Mutations predicts protein structure tertiary. Medical search. Frequent questions

Assessment is concentrated on the long-range contacts (separation of the interacting residues of at least 24 positions along the sequence) as these are the most valuable for structure prediction. (predictioncenter.org)
in the second, these lists are "padded" with zero-probabilities for pairs of residues that are not predicted as being in contact. (predictioncenter.org)
The mature form of the protein is predicted to contain three transmembrane domains and 204 residues. (nih.gov)
Based on a predicted model of UMAMIT29, we propose that the substrate transporting cavity consists of 51 residues, of which four are highly conserved residues across all the analyzed homologs of UMAMIT29. (frontiersin.org)
By comparing differentially conserved residues within the predicted cavities between glucosinolate-transporting and non-glucosinolate-transporting UMAMITs, we identify 11 candidate residues. (frontiersin.org)
To test this, we aligned 97 protein sequences consisting of homologs of UMAMIT clade I from 27 plant species and created sequence logos containing the 51 residues identified in the structural analysis ( Supplementary Figure 1 ). (frontiersin.org)
A molecular model of the FMDV 3A protein, derived from the nuclear magnetic resonance (NMR) structure of the poliovirus 3A protein, predicted a hydrophobic interface spanning residues 25 to 44 as the main determinant for 3A dimerization. (asm.org)
Replacements L38E and L41E, involving charge acquisition at residues predicted to contribute to the hydrophobic interface, reduced the dimerization signal in the protein ligation assay and prevented the detection of dimer/multimer species in both transiently expressed 3A proteins and in synthetic peptides reproducing the N terminus of 3A. (asm.org)
Replacements that favored (Q44R) or impaired (Q44D) the polar interactions predicted between residues Q44 and D32 did not abolish dimer formation of transiently expressed 3A, indicating that these interactions are not critical for 3A dimerization. (asm.org)
Here we predict the binding residues of such interprotein complexes. (ox.ac.uk)
We have developed a suite of methods, i-Patch, which predict the interprotein contact sites by considering the two proteins as a network, with residues as nodes and contacts as edges. (ox.ac.uk)
i-Patch then uses the propensities of patches of residues to interact, to predict interprotein contact sites. (ox.ac.uk)
Results from a case study, on bacterial chemotaxis protein complexes, demonstrate that our predictions can identify contact residues, as well as suggesting unknown interfaces in multiprotein complexes. (ox.ac.uk)
Post-translational modification of proteins at lysine residues by reversible acetylation is catalyzed by the opposing activities of histone acetyltransferases (HATs) and histone deacetylases (HDACs), which act on both histone and non-histone substrates despite their names. (biomedcentral.com)
The current view of protein folding and stability is largely based on SAXS and DLS data13-16 and the extensive exposure of hydropho- a generic structural classification into native (N), compact dena- bic residues suggested by the finding that the heat capacity of the tured or molten globule (MG), and unfolded or denatured (D) MG state is midway between that of the N and D states7 have been conformational states1-10. (lu.se)

Protein analyses examine the primary structure (amino acids) as well as the secondary folded structure, more complex tertiary structures, and protein interactions. (jax.org)
For example, the 3a protein was shown to induce apoptosis whereas the 9b and 9c proteins were suggested to be involved in membrane interactions during virion assembly and host-virus interactions, respectively. (biorxiv.org)
Computers and artificial intelligence (AI) cannot accurately predict the three-dimensional shape of proteins just looking at the sequence as the molecular interactions are too complicated. (medbalance-publishing.com)
Nowadays, my group develops researches in genomic and transcriptome annotation and mainly in structural bioinformatics, with development of algorithms for analyses of protein-protein interactions, and protein-DNA interactions. (cnpem.br)
Many of the protein-protein interactions (PPI) or intra protein interactions are mediated by interactions between domains and specific patterns of sequence. (cnpem.br)
Major research efforts in the field include sequence alignment, gene finding, genome assembly, drug design, drug discovery, protein structure alignment, protein structure prediction, prediction of gene expression and protein-protein interactions, genome-wide association studies, and the modeling of evolution. (limswiki.org)
Biological processes are commonly controlled by precise protein-protein interactions. (ox.ac.uk)
Considering the widely acknowledged Accordingly, theoretical models of the MG state invariably invoke importance of protein-solvent interactions for stability and fold- a substantial internal hydration20-22. (lu.se)

