Motif structural homology protein. Medical search. Frequent questions

Using motif residues ranked on functional significance via the Evolutionary Trace (ET), MA prioritizes its search by initially forming matches with functionally significant residues, then, guided by ET, it augments this partial match stepwise until the whole motif is found. (nih.gov)
The C-terminal domain of NleG2-3 (residues 90 to 191) is the most conserved region in NleG proteins and was solved by NMR. (rcsb.org)
The proteins encoded by members of the Dbl family share a common domain, presented in this entry, of about 200 residues (designated the Dbl homology or DH domain) that has been shown to encode a GEF activity specific for a number of Rho family members. (embl-heidelberg.de)
The primase pUL70 contains several conserved motifs or regions, including a region (residues 881-920) that corresponds to a putative zinc-finger pattern shown to play essential role in HSV-1 ( Biswas and Weller, 1999 ). (frontiersin.org)
Recent studies also revealed alternative binding mechanisms, mainly involving helical motifs and positively charged amino acid residues. (biomedcentral.com)
This C2 domain is about 116 amino-acid residues and is located between the two copies of the C1 domain in Protein Kinase C (that bind phorbol esters and diacylglycerol) (see PDOC00379) and the protein kinase catalytic domain (see PDOC00100). (bionity.com)
The residues highlighted in green are conserved in all proteins, with the exception of the plant subfamily. (calpaininhibitor.com)
Residues are numbered according to the T. acidophilum protein. (calpaininhibitor.com)
Residues mutated in the A.tumefaciens protein are marked with black asterisks. (calpaininhibitor.com)
A total of eight residues (highlighted in magenta in Figure 8) were 23148522 conserved among over 95 of the COG1058 proteins in all sequenced genomes, suggesting their likely role in protein's function or stability. (calpaininhibitor.com)
The conserved residues appear to define two putative signature motifs, namely GXEX3G and GGL/IGPX3D. (calpaininhibitor.com)
In addition, five residues (highlighted in green in Figure 8) were found to be conserved in all COG1058 sequences, with the exception of the plant subfamily of proteins (Figure S2). (calpaininhibitor.com)
To get an insight into the possible functions of the conserved residues, we performed a structural homology search by using as the query the ?available high-resolution (2 A) crystal structure of the Thermoplasma acidophilum COG1058 protein (PDB ID: 3KBQ), as determined atthe Midwest Center for Structural Title Loaded From File Genomics (http://www.mcsg. (calpaininhibitor.com)

Both are transmembrane proteins sharing 30% protein sequence homology in their extracellular domains, but little homology in intracellular domains. (jefferson.edu)
The extracellular domain of TNFRs are characterized by 4 conserved cysteine-rich motif repeat domains. (jefferson.edu)
It is unknown how this potentially deleterious adenylylation activity is regulated in the widespread Fic proteins that are found in all domains of life and that are thought to have critical roles in intrinsic signalling processes. (rcsb.org)
Structural homology modelling of all annotated Fic proteins indicates that inhibition by α(inh) is universal and conserved through evolution, as the inhibitory motif is present in ∼90% of all putatively adenylylation-active FIC domains, including examples from all domains of life and from viruses. (rcsb.org)
There are 499956 DEXDc domains in 496764 proteins in SMART's nrdb database. (embl.de)
There are 39736 RhoGEF domains in 38458 proteins in SMART's nrdb database. (embl-heidelberg.de)
These proteins contain two related domains known as the chromo- and the chromoshadow-domain. (cipsm.de)
Two transmembrane domains were predicted in p11.7, and a DNA binding motif was found in p31.7 by amino acid sequence analysis, therefore p11.7 and p31.7 were predicted to be envelope and capsid protein, respectively. (umass.edu)
The common ancestor of these GHKL proteins, MutL and topoisomerase ATPase modules appears to have catalyzed structural reorganization of protein complexes and concomitant DNA-superstructure manipulations along with fused or standalone nuclease domains. (beds.ac.uk)
Consistent with a chromatin-associated role, the MORCs display fusions to several DNA- and peptide-binding domains, which are commonly found other eukaryotic chromatin proteins [ 5 ]. (beds.ac.uk)
The overall structure appears closely related to prion proteins (PrPs), although the C-terminal domains of Shos are quite different from those of PrPs, for which conformational changes in mammals are implicated in disease. (nih.gov)
G domains of EHD2 stably dimerize via a nucleotide-independent interface which is not conserved in other dynamin superfamily proteins. (researchatlanta.org)
The C-terminal EH domains interact with linear peptide motifs containing an Asn-Pro-Phe (NPF) motif (de Beer et al. (researchatlanta.org)
This could also be compared to discrete motifs and domains in the protein where there is complete sequence similarity with that which is present in known allergens, therefore, indicating possibility of shared protein epitopes. (gmo-safety.eu)
The LCS-II connecting D2 and D3 contains two directly neighbored class II PxxP-motifs, which are important for interactions with Src homology 3 (SH3) domains. (biomedcentral.com)
SH3 domains mediate protein-protein interactions, often via binding to polyproline II helices. (biomedcentral.com)
C2 domains are also found in clostridial alpha toxins , where they are used to bring the catalytic phospholipase domain into contact with the plasma membrane , conferring the toxic activity on the protein. (bionity.com)
3D structure of C2 domains has been reported [3] , the domain forms an eight-stranded beta sandwich constructed around a conserved 4-stranded motif, designated a C2 key [3] . (bionity.com)
Structural analyses of several C2 domains have shown them to consist of similar ternary structures in which three Ca 2+ -binding loops are located at the end of an 8 stranded antiparallel beta sandwich. (bionity.com)
Human ANG4 is an agonist that can bind and activate Tie2, a receptor tyrosine kinase with immunoglobulin and epidermal growth factor homology domains expressed primarily on endothelial cells and early hematopoietic cells. (reliatech.de)
Notably, a DALI search revealed high structural similarity (Z score .10 ) with the fold of proteins from the E. coli MoCo biosynthetic pathway (MogA, the domain III of MoeA, and MobA), as well as with domains of mammalian gephyrin and plant Cnx1, which are also involved in MoCo biosynthesis [30,31,32]. (calpaininhibitor.com)
The characteristic 3-dimensional shape of a protein, including the secondary, supersecondary (motifs), tertiary (domains) and quaternary structure of the peptide chain. (bvsalud.org)

