structure Classification Database at UCL
The Regulation of Cellulose Biosynthesis in Plants | Plant Cell
Interdomain association in fibronectin: insight into cryptic sites and fibrillogenesis. - Oxford Neuroscience
Thousands of rare mutations linked with cancer revealed in new analysis
SDSL-EPR Structural Studies of the Cytoplasmic Helix in Novel Full-Length Constructs of the Influenza A M2 Protein
Systematic domain-based aggregation of protein structures highlights DNA-, RNA- and other ligand-binding positions. |...
RNAiDB Tree View
TCDB » SEARCH
TCDB » SEARCH
Cytoplasmic domain requirements for Frazzled-mediated attractive axon turning at the Drosophila midline | Development
Protein tertiary structure
A number of tertiary structures may fold into a quaternary structure. The science of the tertiary structure of proteins has ... Protein tertiary structure is the three dimensional shape of a protein. The tertiary structure will have a single polypeptide ... The interactions and bonds of side chains within a particular protein determine its tertiary structure. The protein tertiary ... Contemporary methods are able to determine, without prediction, tertiary structures to within 5 Å (0.5 nm) for small proteins ( ...
Genetics
"Protein structure: Primary, secondary, tertiary & quatrenary (article)". Khan Academy. Retrieved 28 September 2022. Stratmann ... 2002), I.3. Proteins: The Shape and Structure of Proteins Alberts et al. (2002), I.3. Proteins: Protein Function Archived 25 ... without changing the structure of the protein itself). Protein structure is dynamic; the protein hemoglobin bends into slightly ... Some are simple structural molecules, like the fibers formed by the protein collagen. Proteins can bind to other proteins and ...
Ovotransferrin
Disulfide groups stabilize the tertiary structures of proteins. Transferrins are iron binding proteins and acute phase ... Protein articles without symbol, Blood proteins, Storage proteins, Avian proteins). ... This process is determined by the structure of the protein backbone and the carbohydrate attachment site. In addition, ... Consequently, structurally this protein differs from its serum counterpart because of its glycosylation pattern. These proteins ...
Structure validation
Ponder JW, Richards FM (1987). "Tertiary templates for proteins. Use of packing criteria in the enumeration of allowed ... PSVS Protein Structure Validation Server at the NESG based on information retrieval statistics PROSESS PROSESS (Protein ... Protein Structure Evaluation Suite & Server ResProx - protein model resolution-by-proxy Cyro-EM EM Data Bank, for EM map ... protein model resolution-by-proxy VADAR - Volume, Area, Dihedral Angle Reporter NMR PSVS (Protein Structure Validation Server ...
Kenneth M. Merz Jr.
The Protein Folding Problem and Tertiary Structure Prediction K. M. Merz, Jr.; S. M. LeGrand Eds.; Birkhaüser: Boston, MA, 1994 ... 1994). The Protein Folding Problem and Tertiary Structure Prediction. Birkhäuser Basel. ISBN 978-1-4684-6833-5. Merz, Jr, ... Structure, Function and Dynamics of Lipid Bilayers K. M. Merz, Jr.; B. Roux Eds.; Birkhaüser: Boston, MA, 1996. Structure-Based ... A Second Generation Force Field for the Simulation of Proteins, Nucleic Acids and Organic Molecules; W. D. Cornell; P. Cieplak ...
Protein biosynthesis
This secondary structure then folds to produce the tertiary structure of the protein. The tertiary structure is the proteins ... In the tertiary structure, key protein features e.g. the active site, are folded and formed enabling the protein to function. ... The primary structure of a protein (the polypeptide chain) can then fold or coil to form the secondary structure of the protein ... "Protein structure: Primary, secondary, tertiary & quaternary (article)". Khan Academy. Retrieved 11 March 2020. "proteolysis , ...
Globular protein
The spherical structure is induced by the protein's tertiary structure. The molecule's apolar (hydrophobic) amino acids are ... Even in the protein's denatured state, it can be folded into the correct structure. Globular proteins seem to have two ... In biochemistry, globular proteins or spheroproteins are spherical ("globe-like") proteins and are one of the common protein ... Regulatory roles are also performed by globular proteins rather than fibrous proteins. Structural proteins, e.g., actin and ...
Protein-protein interaction prediction
Aloy, P.; Russell, R. B. (2003). "InterPreTS: protein Interaction Prediction through Tertiary Structure". Bioinformatics. 19 (1 ... Interactome Protein-protein interaction Protein function prediction Protein structure prediction Protein structure prediction ... "Prediction of protein-protein interactions by combining structure and sequence conservation in protein interfaces". ... The field of protein-protein interaction prediction is closely related to the field of protein-protein docking, which attempts ...
Conformational epitope
The latter is known as the tertiary structure of a protein. So, whenever a receptor interacts with an undigested antigen, the ... Antigens are usually proteins that are too large to bind as a whole to any receptor so only specific segments, that form the ... Proteins are composed of repeating nitrogen-containing subunits called amino acids that in nature do not exist as straight ... Antigen Linear epitope Epitope mapping, finding (on an antigen protein) the epitope(s) for a specific antibody Goldsby, Richard ...
C3orf14
This protein is also predicted as a DNA binding protein. The protein may assume a tertiary structure of a coiled coil. ... The amino acid structure is highly conserved through mammals, and the secondary and tertiary structure is highly conserved in ... protein name). The mRNA is composed of 6 exons, and encodes a 15007.84 kD protein known as HT021. This protein has a pre- ... Its protein is expected to localize to the nucleus and bind DNA. Orthologs have been identified in all of the major animal ...
Uncharacterized protein C15orf32
I-TASSER was used to predict the tertiary structure. The top model predicted eight alpha helices, including one between amino ... "I-TASSER server for protein structure and function prediction". zhanglab.ccmb.med.umich.edu. Retrieved 2020-05-03. "Phobius". ... Uncharacterized Protein C15orf32 is a protein which in humans is encoded by the C15orf32 gene and is located on chromosome 15, ... Possible secondary structures of the 5' and 3' untranslated region in C15orf32 mRNA is given to the left and was predicted by ...
Electron transfer
1285-1288; Protein electron transfer rates set by the bridging secondary and tertiary structure; doi:10.1126/science.1656523 ( ... In proteins, ET rates are governed by the bond structures: the electrons, in effect, tunnel through the bonds comprising the ... Especially in proteins, electron transfer often involves hopping of an electron from one redox-active center to another. The ... chain structure of the proteins. Electron equivalent Electrochemical reaction mechanism Solvated electron "Metals". Bitesize. ...
VXN
The secondary and tertiary structure of this protein is not well known. Vexin is considered rich in arginine, and poor in ... The isoelectric point of the protein is 10.42 which indicates the pH of the protein is basic. Vexin does contain a domain of ... Vexin is a protein encoded by VXN gene. VXN is found to be highly expressed in regions of the brain and spinal cord. VXN is ... The orthologs of vexin all show conservation of the SH3 protein domain family as well as a domain of unknown function (DUF4648 ...