Relevant large fragments of mutations and methylation abnormalities were not found in the associated genes. (spandidos-publications.com)

9 Although there exists sequences homologous to the ORF10 protein in other closely related bat and pangolin CoVs, there are no experimentally derived crystallographic structures for the ORF10 protein. (biorxiv.org)
Students will be introduced to biological sequence data (DNA and protein sequences, whole genomes, learn to access major sequence databases and use a variety of web-based services. (uit.no)
If directed evolution becomes the new paradigm, will random mutations make novel protein sequences translate into a better strategy for protein design and will directed protein evolution utilizing nature with the help of viruses and bacteria make the future brighter. (medbalance-publishing.com)
A new method that relies on secondary structure information to align homolog RNA sequences was also recently developed [ 49 ]. (biomedcentral.com)
Assembly of Protein Tertiary Structures from Fragments with Similar Local Sequences using Simulated Annealing and Bayesian Scoring Functions. (rosettacommons.org)
Evolutionary analysis of DNA and protein sequences is typically performed by either assuming that all evolutionary lineages change at the same rate or by avoiding any attempt to directly consider the fact that the rate of evolution changes over time. (lifeboat.com)
The hCLC-5 sequence was aligned with the Salmonella typhimurium and Escherichia coli sequences and used to map the hCLC-5 mutations onto a three-dimensional model. (ox.ac.uk)
Common activities in bioinformatics include mapping and analyzing DNA and protein sequences, aligning different DNA and protein sequences to compare them, and creating and viewing 3-D models of protein structures. (limswiki.org)
Therefore, the field of bioinformatics has evolved such that the most pressing task now involves the analysis and interpretation of various types of data, including nucleotide and amino acid sequences, protein domains, and protein structures. (limswiki.org)

Protein structure prediction is the inference of the three-dimensional structure of a protein from its amino acid sequence-that is, the prediction of its secondary and tertiary structure from primary structure. (wikipedia.org)
Structure prediction is different from the inverse problem of protein design. (wikipedia.org)
Starting in 1994, the performance of current methods is assessed biannually in the CASP experiment (Critical Assessment of Techniques for Protein Structure Prediction). (wikipedia.org)
A continuous evaluation of protein structure prediction web servers is performed by the community project CAMEO3D. (wikipedia.org)
Similarly to the studies carried out two decades ago for proteins, which gave the fundamental grounds for developing comparative protein structure prediction methods, we are now able to quantify the relationship between sequence and structure conservation in RNA. (biomedcentral.com)
Our work could represent the theoretical basis and limitations for future developments in comparative RNA 3D structure prediction. (biomedcentral.com)
Nonetheless, it is common knowledge that RNA 3D structure is more conserved than RNA sequence and that such principle could be used for comparative RNA structure prediction in a similar way it is done for proteins [ 11 ]. (biomedcentral.com)
Ab initio protein structure prediction of CASP III targets using ROSETTA. (rosettacommons.org)