Multiple Epidermal Growth Factor-like Domains 8
... ß propeller tertiary structure of the protein. Leucine Zipper: A motif found in regulatory proteins, as predicted by PSORT II ... One of the key attributes of MEGF8's tertiary structure is its 7-bladed beta propeller which is formed by the kelch motif found ... The high levels of cysteine residues contributes to the numerous disulfide bonds found in the mature protein's folded structure ... Retrieved 24 April 2014.[permanent dead link] Kelley LA, Sternberg MJ (26 February 2009). "Protein structure prediction on the ...
PRR32
Shown to the right is a predicted tertiary structure of the protein. It is marked by long alpha-helices localized to the end of ... via sugar-binding proteins. The graph illustrates predicted N-glyc sites across the protein chain (x-axis represents protein ... PRR32 is a protein that in humans is encoded by the CXorf64 (Chromosome X Open Reading Frame 64) gene. It was also found that ... A list was generated of orthologs using the NCBI (protein) blast for PRR32, as well as UCSC's BLAT (BLAST-Like Alignment Tool. ...
Joe Betts-LaCroix
Beratan, DN (1991). "Protein electron transfer rates set by the bridging secondary and tertiary structure". Science. 252 (5010 ... time that electron-transfer rates in proteins are determined by the electron orbital interactions in the protein structure. In ...
TCAIM
Shown to the right is a predicted tertiary structure of the protein. It is composed mostly of long alpha-helices with several ... The I-TASSER Suite: Protein structure and function prediction. Nature Methods, 12: 7-8, 2015. Uhlén M et al, 2015. Tissue-based ... 2001). "Toward a Catalog of Human Genes and Proteins: Sequencing and Analysis of 500 Novel Complete Protein Coding Human cDNAs ... The protein is initially cleaved to remove the 26 amino acids from the N-terminus. This represents a signal peptide after it is ...
Thioredoxin
... is a 12-kD oxidoreductase protein. Thioredoxin proteins also have a characteristic tertiary structure termed the ... "Structural basis for target protein recognition by the protein disulfide reductase thioredoxin". Structure. 14 (11): 1701-10. ... "Identification of thioredoxin-binding protein-2/vitamin D(3) up-regulated protein 1 as a negative regulator of thioredoxin ... Thioredoxin proteins move from cell to cell, representing a novel form of cellular communication in plants. Thioredoxin has ...
C10orf67
Shown to the right is a predicted tertiary structure of the protein. It is marked by long alpha-helices with several coil ... "uncharacterized protein C10orf67, mitochondrial [Homo sapiens] - Protein - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2017-05-05. " ... The protein is initially cleaved to remove the 36 amino acid N-terminal signal peptide after it is localized to the ... "PHYRE2 Protein Fold Recognition Server". www.sbg.bio.ic.ac.uk. Retrieved 2017-05-05. "GDS4794 / 1553845_x_at". www.ncbi.nlm.nih ...
S4 protein domain
In this way proteins serve to organise and stabilise the rRNA tertiary structure. The function of the S4 domain is to be an RNA ... Davies C, Gerstner RB, Draper DE, Ramakrishnan V, White SW (1998). "The crystal structure of ribosomal protein S4 reveals a two ... In molecular biology, S4 domain refers to a small RNA-binding protein domain found in a ribosomal protein named uS4 (called S9 ... this protein domain delivers nucleotide-modifying enzymes to RNA and to regulates translation through structure specific RNA ...
Protein quaternary structure
Protein folding prediction programs used to predict protein tertiary structure have also been expanding to better predict ... classification level of protein structure. Protein quaternary structure refers to the structure of proteins which are ... protein-protein interaction when discussing quaternary structure of proteins and consider all assemblies of proteins as protein ... not all proteins will have a quaternary structure since some proteins function as single units. Protein quaternary structure ...
[email protected]
... was a volunteer computing project that used BOINC software to predict protein structure from protein sequence in ... Whereas the latter aims to study the dynamics of protein folding, [email protected] aimed to specify what the final tertiary ... However, for a time, [email protected] competed with other BOINC protein structure prediction projects, such as [email protected] Each ... List of volunteer computing projects [email protected] SIMAP Grid computing Protein structure prediction "BOINC: [email protected] Team ...
Ribosomal L28e protein family
In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and ... Ribosomal L28e protein family is a family of evolutionarily related proteins. Members include 60S ribosomal protein L28. ... Human genes encoding protein containing this domain include RPL28. Ramakrishnan V, Moore PB (April 2001). "Atomic structures at ... Wool IG, Chan YL, Paz V, Olvera J (August 1990). "The primary structure of rat ribosomal proteins: the amino acid sequences of ...
Conformational isomerism
Folding, including the secondary and tertiary structure of biopolymers (nucleic acids and proteins). Akamptisomerism - due to ... Dunbrack, R. L.; Cohen, F. E. (1997). "Bayesian statistical analysis of protein side-chain rotamer preferences". Protein ... Protein folding also generates stable conformational isomers which can be observed. The Karplus equation relates the dihedral ... Protein side chains exhibit rotamers, whose distribution is determined by their steric interaction with different conformations ...
Protein function prediction
It is vital that the protein crystal maintains its tertiary structure in each solvent. This process is repeated for multiple ... Gene prediction Protein-protein interaction prediction Protein structure prediction Structural genomics Functional genomics ... protein domain structures, text mining of publications, phylogenetic profiles, phenotypic profiles, and protein-protein ... doi:10.1093/protein/11.9.739. PMID 9796821. Wang S, Ma J, Peng J, Xu J (March 2013). "Protein structure alignment beyond ...
Protein fold class
... protein fold classes are broad categories of protein tertiary structure topology. They describe groups of proteins that share ... Small proteins typically have a tertiary structure that is maintained by disulphide bridges (cysteine-rich proteins), metal ... They are one of the common types of protein along with soluble globular proteins, fibrous proteins, and disordered proteins. ... or by making calculated variations on a known protein structure and its sequence (known as protein redesign). Rational protein ...
Triple helix
Fidler AL, Boudko SP, Rokas A, Hudson BG (April 2018). "The triple helix of collagens - an ancient protein structure that ... Theimer CA, Blois CA, Feigon J (March 2005). "Structure of the human telomerase RNA pseudoknot reveals conserved tertiary ... Brodsky B, Persikov AV (2005-01-01). "Molecular structure of the collagen triple helix". Advances in Protein Chemistry. 70: 301 ... For example: the beginning of a helical protein is its N terminus, and the beginning of a single strand of DNA is its 5' end. ...
Polymer backbone
Further interactions between residues of the individual amino acids form the protein's tertiary structure. For this reason, the ... The sequence of the amino acids in the polypeptide backbone is known as the primary structure of the protein. Like almost all ... primary structure of the amino acids in the polypeptide backbone is the map of the final structure of a protein, and it ... "Computational reconstruction of atomistic protein structures from coarse-grained models". Computational and Structural ...
Citrullination
Thus, arginine's positive charge (at physiological pH) is removed, altering the protein's tertiary structure. The reaction uses ... This increases the hydrophobicity of the protein, which can lead to changes in protein folding, affecting the structure and ... autoantibodies often attack citrullinated proteins. The presence of anti-citrullinated protein antibody is a standard test for ... Citrullinated proteins are also found in the cellular debris accompanying the destruction of cells in alzheimer disease, and ...
Biology
Finally, multiple tertiary structures can combine to form the quaternary structure of a protein. Nucleic acids are polymers ... Proteins have four distinct levels of organization (primary, secondary, tertiary, and quartenary). The primary structure ... The folding of alpha helices and beta sheets gives a protein its three-dimensional or tertiary structure. ... giving rise to the secondary structure of a protein. The two common types of secondary structures are alpha helices and beta ...
On the tertiary structure of the protein layers of chloroplasts - NASA/ADS
Secondary and Tertiary Protein Structure | SGS Italy
Gain a comprehensive view of secondary and tertiary protein structures in a biopharmaceutical formulation with SGS. Find out ... tertiary or 3D structure), folding (secondary structure) and proper subunit association (quaternary structure). Collectively, ... Life Sciences Secondary and Tertiary Protein Structure. SGS combines biophysical techniques with more sensitive orthogonal ... To gain accurate analysis of your secondary and tertiary protein structure, contact us today. ...
Write a short note about the tertiary structure of proteins?
The tertiary structure of a protein is stabilized by hydrophobic interactions, electrostatic forces (salt bridges), and ... Tertiary structure specifies the spatial layout of amino acids that are far apart in the linear structure as well as those ... The arrangement of amino acids specifies the ultimate 3 -D structure of any specific protein. The polypeptide chain folds ... Find out a qualitative test for proteins, fats and oils, and starch amino acids and test any fruit juice, saliva, sweat, and ...
What Are Proteins? Primary, Secondary, Tertiary, and Quaternary Structure - Owlcation
What is the secondary structure of a protein? What is tertiary for that matter? This article answers these questions and more. ... Tertiary Structure. The structure of a protein in 3D space is what defines its function:. *A hormone must fit its receptor ... Levels of Protein Structure. We have already discovered that the primary structure of a protein is the sequence of amino acids ... The secondary structures have now folded to occupy a specific 3D space - this is tertiary structure and is vital to the ...
Glossary | Appendix | Environmental Guidelines | Guidelines Library | Infection Control | CDC
A possible configuration (tertiary structure) of a protein molecule. With respect to prion proteins, the molecules with large ... Prions are considered to consist of protein only, and the abnormal isoform of this protein is thought to be the agent that ... A structure engineered to receive accumulated heat from ventilation systems and equipment and transfer this heat to water, ... Viruses whose particle diameter is ,50 nm and whose outer surface is the protein of the particle itself and not that of host ...
Potent inhibitors of a shikimate pathway enzyme from Mycobacterium tuberculosis: combining mechanism- and modeling-based design
Protein Structure, Tertiary * Shikimic Acid / chemistry * Shikimic Acid / metabolism * Structure-Activity Relationship ... The crystal structure of the DAH7PS-inhibitor complex was solved to 2.35 Å. Both the position of the inhibitor and the ... This structure also identifies a water molecule that is located in the appropriate position to attack the re face of P- ... conformational changes of active site residues observed in this structure correspond closely to the predictions from the ...
Development and analysis of the parallel ant colony optimization algorithm for solving the protein tertiary structure...
Development and analysis of the parallel ant colony optimization algorithm for solving the protein tertiary structure ... Parallel ant colony optimization algorithm for solving protein tertiary structure prediction problem given its amino acid ... Ключові слова: combinatorial optimization, protein tertiary structure prediction, ant colony optimization, parallel algorithms ...
Effect of low complexity regions within the PvMSP3α block II on the tertiary structure of the protein and implications to...
Both the predicted tertiary structure of the protein and the phylogenetic trees based on this region were influenced by the ... Low complexity regions (LCRs) provide plasticity in surface proteins of Plasmodium species, but its implication in vaccine ... Plasmodium vivax merozoite surface protein 3α (PvMSP3α) is a promising vaccine candidate which has shown strong association ... Effect of low complexity regions within the PvMSP3α block II on the tertiary structure of the protein and implications to ...
Biblio | Page 2 | Linus Pauling Institute | Oregon State University
Protein Structure, Tertiary. Sowell J, Frei B, Stevens JF. 2004. Vitamin C conjugates of genotoxic lipid peroxidation products ... Proto-Oncogene Proteins c-akt. Zhang W-J, Wei H, Hagen T, Frei B. 2007. Alpha-lipoic acid attenuates LPS-induced inflammatory ... Protein Phosphatase 2. Smith AR, Visioli F, Frei B, Hagen TM. 2006. Age-related changes in endothelial nitric oxide synthase ... Protein Conformation. Sowell J, Frei B, Stevens JF. 2004. Vitamin C conjugates of genotoxic lipid peroxidation products: ...
Evolution-guided mutagenesis of the cytoplasmic incompatibility proteins: Identifying CifA's complex functional repertoire and...
Two proteins, CifA and CifB, underlie the genetic basis of CI and rescue, but how amino acid sites across these proteins ... The results of this study reveal a phenotypic complexity underlying the expression of these proteins and provide relevance to ... I-TASSER generated protein tertiary structure predictions for Cif proteins and their mutants using the on-line server with ... Protein structure prediction Is the Subject Area "Protein structure prediction" applicable to this article? Yes. No. ...
Aiden Eliot Shearer, M.D. | Harvard Catalyst Profiles | Harvard Catalyst
Quiz 3 Ch. 5,6 - ProProfs Quiz
A protein with tertiary structure. *. B. A lipid made of three fatty acids and glycerol ... Molecular Structure Of Chemistry Molecular Structure Of Chemistry Chapter 2 Molecules of life - water, minerals and ... At which level of protein structure are interactions between R groups most important? ... A change in a proteins three-dimensional shape or conformation due to disruption of hydrogen bonds, disulfide bridges, and ...
NIOSHTIC-2 Search Results - Full View
02133384 | Yearbooks 2016 | University of Pretoria
... tertiary and quaternary structure of proteins. Interactions that stabilise protein structure, denaturation and renaturation of ... Atomic structure and periodicity. Molecular structure and chemical bonding using the VSEOR model. Nomenclature of iorganic ions ... Proteins. Lipids. Water. Chemical and nutritional aspects of food processing: implications of different processing techniques ... Practical: Molecular structure (model building), synthesis and properties of simple organic compounds. ...
Intrinsically disordered proteins (IDP) and unfolded proteins
... and unfolded proteins. A large class of proteins has no defined tertiary structure. These proteins have structured parts (or ... Structured proteins can be unfolded (e.g. by temperature, pressure or chemically) to examine stable unfolded intermediates, ... As an extreme case a complete unstructured protein should behave as a stiff random polymer chain [1-3]. Structure and dynamics ... Knowledge on dynamics is important to understand the structuring process prior to function, the dynamics of folding or the ...
2022-2023 Graduate Calendar - Biotechnology
... secondary and tertiary protein structure prediction; quantitative structure activity relationships; bioinformatics. *BTEC 5P22 ... Focus on protein and lipid dynamics, protein and lipid interactions, protein conformational changes associated with enzymatic ... Structure and dynamics of macromolecules Physical and theoretical approaches to understanding structure and function of ... enzyme/protein structure and function, in addition to cellular and molecular biology. Research areas in the Chemical ...