RNA testing looks for changes in gene expression, and protein analysis assesses structural changes in the protein product of the gene. (jax.org)
During the last few years, however, attention has been focused on abnormalities of contractile and structural myocardial proteins and on disorders of the mitochondrial energy metabolism [ 1 ]. (journalmc.org)
2 In particular, the 3'-terminus encompasses multiple open reading frames (ORFs) that encode four main structural proteins: the spike (S), membrane (M), envelope (E), and nucleocapsid (N) proteins. (biorxiv.org)
10 , 11 Studies attempting to predict the secondary structural elements of this protein indicate one α-helix and, depending on the study, two β-strands. (biorxiv.org)
The main evaluation is carried out on the free modeling (FM) target domains, for which structural templates could not be identified even by a-posteriori structure similarity search. (predictioncenter.org)
By querying the literature and a recently available database of allosteric sites, we gathered 213 allosteric proteins with structural information that we further filtered into a non-redundant set of 91 proteins. (biomedcentral.com)
Furthermore, we implemented an approach that achieves 65% positive predictive value in identifying allosteric sites within the set of predicted cavities of a protein (stricter parameters set, 0.22 sensitivity), by combining the current analysis on dynamics with previous results on structural conservation of allosteric sites. (biomedcentral.com)
Structural or functional proteins require tertiary and quaternary structure with folding into a certain shape to obtain a certain desired function. (medbalance-publishing.com)
Their work concluded that the overall structural changes between two homologous proteins were proportional to their sequence differences. (biomedcentral.com)
It was then estimated that homologous proteins aligning with less than 20% sequence identity could have large structural differences [ 14 ]. (biomedcentral.com)
Nevertheless, while Q44R led to recovery of viruses that maintained the mutation, Q44D resulted in selection of infective viruses with substitution D44E with acidic charge but with structural features similar to those of the parental virus, suggesting that Q44 is involved in functions other than 3A dimerization. (asm.org)
The viral genome encodes four structural capsid proteins (VP1 to VP4) and seven nonstructural (NS) proteins, the leader Lb/ab protease, and proteins encoded in the P2 (2B and 2C) and P3 (3A, 3B, 3C, and 3D) regions ( 9 ). (asm.org)
Modeling study of human renal chloride channel (hCLC-5) mutations suggests a structural-functional relationship. (ox.ac.uk)
Inferences about hydration have usually been indirect (where the ous structural and dynamic information about the internal peptide chain is not, there is solvent) or have relied on uncertain (buried) and external (surface) hydration of globular proteins in premises. (lu.se)

The human UBE3A gene encodes an E3 ubiquitin ligase, which exhibits three known protein subtypes ( 1 , 8 ). (spandidos-publications.com)
Found upstream of the 3'-untranslated region (3'-UTR), ORF10 (117 nt long) encodes for a protein that is 38 amino acids in length. (biorxiv.org)
PURA encodes Pur-α, a highly conserved multifunctional protein that has an important role in normal postnatal brain development in animal models. (bmj.com)
The viral particle is composed of a protein capsid that contains a positive-sense RNA molecule of about 8,500 nucleotides that is infectious and encodes a single polyprotein, which is processed in infected cells by cis - and trans -acting viral proteases ( 55 ) to yield different polypeptide precursors and the mature viral proteins ( 9 , 62 ). (asm.org)

Protein synthesis, folding, and tertiary and quaternary structure ultimately determine much of the body's structure and function. (msdmanuals.com)

Finally, with the aim of characterizing RNA structure diversity, Abraham and co-workers recently studied the RNA conservation at three levels: primary, secondary, and tertiary structure. (biomedcentral.com)

Here, based on a family pedigree with 26 members, including nine patients with HGF, we identified double heterozygous pathogenic mutations in the ZNF513 (c.C748T, p.R250W) and KIF3C (c.G1229A, p.R410H) genes within the GINGF3 locus related to HGF. (nature.com)
DNA testing did not identify a pathogenic variant (mutation) using a multi-gene neurology panel. (jax.org)
By application of the PolyPhen algorithm the variant was predicted as pathogenic. (journalmc.org)

An assessment of forty-one missense mutations reveal slight changes in residue flexibility, mainly in the C-terminal half. (biorxiv.org)
The remaining 15 mutations (one in-frame insertion and 14 missense mutations), 12 of which have been studied electrophysiologically, were assessed. (ox.ac.uk)
None of the missense mutations involved the chloride (Cl-) selectivity filter, but 12 of the 15 mutations were found to be clustered at the interface of the two subunits. (ox.ac.uk)

We introduce a simple computational approach to predict the presence and position of allosteric sites in a protein based on the analysis of changes in protein normal modes upon the binding of a coarse-grained ligand at predicted cavities. (biomedcentral.com)

At least eight known mutations of the EGFR gene have been associated with lung cancer and often appear in drug-resistant cases of the disease. (darkdaily.com)