RCSB PDB - 1AKP: SEQUENTIAL 1H,13C AND 15N NMR ASSIGNMENTS AND SOLUTION CONFORMATION OF APOKEDARCIDIN
Highly similar tertiary structures have been previously reported for the related proteins neocarzinostatin, macromomycin, and ... Chemistry and Structure Elucidation of the Kedarcidin Chromophore. Leet, J.E., Schroeder, D.R., Langley, D.R.,& ... a preliminary model of apokedarcidin built using the program CONGEN starting from the X-ray structure of the homologous protein ... A qualitative analysis of the secondary structure is presented on the basis of 3J alpha NH coupling constants, deviations of ...
"Protein-Surface Interactions with Coarse-Grain Simulation Methods" by Shuai Wei
... the protein could both keep a stable structure and a good orientation, allowing active sites to be available to other proteins ... orthogonal-bundle proteins, same analysis is performed for proteins from other structure motifs. Besides the study in these ... The results showed that protein stabilities and structures are dependent on the types of surfaces and their different ... The result showed that by tethering a protein on a surface, the melting temperature of a part of the protein changed, which ...
Structural basis of BMP signalling inhibition by the cystine knot protein Noggin | Nature
Here we report the crystal structure of the antagonist Noggin bound to BMP-7, which shows that Noggin inhibits BMP signalling ... So far, the three-dimensional structures of BMP antagonists and the structural basis for inactivation have remained unknown. ... The interplay between bone morphogenetic proteins (BMPs) and their antagonists governs developmental and cellular processes as ... Russell, R. B. & Barton, G. J. Multiple protein sequence alignment from tertiary structure comparison: assignment of global and ...
Description | Biosciences | University of Exeter
mechanisms of protein synthesis;. *primary, secondary, tertiary and quaternary structure of proteins; ... You will study protein structure, enzyme kinetics and basic metabolism; understanding how each of these processes function and ... This module aims to teach you core concepts in biochemistry including topics on structure of proteins, enzyme kinetics and ... 2. Recall the range and structures of biological molecules. *3. Summarise the relationship between chemical structure and ...
FORCASP • View topic - T0498 and T0499
Protein folding
... is the physical process by which a polypeptide folds into its characteristic three-dimensional structure.[1] ... Computational prediction of protein tertiary structure De novo or ab initio techniques for computational protein structure ... Proteins. Protein biosynthesis - Posttranslational modification - Protein folding - Protein structure - Protein structural ... Protein methods - Proteasome List of types of proteins - List of proteins - Membrane protein - Globular protein - Fibrous ...
Viruses as Modulators of Mitochondrial Functions
All these processes involve the participation of cellular proteins, mitochondrial proteins, and virus specific proteins. This ... Others modulate the permeability transition pore and either prevent or induce the release of the apoptotic proteins from the ... hijack the host mitochondrial proteins to function fully inside the host cell. ... Some viruses encode the Bcl2 homologues to counter the proapoptotic functions of the cellular and mitochondrial proteins. ...
Mutating the converter-relay interface of Drosophila myosin perturbs ATPase activity, actin motility, myofibril stability and...
CV HAL : Yvan Rahbé @ HAL
"Protein Structure, Tertiary" "Histidine" Françoise Vilaine Journal articles1 document. * Julie Beneteau, Denis Renard, Laurent ... Affinity Binding Sites Molecular Sequence Data Arabidopsis Proteins Polysaccharides Animals Plant Lectins Protein Binding ... Oligopeptides Acetylglucosamine Protein Biosynthesis Aphids Arabidopsis Histidine Plant Exudates Amino Acid Sequence ...
This could be the most ludicrous version of the 'toxins' gambit I've ever seen | ScienceBlogs
Is there anyone else who doesnt believe sodium chloride can alter the tertiary structure of a protein in a aqueous medium? ... MJD: "Is there anyone else who doesnt believe sodium chloride can alter the tertiary structure of a protein in a aqueous ... All food protein contaminated vaccines AND all vaccines that contain bacterial proteins that can cross react with food proteins ... vinu @79: " all vaccines that contain bacterial proteins that can cross react with food proteins". If bacterial proteins can ...
Antimicrobial Capacity of Plant Polyphenols against Gram-positive Bacteria: A Comprehensive Review
| Bentham...
... modelling protein tertiary and quaternary structure using evolutionary information. Nucleic Acids Res., 2014, 42(W1), W252-8. [ ... I. Structure of Davicratinic Acid A and Effects of Davidia Tannins on Drug-Resistant Bacteria and Human Oral Squamous Cell ... Santiago, C.; Pang, E.L.; Lim, K.H.; Loh, H.S.; Ting, K.N. Inhibition of penicillin-binding protein 2a (PBP2a) in methicillin ... Yuan, B.; Cheng, A.; Wang, M. Polysaccharide export outer membrane proteins in Gram-negative bacteria. Future Microbiol., 2013 ...
Slow Clearance of Plasmodium falciparum in Severe Pediatric Malaria, Uganda, 2011-2013 - Volume 21, Number 7-July 2015 -...
Computational modeling suggests that A578S should considerably affect the tertiary structure of the K13 protein, thereby ... Results were aligned to reference PF3D7 kelch protein, putative (PF13_0238) mRNA, complete coding sequence (National Center for ... Slow-clearing parasites also exhibited decreased expression of proteins involved in DNA replication and decelerated development ... Various single amino acid substitutions in the K13 protein are associated with a mean increase of 116% in the parasite ...
Quaternary structureMoleculesPredictionMitochondrial proteinsAmino acidPeptidesMetabolismOxidative stressPolypeptideSynthesisLinear chains of amino acidsGlobular proteinsStructuralHydrogenLipidsChemistryMutationPeptideBiologicalLipidCrystallographyCarbohydratesHeat shock prBone morphogeBlocks of proteinsGenesMolecularPrimaryEscherichiaChainsInteractionsSecondary structuresDisulfide bondsResiduesStabilityDimensionalAlpha helicesMoleculeBiophysicalConformation-specificSubunitsTissuesEnzymeDevelopmentalAlbuminBiologyTransmembraneLigandCytoplasmicBiopharmaceuticalFunctionalCystine knotFunctionMechanismEssential aminoInhibitionFatsXenopusPotentQuestionnaireInactive
Quaternary structure9
- In order to maintain potency and activity, some of the most critical parameters to maintain are protein conformation (tertiary or 3D structure), folding (secondary structure) and proper subunit association (quaternary structure). (sgsgroup.it)
- The quaternary structure of the insulin hormone. (owlcation.com)
- When more than one polypeptide chain join forces for a common cause, quaternary structure is born. (owlcation.com)
- The classic examples of proteins with quaternary structure are haemoglobin, collagen and insulin. (owlcation.com)
- The haem groups in the quaternary structure of the haemoglobin molecule combine with oxygen to form oxyhaemoglobin. (owlcation.com)
- Formation of quaternary structure usually involves the "assembly" or "coassembly" of subunits that have already folded. (bionity.com)
- Protein synthesis, folding, and tertiary and quaternary structure ultimately determine much of the body's structure and function. (merckmanuals.com)
- Secondary, tertiary and quaternary structure is often collectively termed as the higher order structure (HOS) of a protein. (malvernpanalytical.com)
- Arrangement of the multiple polypeptides in space results the quaternary structure of a protein. (differencebetween.com)
Molecules9
- By analyzing these properties, we can provide you with valuable information on secondary, tertiary and quaternary structures of protein molecules, such as monoclonal antibodies, and provide evidence that the molecule maintains conformational stability. (sgsgroup.it)
- structure and bonding in organic molecules. (exeter.ac.uk)
- The most important of them are the porins, which freely allow the transport (export and import) of the molecules (proteins, ions, nutrients, and ATP) less than 10 kDa across the membranes. (hindawi.com)
- Most folded proteins have a hydrophobic core in which side chain packing stabilizes the folded state, and charged or polar side chains on the solvent-exposed surface where they interact with surrounding water molecules. (bionity.com)
- For the most part, scientists have been able to study many identical molecules folding together en masse . (bionity.com)
- The need to retrieve or classify protein molecules using structure or sequence-based similarity measures underlies a wide range of biomedical applications. (biomedcentral.com)
- Several amino acids are linked together to form a peptide by peptide bonds, while several peptides are linked together to form protein molecules. (differencebetween.com)
- Class I and class II molecules allow antigen presentation to the specific T-cell receptor via a specific structural groove in its tertiary structure. (medscape.com)
- Class III MHC molecules include several proteins with other immune functions, such as cytokines, heat shock proteins, and parts of complement system. (medscape.com)
Prediction5
- Parallel ant colony optimization algorithm for solving protein tertiary structure prediction problem given its amino acid sequence is introduced. (org.ua)
- To test the expandability of the protein stability prediction pattern derived for mainly-alpha, orthogonal-bundle proteins, same analysis is performed for proteins from other structure motifs. (byu.edu)
- Looks like it is fair to cancel these two proteins for server prediction. (predictioncenter.org)
- Using established prediction algorithms, we localized the IDRs in Ca V 3.2 protein and identified several Ca V 3.2iPA candidates that significantly reduced Ca V 3.2 current in HEK293 cells stably expressing human wide-type Ca V 3.2. (lww.com)
- I am running structure prediction of a protein whose tertiary structure is unknown. (rosettacommons.org)
Mitochondrial proteins5
- Some viruses encode the Bcl2 homologues to counter the proapoptotic functions of the cellular and mitochondrial proteins. (hindawi.com)
- Viruses like Herpes simplex virus 1 deplete the host mitochondrial DNA and some, like human immunodeficiency virus, hijack the host mitochondrial proteins to function fully inside the host cell. (hindawi.com)
- All these processes involve the participation of cellular proteins, mitochondrial proteins, and virus specific proteins. (hindawi.com)
- Although the majority of the mitochondrial proteins are encoded by nuclear DNA and imported into the mitochondria (reviewed by [ 21 , 28 - 31 ]), mitochondria synthesize few proteins that are essential for their respiratory function [ 1 , 27 ]. (hindawi.com)
- Genetic variations in multiple parts of the mitochondrial genome may contribute to structural and functional differences in mitochondrial proteins, leading to oxidative stress in cells that then predisposes them to further damage. (bmj.com)
Amino acid13
- Draw the structure of the amino acid alanine. (elitedigitalstudy.com)
- Two proteins, CifA and CifB, underlie the genetic basis of CI and rescue, but how amino acid sites across these proteins contribute to CI and/or rescue remain unknown. (plos.org)
- Structure and dynamics within the unfolding process and for the unfolded protein are influenced by geometrical restrictions as remaining disulfide bonds (see animation of unfolded Ribonuclease A with 4 disulfide bonds), by charges on the amino acid strand or by stiffer regions with e.g. a preserved secondary structure. (fz-juelich.de)
- Proteins destined to mitochondria have either internally localized [ 28 ] or amino terminal localized [ 21 ] presequences known as mitochondria/matrix localization signals (MLS), which can be 10-80 amino acid long with predominantly positively charged amino acids. (hindawi.com)
- The amino-acid sequence (or primary structure ) of a protein predisposes it towards its native conformation or conformations. (bionity.com)
- Various single amino acid substitutions in the K13 protein are associated with a mean increase of 116% in the parasite clearance half-life (t 1/2 ) ( 4 ). (cdc.gov)
- Read Online Amino Acid Metabolism Mcqs And Answers Multiple Choice Questions- Amino acid and protein chemistry 1-A mutation has changed an isoleucine residue of a protein to Glutamic acid, which statement best describes its location in a endobj Biology MCQs for Class 12 Chapter Wise with Answers PDF Download was Prepared Based on Latest Exam Pattern. (jacquidankworth.com)
- During the development of proteins for use as biologics, the primary structure (amino acid sequence) is important in defining protein activity. (malvernpanalytical.com)
- Particular gene sequence is used to determine the amino acid sequence in both peptides and proteins. (differencebetween.com)
- The sequence of amino acid determines the major characteristics of a protein, while this amino acid sequence is defined by the particular gene sequence. (differencebetween.com)
- The primary structure is the amino acid sequence of a protein. (differencebetween.com)
- Although they have 20 to 70% amino acid sequence identity, these proteins share a conserved tertiary structure comprised of ten beta sheets and two alpha helixes. (nottingham.ac.uk)
- Although the tertiary structures of Protein A and Protein G are very similar, their amino acid compositions differ significantly, resulting in different binding characteristics. (fishersci.com)
Peptides10
- Small peptides, especially those derived from natural proteins as inhibitory peptide aptamers (iPAs), can produce highly effective and selective blockade of specific nociceptive molecular pathways to reduce pain with minimal off-target effects. (lww.com)
- By contrast, peptides contain a low degree of tertiary structure. (sigmaaldrich.com)
- For this reason, peptides tolerate a much wider range of conditions than proteins. (sigmaaldrich.com)
- This basic difference in native structures is also reflected in that proteins are not easily renatured, while peptides often renature spontaneously. (sigmaaldrich.com)