Furthermore, a knock-in mouse model confirmed that heterozygous or homozygous mutations within Zfp513 (p.R250W) or Kif3c (p.R412H) alone do not led to clear phenotypes with gingival fibromatosis, whereas the double mutations led to gingival hyperplasia phenotypes. (nature.com)
This Hb A2-Roi-Et, results from a double mutations in-cis, Î´CD82(AAG>AAT) and Î´CD133(GTG>ATG), was interestingly found in combination with an in trans, 12.6 kb deletional Î´ß0-thalassemia in an adult Thai woman who had no Hb A2 and elevated Hb F. A multiplex-allele-specific PCR was developed to detect these novel Î´-globin gene defects. (bvsalud.org)

Sub-angstrom modeling of complexes between flexible peptides and globular proteins. (rosettacommons.org)

However, for a discrete number of patients whose results are uninformative, it may be possible to get a more definitive answer about the consequences of a variant using additional methods like RNA sequencing, protein analysis and predictive or functional studies. (jax.org)
The predicted effects of a variant on functional areas of the protein such as binding sites for DNA or other proteins can also be analyzed. (jax.org)
Proteins can be regarded as the functional building blocks of life, carrying out and coordinating almost all biological processes. (biomedcentral.com)
Similar to proteins, functional RNA molecules fold into specific three-dimensional conformations essential for performing their biological activity. (biomedcentral.com)
The identification and characterization of geometrical and physical-chemical properties in protein vacant spaces aggregates important information for steering rational drug design and functional characterization of binding and catalytic sites. (cnpem.br)
Evaluation of the new F23R variant demonstrated inhibition of β-sheet structure and, therefore, amyloid formation on the native C-terminal, phenomenon that was associated with functional optimization in calcium and cholesterol management coupled with the optimization of insulin secretion by beta cells. (phoenixpeptide.com)
A gene, the basic unit of heredity, is a segment of DNA containing all the information necessary to synthesize a polypeptide (protein) or a functional RNA molecule. (msdmanuals.com)

4 and 5 are very important analyses in light of recent advances of approaches using fixed correlated mutations methodology. (predictioncenter.org)

It was back in the eighties when Chothia and Lesk first quantified such evolutionary relationship for proteins [ 12 - 14 ]. (biomedcentral.com)
Factors that affect the rate of molecular evolution (e.g., mutation, population size, generation time, selection) change over time and therefore the rate of molecular evolution is extremely unlikely to be identical for different evolutionary lineages. (lifeboat.com)
A good understanding of how multi domain proteins were constructed is essential for understanding their context and their evolutionary relationships with other domains. (cnpem.br)

The secondary structures can be tightly packed in the protein core in a hydrophobic environment, but they can also present at the polar protein surface. (wikipedia.org)
Other α-helices buried in the protein core or in cellular membranes have a higher and more regular distribution of hydrophobic amino acids, and are highly predictive of such structures. (wikipedia.org)
Results indicate a highly ordered, hydrophobic, and thermally stable protein that contains at least one transmembrane region. (biorxiv.org)
12 This protein is hydrophobic with the α-helix having been identified as a possible transmembrane (TM) helix as well. (biorxiv.org)
These findings shed new light on hydrophobic stabilization of proteins. (lu.se)
Whereas the N state has been character- taken to imply that hundreds of water molecules penetrate the MG ized at high resolution, many aspects of the D and MG states are protein (except for a relatively small hydrophobic core)5,7,8,17-19. (lu.se)

The first use of the Rosetta algorithm successfully predicted ab initio protein structures to an RMSD within 6.4, 6.0, and 3.8Å. (rosettacommons.org)
Combining the i-Patch scores with an existing correlated mutation algorithm, McBASC, using a logistic model gave little improvement. (ox.ac.uk)

The ß-hemoglobinopathies, such as sickle cell disease and ß-thalassemia, are one of the most common genetic diseases worldwide and are caused by mutations affecting the structure or production of ß-globin subunits in adult hemoglobin. (bvsalud.org)
Bc1 is one of these complexes and composed of three catalytic subunits (cytochrome-b, cytochrome-c1, and the Rieske iron-sulfur protein) and seven or eight non-catalytic subunits [ 6 ]. (journalmc.org)
Preferential self-interaction of DNA methyltransferase DNMT3A subunits containing the R882H cancer mutation leads to dominant changes of flanking sequence preferences. (uni-stuttgart.de)