- Amino acids, peptides, and proteins are often referred to as related terms, yet they are different in their characteristics. (differencebetween.com)
- Amino acids are the building blocks of both peptides and proteins. (differencebetween.com)
- Peptides are short linear chains of amino acids, whereas proteins are very long chains of amino acids. (differencebetween.com)
- In contrast, peptides are not organized in a stable three-dimensional structure. (differencebetween.com)
- Unlike peptides, proteins are considered as macromolecules. (differencebetween.com)
- All the peptides exist as linear chains while proteins can exist as primary, secondary, tertiary, and quaternary. (differencebetween.com)
Metabolism2
- One reason for falling hair, brittle hair or unmanageable hair is poor protein metabolism. (arltma.com)
- Problems of protein metabolism often result in weak or brittle nails. (arltma.com)
Oxidative stress2
- This thesis focuses primarily on mitochondrial uncoupling protein 2 (UCP2) for which we proposed a tertiary structure, and whose main role is control of the oxidative stress in the body. (unizg.hr)
- Physiologically, any bleaching therapy has the ability to increase free radical levels in the pulp-dentin complex, which may induce oxidative stress in odontoblasts and tertiary dentin formation. (bvsalud.org)
Polypeptide5
- Protein folding is the physical process by which a polypeptide folds into its characteristic three-dimensional structure . (bionity.com)
- [1] Each protein begins as a polypeptide , translated from a sequence of mRNA as a linear chain of amino acids. (bionity.com)
- This polypeptide lacks any developed three-dimensional structure (the left hand side of the neighboring figure). (bionity.com)
- A gene, the basic unit of heredity, is a segment of DNA containing all the information necessary to synthesize a polypeptide (protein). (merckmanuals.com)
- The polypeptide chains are folded into complicated three-dimensional (3D) structures. (biomedcentral.com)
Synthesis1
- A deficiency of this enzyme causes inadequate synthesis of essential proteins in the body, which can detrimentally affect hair and nails. (arltma.com)
Linear chains of amino acids1
- Proteins are linear chains of amino acids. (biomedcentral.com)
Globular proteins1
- [7] A well studied example is the bacterial GroEL system, which assists in the folding of globular proteins . (bionity.com)
Structural7
- structural proteins must be shaped to maximise mechanical strength. (owlcation.com)
- So far, the three-dimensional structures of BMP antagonists and the structural basis for inactivation have remained unknown. (nature.com)
- Over 70,000 X-ray and NMR structures are now available in protein structural repositories and no physico-chemical solution is in sight. (ias.ac.in)
- Recent reports of the crystal structure of the glycoprotein hormone human chorionic gonadotrophin show that cystine knots are proving to be versatile structural motifs that enable the construction of a variety of proteins with different functional properties. (embl.de)
- This extra level of organization increases the variety of structures built around this simple structural motif. (embl.de)
- Because the surfaces used for dimer formation are mostly hydrophobic, the uniqueness of each dimer accounts for the lack of sequence homology and raises questions about the effectiveness of reverse sequence fitting in this kind of structure as a predictor of structural homology. (embl.de)
- Both spectral and thermotropic data indicate that, in terms of structural hierarchy, these proteins can be divided into two distinct groups, gamma II and gamma IIIB belonging to one and gamma IIIA and gamma IVA to the other. (who.int)
Hydrogen5
- The regular alpha helix and beta sheet structures fold rapidly because they are stabilized by intramolecular hydrogen bonds, as was first characterized by Linus Pauling . (bionity.com)
- Proteins generally contain a high degree of tertiary structure, kept together by van der Waals' forces, ionic and hydrophobic interactions, and hydrogen bonding. (sigmaaldrich.com)
- Their native state is dominated by secondary structures, stabilized mainly by hydrogen bonding. (sigmaaldrich.com)
- The most common types of secondary structures are the α helix and the β pleated sheet, held in place by hydrogen bonds. (malvernpanalytical.com)
- The secondary structure is produced by forming hydrogen bonds between two nearby amino acids, thus resulting structures called β-plated sheets, and coils called α-helices. (differencebetween.com)
Lipids1
- It likely that one of the causes of these adverse effects are the free oxygen radicals released during the reaction, which do not act in a specific way and may act on the organic matrix of dental structures 13 , breaking up the lipids and proteins of dental tissues 14 . (bvsalud.org)
Chemistry1
- They knew their physical chemistry, and knew that a protein wasn't going to be important because you couldn't get enough of it into solution to lower the colligative freezing point. (chemistryworld.com)
Mutation1
- Systematic analysis of mutation distribution in three dimensional protein structures identifies cancer driver genes. (cdc.gov)
Peptide1
- Length of a peptide is less than approximately 100 amino acids, while that of a protein is more than 100 amino acids. (differencebetween.com)
Biological2
- Proteins are the most diverse group of biological macromolecules. (differencebetween.com)
- In the end, whole results indicated the biological function of the target protein to be an acetyltransfarase. (avensonline.org)
Lipid1
- Fatty acid-binding proteins (FABPs) are a family of fatty acid-binding small proteins essential for lipid trafficking, energy storage and gene regulation. (nottingham.ac.uk)
Crystallography2
Carbohydrates2
- Basidiocarps of A. hygrometricus are rich in proteins, carbohydrates, minerals, crude fibre and essential amino acids with lower concentration of fat. (fulltxt.org)
- 4 Edible mushrooms are low calorie-low fat food supplement with generous amount of proteins, carbohydrates, vitamins, minerals amino acids 5 and dietary fibre. (fulltxt.org)
Heat shock pr1
- In eukaryotic organisms chaperones are known as heat shock proteins . (bionity.com)
Bone morphoge4
- The interplay between bone morphogenetic proteins (BMPs) and their antagonists governs developmental and cellular processes as diverse as establishment of the embryonic dorsal-ventral axis, induction of neural tissue, formation of joints in the skeletal system and neurogenesis in the adult brain. (nature.com)
- Hogan, B. L. Bone morphogenetic proteins: multifunctional regulators of vertebrate development. (nature.com)
- So we're going to go through its inflammatory modulating effects of what's called BMPs, which I'm going to refer to pretty frequently throughout the presentation, that's called bone morphogenetic proteins. (chiroeco.com)
- So the complex itself is composed of what's called bone morphogenetic proteins. (chiroeco.com)
Blocks of proteins1
- A protein is composed of one or more long unbranched chains called polypeptides and yet the building blocks of proteins are amino acids. (differencebetween.com)
Genes4
- Availability of the complete genomes of 34 invertebrates, together with transcriptomes and ESTs, allowed us to systematically investigate the gene structure and alternative splicing of FABP genes over a wide range of phyla. (nottingham.ac.uk)
- The genomic loci for FABP genes were diverse and their genomic structure varied. (nottingham.ac.uk)
- Although, providing the massive amount of data by recent genome sequencing projects but many of these genomes are still not fully annotated as well as consist of genes/proteins with unknown function and structure. (avensonline.org)
- This group of genes code for proteins found on the surfaces of cells that help the immune system recognize foreign substances. (medscape.com)
Molecular4
- Here we report the crystal structure of the antagonist Noggin bound to BMP-7, which shows that Noggin inhibits BMP signalling by blocking the molecular interfaces of the binding epitopes for both type I and type II receptors. (nature.com)
- Protein folding, considered to be the holy grail of molecular biology, remains intractable even after six decades since the report of the first crystal structure. (ias.ac.in)