The difficulty classifying Charcot-Marie-Tooth subtypes is made more evident by the fact that mutations of each of these genes have been associated with multiple, overlapping phenotypes. (medscape.com)

Plaques are fragments of a protein called beta-amyloid, which build up in areas between nerve cells. (medicalnewstoday.com)

In the present study, we have revised the structure of the USH3 gene, including a new translation start site, 5' untranslated region, and a transcript encoding a 232-amino acid protein. (nih.gov)
Protein amino acid analysis is a technique for determining the type and amounts of amino acids in a protein sample, providing information on protein composition, post-translational modifications and overall protein quality. (pharmiweb.com)
By gaining insight into amino acid content, researchers can assess protein purity, determine changes in amino acid composition, and evaluate protein stability. (pharmiweb.com)
What is Protein Amino Acid Analysis? (pharmiweb.com)
Automated instruments specifically designed for protein amino acid analysis. (pharmiweb.com)
A number of actin-binding proteins, including spectrin, alpha-actinin and fimbrin, contain a 250 amino acid stretch called the actin binding domain (ABD). (embl.de)

According to evolutionists the substitutions are almost always a single nucleotide (called a point mutation). (uncommondescent.com)

The computational analysis here presented quantitatively describes the relationship between sequence and structure for RNA molecules and defines a twilight zone region for detecting RNA homology. (biomedcentral.com)
We evaluated: homology modeling quality, energetic and conformational distribution of connectors, PPI profile between domains, similarity to crystal structure and final model after energy minimization. (cnpem.br)
A calponin homology domain is predicted in yeasst Cdc24p. (embl.de)

The associated human phenotype of de novo heterozygous mutations in this gene is variable, but moderate to severe neurodevelopmental delay and learning disability are common to all. (bmj.com)

A combination of molecular dynamics methods and electrostatic potential analysis are then used to estimate how the binding rates of these proteins are affected by individual mutations. (ulster.ac.uk)
IEC, HPLC or CE) and detection methods described above to identify and quantify amino acids in protein samples. (pharmiweb.com)
METHODS: The data regarding 49 hCLC-5 mutations were reviewed. (ox.ac.uk)
Despite its biological importance, transfer RNA (tRNA) could not be adequately sequenced by Author Manuscript standard methods due to abundant post-transcriptional modifications and stable structure, which interfere with cDNA synthesis. (cdc.gov)
The hydration of nonnative states is central to protein folding and stability but has been probed mainly by indirect methods. (lu.se)

The ab initio modeling provided us with a series of directions towards possible conformational states of the multi domain protein. (cnpem.br)

Angelman syndrome (AS) is an autosomal dominant neurodevelopmental genetic disease with maternal imprint, which is associated with the presence of the abnormal chromosome 15q11‑q13, and the loss of maternal specific expression of ubiquitin‑protein ligase E3A (UBE3A). (spandidos-publications.com)
Among the various genetic metabolic disorders, Angelman syndrome (AS) has attracted considerable attention due to the abnormal expression of the ubiquitin-protein ligase E3A (UBE3A) gene ( 1 ). (spandidos-publications.com)
In summary, these results demonstrate ZNF513 + KIF3C as an important genetic combination in HGF manifestation and suggest that ZNF513 mutation may be a major risk factor for HGF. (nature.com)
Mitochondrial DNA (mtDNA) mutations frequently manifest with multisystem disease, including cardiomyopathy (CM). Various studies described mutations in protein-encoding mtDNA genes, such as cytochrome-b, manifesting with CM. A detailed clinical, biochemical, and molecular genetic analysis was performed in a 40-year-old male with dilated CM (DCM) to detect the underlying mtDNA defect. (journalmc.org)
Molecular Engineered Evolution (MEE) is based on editing genetic material (DNA) to make novel (newly discovered) proteins that can shape human lives both positively and negatively either intentionally or unintentionally. (medbalance-publishing.com)
The field of population genetics has a rich body of theory for explaining how within-species genetic variation is shaped by fitness, mutation, recombination, population size, and population structure. (lifeboat.com)
This novel frameshift mutation causing FAP not only expands the germline mutation spectrum of the APC gene in the Chinese population, but it also increases the understanding of the phenotypic and genotypic correlations of FAP, and may potentially lead to improved genetic counseling and specific treatment for families with FAP in the future. (spandidos-publications.com)
The work grew out of their "biochemical investigation of the relations between the structures and function of proteins and the theoretical attempt to decipher the genetic code. (limswiki.org)
It seems every day that diagnostic test developers are announcing new genetic tests for everything from researching bloodlines to predicting vulnerability to specific chronic diseases. (darkdaily.com)
Screening tests do not screen for all possible mutations, and several types screen for just a few of the more common genetic mutations. (medscape.com)
If the results predict CF in the fetus, referral to a tertiary care facility facilitates genetic counseling and consultation with specialists in maternal-fetal medicine. (medscape.com)