- Molecular simulation methodologies have evolved to a stage to provide a computational solution to the tertiary structures of small proteins. (ias.ac.in)
- The 2.57-Å structure reveals fine details for each molecular component within the Csy complex as well as the direct and water-mediated interactions between proteins and CRISPR RNA (crRNA). (osti.gov)
Primary6
- We have already discovered that the primary structure of a protein is the sequence of amino acids, determined by information encoded in DNA. (owlcation.com)
- When the chain pleats, the structure is called a beta-pleated sheet .The amount of coiling or pleating depends on the primary structure (sequence of amino acids. (owlcation.com)
- primary structure, in turn determined by DNA sequences) is vital to its function - but this shape can be distorted. (owlcation.com)
- The primary sequence of a protein defines its structure and function. (malvernpanalytical.com)
- HOS characterization is a critical component of biologics development and should be performed alongside functional analysis and primary structure characterization to allow a full understanding of the overall protein structure. (malvernpanalytical.com)
- The tertiary protein structure is generally conserved over longer time periods than the primary one. (pasteur.fr)
Escherichia1
- Sequence similarity was brought in through Protein Data Bank and non-redundant database using BLASTp program of NCBI and a search for templates revealed that yjaB shares 97% homology to a protein of Escherichia coli, indicating this protein is evolutionary conserved and was found with acetyltransfarase. (avensonline.org)
Chains1
- Mitochondria contain a single 16 kb circular DNA genome, which codes for 13 proteins (mostly subunits of respiratory chains I, II, IV, and V), 22 mitochondrial tRNAs and 2 rRNAs [ 25 , 26 ]. (hindawi.com)
Interactions8
- The tertiary structure of a protein is stabilized by hydrophobic interactions, electrostatic forces (salt bridges), and disulfide links. (elitedigitalstudy.com)
- Hydrophobic and Hydrophilic interactions - in the water based environment of the cell, the protein will fold so that water is excluded from hydrophobic regions (e.g. in the centre of the structure), with hydrophilic regions facing outwards in contact with water. (owlcation.com)
- At which level of protein structure are interactions between R groups most important? (proprofs.com)
- These findings suggest that electrostatic CL/cyt c interactions are central to the initiation of the peroxidase activity, while hydrophobic interactions are involved when cyt c's tertiary structure is lost. (cdc.gov)
- Understanding protein-surface interactions is key to improving the performance of protein microarrays, but current understanding of the behavior of proteins on surfaces is lacking. (byu.edu)
- For a next-level understanding of protein-surface interactions, a novel coarse-grain surface model was developed, parameterized, and validated according to experimental results from different groups. (byu.edu)
- Our findings support the convergent consequence of inhibiting degradation of invading DNA by these Acr proteins, albeit with different modes of interactions with the type I-F CRISPR-Cas system. (osti.gov)
- The intracellular domain communicates via protein-protein interactions against effector proteins , which in turn pass a signal to the destination. (ipfs.io)
Secondary structures2
- The secondary structures have now folded to occupy a specific 3D space - this is tertiary structure and is vital to the function of the protein. (owlcation.com)
- Three-dimensional structures and the secondary structures were predicted. (avensonline.org)
Disulfide bonds1
- 2. … C. It forms disulfide bonds in secreted proteins. (jacquidankworth.com)
Residues4
- Both the position of the inhibitor and the conformational changes of active site residues observed in this structure correspond closely to the predictions from the intermediate modeling. (nih.gov)
- Here, we use evolution-guided, substitution mutagenesis of conserved amino acids across the Cif proteins, coupled with transgenic expression in uninfected Drosophila melanogaster , to determine the functional impacts of conserved residues evolving mostly under purifying selection. (plos.org)
- Protein folding may involve covalent bonding in the form of disulfide bridges formed between two cysteine residues or the formation of metal clusters. (bionity.com)
- A hypothetical protein yjaB of these bacteria, consisting of 147 residues was picked out for in silico analysis. (avensonline.org)
Stability4
- As the start point of the research, part of this research showed that the stability of five mainly-alpha, orthogonal-bundle proteins tethered to surfaces can be correlated to the shape of the loop region where the tether is placed and the free rotation ability of the part of proteins near surfaces. (byu.edu)
- The immobilization of myoglobin in sodium alginate films was investigated with the aim of evaluating the protein stability in an ionic polymeric matrix. (scielo.br)
- Due to the complex nature of protein drugs, it is important to characterize the protein's higher-order structure (HOS) to understand its stability, folding, structure, and functional activity. (malvernpanalytical.com)
- Kinases can cause posttranslational modifications of the progesterone receptor (PR) to influence cellular localization and protein stability. (webpediatrica.com)
Dimensional9
- These interact with each other and their surroundings in the cell to produce a well-defined, three dimensional shape, the folded protein (the right hand side of the figure), known as the native state . (bionity.com)
- The resulting three-dimensional structure is determined by the sequence of the amino acids. (bionity.com)
- Experimentally determining the three dimensional structure of a protein is often very difficult and expensive. (bionity.com)
- For many proteins the correct three dimensional structure is essential to function. (bionity.com)
- Protein higher order structure (HOS) include the three-dimensional structures that are necessary for structure and function. (malvernpanalytical.com)
- The three-dimensional shape of a protein. (malvernpanalytical.com)
- Usually proteins have stable three dimensional structures. (differencebetween.com)
- The regions of secondary structure are then folded further in space to form the final three dimensional structures of the protein. (differencebetween.com)
- But, if the three-dimensional structure is yet undiscovered, then they can be classified based on experimentally verifiable membrane topology . (ipfs.io)
Alpha helices2
- Often folding involves first the establishment of regular secondary and supersecondary structures, particularly alpha helices and beta sheets , and afterwards tertiary structure . (bionity.com)
- In the majority of receptors with known structures, transmembrane alpha helices constitute most of the transmembrane component. (ipfs.io)
Molecule7
- This structure is extremely important - in the case of enzymes, any change to the shape of the molecule will deactivate the enzyme. (owlcation.com)
- Heating a protein increases the kinetic energy in the molecule (scientific term for movement energy). (owlcation.com)
- This structure also identifies a water molecule that is located in the appropriate position to attack the re face of P-enolpyruvate during the course of the reaction, allowing the catalytic mechanism for this enzyme to be clearly defined. (nih.gov)
- One of the following is optically found in protein molecule? (jacquidankworth.com)
- These subjects are dealt with in general terms in the Strategies for Protein Purification Handbook and more specifically according to target molecule in the handbooks Affinity Chromatography, Vol. 1: Antibodies, 18103746 and Vol. 2: Tagged Proteins, 18114275 available from Cytiva. (sigmaaldrich.com)
- This protein circulates in the bloodstream in an inactive form, bound to another molecule called von Willebrand factor, until an injury that damages blood vessels occurs. (medlineplus.gov)
- The Protein G molecule contains two binding domains. (fishersci.com)
Biophysical3
- SGS combines biophysical techniques with more sensitive orthogonal approaches to provide you with a comprehensive view of secondary and tertiary protein structures in a biopharmaceutical formulation. (sgsgroup.it)