the mutation is a novel mutation, which, to the best of our knowledge, has not been previously reported. (spandidos-publications.com)

168 were second-, third-, and fourth-generation case-pa- es in viral proteins. (cdc.gov)
NS proteins are involved in crucial aspects of the viral cycle and pathogenesis, such as rearrangements of intracellular membranes required for endomembrane recruitment and the lysis of host cells ( 1 , 12 , 14 , 18 , 73 ). (asm.org)

The protein structure can be considered as a sequence of secondary structure elements, such as α helices and β sheets. (wikipedia.org)
The most common location of α-helices is at the surface of protein cores, where they provide an interface with the aqueous environment. (wikipedia.org)
RESULTS: hCLC-5 is a homodimeric protein, with each subunit consisting of 18 helices. (ox.ac.uk)
Six of these mutations occurred in two of the helices that either form part of the interface or lie in close proximity to the interface, and three other mutations that did not lead to complete loss of Cl- conductance were at the edge of the interface. (ox.ac.uk)

In this article, we describe a simple computational approach, based on the effect allosteric ligands exert on protein flexibility upon binding, to predict the existence and position of allosteric sites on a given protein structure. (biomedcentral.com)
A wide variety of computational biology schemes aim to predict phenotype from genotype. (lifeboat.com)

We defined them as cryptic amyloidogenic regions (CARs) and recently developed an integrated database that collects thousands of predicted CARs in IDRs. (ibecbarcelona.eu)
The amyloidogenic region of IAPP is responsible for providing a toxic conformational structure within islets. (phoenixpeptide.com)
Although the accumulation of amyloidogenic proteins in neuroinflammatory conditions is generally considered pathologic, in a murine model of multiple sclerosis, amyloid-forming fibrils, comprised of hexapeptides, are anti-inflammatory. (phoenixpeptide.com)

Arguably one of the first "bioinformatics" projects-though the concept didn't yet exist-involved the 1965 creation and maintenance of a protein sequence database called the Atlas of Protein Sequence and Structure by Margaret O. Dayhoff, Richard V. Eck, and Robert S. Ledley. (limswiki.org)
Bioinformatics Approaches to Predict Mutation Effects in the Binding Site of the Proangiogenic Molecule CD93. (uni-trier.de)

Protein kinases have an important role in cell signaling by coordinating various cellular processes, including metabolism, growth, division, differentiation, mobility, transport through membranes, contraction, and apoptosis being phosphorylation the most abundant and important type of cellular regulation. (cnpem.br)
Protein post-translational modifications (PTMs) take many shapes, have many effects and are necessary for cellular homeostasis. (biologists.com)
This Review summarizes the more recent biochemical, cellular and mouse model studies that underscore the importance of the ER acetylation process in maintaining protein homeostasis and autophagy within the secretory pathway, and its impact on developmental and age-associated diseases. (biologists.com)

He has concentrated on protein tertiary structure and RNA secondary structure, but is very excited by the potential to quantify the impacts on evolution of diverse other aspects of phenotype. (lifeboat.com)
For instance, myelin protein zero mutations are associated CMT1B, Déjerine-Sottas syndrome, and the axonal CMT2 phenotype. (medscape.com)
Identifying Genotype-Phenotype Correlations via Integrative Mutation Analysis. (uni-trier.de)