- However, analytical monitoring of the protein conformation has been frequently omitted due to time constraints, the complexity of techniques commonly employed and the inherent lack of sensitivity to subtle changes shown by some biophysical methods. (sgsgroup.it)
- Therefore scientists have tried to use different biophysical techniques to manually fold a protein. (bionity.com)
Conformation-specific3
- Mononuclear cells were analyzed by immunoprecipitation or by flow-cytometric analysis, following incubation with a conformation-specific p53 antibody, which discriminates unfolded p53 tertiary structure. (elsevier.com)
- The IL-6 conformation of these deletion-carrying proteins has been studied by immunoprecipitation with two kinds of monoclonal antibodies (mAb's): mAb's that show preference towards denatured hIL-6, or conformation-specific mAb's. (uniparthenope.it)
- Proteins delta 21-51 and delta 127-174 have kept a part of the IL-6 tertiary structure since they are still recognized by some conformation-specific mAb's. (uniparthenope.it)
Subunits1
- These proteins can only function when all subunits are present. (owlcation.com)
Tissues2
- Terms for developmental and adult lung structures, tissues, and cells were included, providing comprehensive ontologies for application at varying levels of resolution. (biomedcentral.com)
- As a result, approximately 300 terms for fetal and postnatal lung structures, tissues, and cells were identified for each species. (biomedcentral.com)
Enzyme1
- This module aims to teach you core concepts in biochemistry including topics on structure of proteins, enzyme kinetics and metabolic pathways. (exeter.ac.uk)
Developmental1
- To our knowledge, these are the first ontologies designed to include terminology specific for developmental structures in the lung, as well as to compare common anatomic features and variations between mouse and human lungs. (biomedcentral.com)
Albumin1
- Recombinant Protein G has been modified to eliminate its binding to albumin. (fishersci.com)
Biology1
- In biology, identifying the tertiary structure of a protein helps determine its functions. (usp.ac.fj)
Transmembrane6
- Heliorhodopsin (HeR) is a seven-helical transmembrane protein with a retinal chromophore that corresponds to a new rhodopsin family. (bvsalud.org)
- Majority of proton transfers are mediated by transmembrane protein ADP/ATP translocator (AAC) and via mitochondrial uncoupling proteins 1-5 (UCP1-5). (unizg.hr)
- Transmembrane receptors are typically classified based on their tertiary structure . (ipfs.io)
- [2] [3] Many membrane receptors include transmembrane proteins . (ipfs.io)
- Like any integral membrane protein, a transmembrane receptor may be divided into three domains. (ipfs.io)
- In certain receptors, such as the nicotinic acetylcholine receptor , the transmembrane domain forms a protein pore through the membrane, or around the ion channel . (ipfs.io)
Ligand2
- Prior to ligand binding, the extracellular protein loses flexibility while the intracellular portion gains it. (ipfs.io)
- POROS™ MabCapture™ G Select Resin is a high-throughput, lower-priced Protein G chromatography resin manufactured using our own Protein G ligand to enable high-throughput purification performance. (fishersci.com)
Cytoplasmic1
- Subcellular localization predictions shows it is a cytoplasmic protein. (avensonline.org)
Biopharmaceutical1
- Furthermore, though less routine, the role of LC-MS in product characterization and structure elucidation of "unknowns" in both pharmaceutical and biopharmaceutical analysis is indispensable. (chromatographyonline.com)
Functional3
- While each protein is predicted to harbor three functional domains, there is no knowledge on how sites across these Cif domains, rather than in any one particular domain, contribute to CI and rescue. (plos.org)
- Whether sustained normocortisolism induced by medical therapy induces re-expression of functional sst 2 protein in corticotroph adenomas and whether this increases the ACTH-lowering potency of octreotide remains to be established. (webpediatrica.com)
- For these reason, otolaryngologists who undertake functional endoscopic sinus surgery almost routinely obtain a CT scan before undertaking surgery in order to evaluate the exact bony structures and the mucous membranes of patients. (ekjo.org)
Cystine knot1
- These proteins have very little sequence homology, but they all have an unusual arrangement of six cysteines linked to form a 'cystine-knot' conformation. (embl.de)
Function12
- We discuss how these findings advance an expanded view of Cif protein evolution and function, inform the mechanistic and biochemical bases of Cif-induced CI/rescue, and continue to substantiate the Two-by-One genetic model of CI. (plos.org)
- This class challenges the traditional structure-function paradigm. (fz-juelich.de)
- Knowledge on dynamics is important to understand the structuring process prior to function, the dynamics of folding or the function as an unstructured protein itself. (fz-juelich.de)
- An ensemble of 15 apokedarcidin solution structures has been generated by variable target function minimization (DIANA program) and refined by simulated annealing (X-PLOR program). (rcsb.org)
- The function of proteins depends on its native tertiary structure. (kindai.ac.jp)
- In order to clarify their function mechanism and regulate their function, we perform the structure determination of proteins and thermodynamic analysis. (kindai.ac.jp)
- The purpose of this exercise is to guide you through the process of finding information and making predictions about the structure and function of a protein given a gene for it. (ucsc.edu)
- Antifreeze proteins are of such potential commercial interest because they function quite differently to the typical antifreeze currently used to protect car engines, for example. (chemistryworld.com)
- Structure and function of the factor VIII gene and protein. (medlineplus.gov)
- Many bioinformatic tools were used to predict the 3D structure and function of this protein. (avensonline.org)
- Bioinformatics approach is an alternative to laboratory-based methods that makes of algorithms and databases to predict protein function. (avensonline.org)
- Researchers are using this special light to study the structure and function of energy and quantum materials. (helmholtz-berlin.de)
Mechanism3
- Besides the study in these small two-state proteins, a further analysis of surface-induced change of folding mechanism is also studied with a multi-state lysozyme protein 7LZM. (byu.edu)
- Besides the change of folding mechanism, by tethering the lysozyme protein to a certain site, the protein could both keep a stable structure and a good orientation, allowing active sites to be available to other proteins in bulk solution. (byu.edu)
- [2] The mechanism of protein folding is not completely understood. (bionity.com)
Essential amino1
- Basidiocarp of this macrofungi contains considerable amount of carbohydrate, protein, fibre, minerals, vitamins, essential amino acids and very minute concentration of fat. (fulltxt.org)
Inhibition2
- Für AROS konnte gezeigt werden, dass der mittlere Bereich des Proteins für die Inhibition verantwortlich ist. (uni-bayreuth.de)
- Inhibition of AKT or MEK1/2 increased total and nuclear PR protein in OSIS. (webpediatrica.com)
Fats2
- Find out a qualitative test for proteins, fats and oils, and starch amino acids and test any fruit juice, saliva, sweat, and urine for them. (elitedigitalstudy.com)
- Breast milk is a complete food that contains vitamins, minerals, fats, sugars, and proteins, and it is recommended for the proper nutrition of newborns. (bvsalud.org)
Xenopus1
- All those deletion-carrying hIL-6 (delta hIL-6) proteins were then produced in Xenopus laevis oocytes and examined by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). (uniparthenope.it)
Potent2
- Pyrrolidine dithiocarbamate is a potent antioxidant against hypochlorous acid-induced protein damage. (oregonstate.edu)
- One extensively studied species is an Alaskan beetle, Dendroides canadensis , which produces one of the most potent antifreeze proteins known. (chemistryworld.com)
Questionnaire1
- Information on sleep duration was obtained through a structured questionnaire interview. (jpmph.org)
Inactive1
- All of these delta hIL-6 proteins were inactive in the IL-6 hybridoma growth factor (HGF) assay and unable to inhibit the HGF activity of the recombinant human wild-type IL-6 (wt hIL-6). (uniparthenope.it)