A number of CMs were attributed to abnormal respiratory chain functions, particularly those caused by mitochondrial DNA (mtDNA) mutations [ 2 - 4 ]. (journalmc.org)
This restricts receptor activation by inhibiting the interaction of RIG-I with polyubiquitin and MAVS (mitochondrial antiviral signalling protein). (biomedcentral.com)

The data further revealed absence of 25‑bp repeat mutations at the shear mutation site of exon 1 of the small nuclear ribonucleoprotein polypeptide N gene in the subjects examined. (spandidos-publications.com)
Based on an established filtering strategy and data analyses, along with confirmation by Sanger sequencing and co‑segregation, a novel frameshift mutation c.1317delA (p.Ala440LeufsTer14) in exon 10 of the APC gene was identified. (spandidos-publications.com)

Kerpedjiev discovered that the top gene on the list-Tumor protein p53 (TP53)-was mentioned in about 8,500 articles to date, and that it is typically included in about two PubMed papers per day. (darkdaily.com)

Collectively, these results continue to assess the biological relevance of ORF10 and its putatively encoded protein, thereby aiding in diagnostic and possibly vaccine development. (biorxiv.org)
These results agree with the current view that allosteric mechanisms are in many cases governed by changes in protein dynamics caused by ligand binding. (biomedcentral.com)
Mutation of Glu483 to alanine results in much less severe impairments in catalysis suggesting this residue is active as the [[general acid/base]] residue. (cazypedia.org)
Results Protein-altering de novo mutations in PURA were identified in four subjects. (bmj.com)
This paper describes computer simulations of small populations with variations in mutation rate and other factors, and produces results that are dramatically different than Haldane's low substitution limit except in certain limited situations). (uncommondescent.com)
The results show that nonnative proteins are more structured and less solvent exposed than commonly believed. (lu.se)

Mechanistic basis of the increased methylation activity of the SETD2 protein lysine methyltransferase towards a designed super-substrate peptide. (uni-stuttgart.de)

The mutation was not found in 100 healthy controls and never reported as a neutral polymorphism despite extensive sequencing of the cytochrome-b gene in 2,704 normal healthy controls from different ethnic backgrounds. (journalmc.org)
When only one or neither parent has an identified CF mutation but the couple has a previous child with CF, the status of the fetus can be predicted by restriction fragment length polymorphism (RFLP) analysis. (medscape.com)

However, to date no general large-scale study has systematically addressed the quantitative analysis of the relationship between sequence and structure conservation in RNA molecules. (biomedcentral.com)
Previously, he was a PhD student working on modelling the tertiary structure of RNA molecules at the Theoretical Biochemistry Group at the University of Vienna. (darkdaily.com)
Fig. 1 Crystal structures of human -lactal- bumin (PDB file 1HML), lysozyme (2LZT) and ribonuclease A (7RSA) showing potentially long-lived internal water molecules, disul- fide bonds (yellow), and the Ca2+ ion (green) in -lactalbumin. (lu.se)
For -lactalbu- min, only water molecules conserved in the human and baboon structures are shown (the structure of the bovine protein has not been reported). (lu.se)

SIR1 is predicted to encode a protein composed of a ubiquitin-activating enzyme E1-like domain and a Rhodanese-like domain homologous to that of prolyl isomerase. (broadinstitute.org)

Proteins are chains of amino acids joined together by peptide bonds. (wikipedia.org)
The formation of these secondary structures efficiently satisfies the hydrogen bonding capacities of the peptide bonds. (wikipedia.org)
The hydrolysis process breaks the peptide bonds, converting proteins into their constituent amino acids. (pharmiweb.com)

describe algorithms to predict the bound state of flexible peptides in protein pockets. (rosettacommons.org)
In order to complement and extend the functionality of existing softwares, providing a systematic and more descriptive portrayal of protein vacant spaces, we are developing new algorithms to approach the problem. (cnpem.br)

The α-helix is the most abundant type of secondary structure in proteins. (wikipedia.org)
Evidence suggests that the process of Alzheimer's disease begins more than a decade before clinical symptoms appear, suggesting we may need to intervene earlier to have a major impact on the course of the disease, particularly when using therapies designed to prevent the development of abnormal protein structures - plaques and tangles - that are abundant in the brains of people with Alzheimer's," says Snyder. (medicalnewstoday.com)
The protein created by TGFB1 is abundant in skeletal tissues and regulates the formation and growth of bones and cartilage. (darkdaily.com)

The predicted model suggests the ORF10 protein contains a β-α-β motif with a β-molecular recognition feature occurring in the first β-strand. (biorxiv.org)
Research from Temple University in Philadelphia, PA, for example, suggests that chronic sleep deprivation may cause these abnormal brain structures . (medicalnewstoday.com)

An exaggeration of it could be the clinical manifestation of dementia, with intraneuronal accumulation of protein aggregates deranging the metabolic state. (ijpmonline.org)
The substance does not indicate a significant potential for accumulation, when taking into account the predicted behaviour concerning absorption and metabolism. (europa.eu)

Germline mutations in the tumor suppressor adenomatous polyposis coli gene (APC) on chromosome 5q22.2 are responsible for the most cases of FAP. (spandidos-publications.com)
These cells can be located in the tumor centre (CT), in the invasive margin (IM), or in the adjacent tertiary lymphoid structures (TLS). (aacrjournals.org)

Silent information regulator 2 (Sir2) proteins, or sirtuins, are protein deacetylases dependent on nicotine adenine dinucleotide (NAD) and are found in organisms ranging from bacteria to humans. (biomedcentral.com)

However, these same mutations do not inflict significant changes on protein stability and other biochemical features. (biorxiv.org)

Design of a novel globular protein fold with atomic-level accuracy. (rosettacommons.org)
· http://structbio.nature.com ness, secondary structure, tertiary fold, and side-chain packing. (lu.se)

The T1150A cancer mutant of the protein lysine dimethyltransferase NSD2 can introduce H3K36 trimethylation. (uni-stuttgart.de)

During molecular evolution protein domains have acted as building blocks, being combined in different ways, for instance, modulating protein function. (cnpem.br)

Proteins consist mostly of 20 different types of L-α-amino acids (the proteinogenic amino acids). (wikipedia.org)

This involves protein extraction from the biological sample of interest, followed by protein denaturation to break down the tertiary structure and expose the amino acids. (pharmiweb.com)
We publish peer-reviewed leading-edge biological, biomedical and biotechnological research in which computer-based (i.e., 'in silico' ) modeling and analysis tools are developed and utilized to predict and elucidate dynamics of biological systems, their design and control, and their evolution. (iospress.com)

Polycomb Group (PcG) proteins are a family of protein complex that regulate gene expression, especially repressing gene transcription [ 1 ]. (hindawi.com)

However, we assume that for each protein, we have a reference structure and a multiple sequence alignment of homologues. (ox.ac.uk)

Anatomy4

Organisms6

Diseases3

Chemicals and Drugs59

Analytical, Diagnostic and Therapeutic Techniques and Equipment54

Phenomena and Processes116

Disciplines and Occupations7

Technology, Industry, Agriculture1

Information Science24

Named Groups1

Health Care13

Residues15

Interactions8

Associated genes1

Sequences9

Prediction8

Structural14

Encodes4

Quaternary structure1

Secondary and tertiary1

Pathogenic3

Missense mutations3

Cavities1

Known mutations1

Double mutations2

Globular proteins1

Functional7

Fixed correlated1

Evolutionary3

Hydrophobic6

Algorithm2

Subunits3

Phenotypes1

Fragments1

Amino acid6

Single Nucleotide1

Homology3

Heterozygous1

Methods5

Initio1

Genetic11

Novel mutation1

Viral2

Helices4

Computational2

Amyloidogenic3

Bioinformatics2

Cellular3

Phenotype3

Mitochondrial2

Exon2

TP531

Results6

Methylation1

Polymorphism2

Molecules4

Homologous1

Peptide3

Algorithms2

Abundant3

Suggests2

Accumulation2

Tumor2

Humans1

Stability1

Fold2

Lysine1

Molecular evolution1

Consist1

Biological2

Gene expression1

Alignment1