Eukaryotic expression vectors containing genes encoding plant proteins for killing of cancer cells. (weeksmd.com)
consequently, genes encoding some of these proteins are being used to design constructs for the inhibition of multiplying cancer cells. (weeksmd.com)
Finally, by successful identification of TNF-induced genes, including MCP-1 (monocyte chemoattractant protein-1), in human monocyrtic leukemia cells ML-1a using a modified differential display technique, we showed that this new technique is a powerful tool in identifying TNF-regulated genes involved in different biological activities. (jefferson.edu)
Homologies were found to 38 of the 113 ORFs predicted for genes with known functions. (umass.edu)
Four of structural genes, p11.7, p15.1, p28.4, and p31.7 were identified by matrix assisted laser desorption/ionization time-of-flight mass spectroscopy. (umass.edu)
A putative late gene promoter motif sequence, AGTAT was found in the 3' upstream sequences of these genes. (umass.edu)
The structural similarity is particularly interesting given recent reports of three new genes with similarities to PrPs found in Fugu (PrP-like, PrP-461/stPrP-1 and stPrP-2) and other fish, but for which direct evolution to higher vertebrate PrPs is unlikely and for which no other mammalian homologues have been found. (nih.gov)
In protein expression, we are particularly interested in mRNA, which acts as a portable transcript, of the instructions written in genes, to ribosomes, the cell's machinery responsible for producing a protein. (ainews.one)
Recent advances in understanding the molecular events underlying hypohidrotic ectodermal dysplasia (HED) caused by mutations of the genes encoding proteins of the tumor necrosis factor α (TNFα)-related signaling pathway have been presented. (springer.com)
Novel data were reviewed and discussed on the structure and functions of the components of TNFα-related signaling pathway, the consequences of mutations of the genes encoding these proteins, and the prospect for further investigations, which might elucidate the origin of HED. (springer.com)
Mutations of these genes are responsible for systemic tooth agenesis, in addition to the defects of other ectodermal structures, and this review is limited to description of the function of their protein products. (springer.com)
It seems likely that viral structural proteins originated from cellular genes. (virology.ws)
Similar to the focus on structural variation as opposed to SNV's in protein coding genes, there were a number of excellent talks defining variation in non-coding regions from genome sequencing datasets of different patient populations. (biomedcentral.com)
To facilitate analysis of this type of non-coding variation dataset, the group is now developing a non-coding constraint metric (parallel to the constraint metrics for protein coding genes). (biomedcentral.com)
Additionally, the 10 genes of the L. infantum PUF family were cloned and used to express the Leishmania PUFs in bacteria as recombinant proteins. (biomedcentral.com)
The major part of his production relates to variations ranging from protein engineering to effects and mechanisms of variations in protein structures, genes and diseases. (lu.se)

Based on the genome sequencing results, an analysis of structural proteins and prediction of putative microRNAs of Hz-2V was performed. (umass.edu)
Their proteomes are highly unstudied, with over 200 putative proteins with no known homologs. (frontiersin.org)
The production of 27 of these putative proteins was confirmed by mass spectrometry analysis. (frontiersin.org)

Given a structural motif of interest, such as a functional site, MA searches a target protein structure for a match: the set of atoms with the greatest geometric and chemical similarity. (nih.gov)
The N-terminal domain shows structural similarity to the DNA-binding alpha-helix bundle motif. (wikipedia.org)
Predicting protein function using structure: structural alignments, structural motifs, annotation transfer via structure similarity. (tum.de)
Structurally, the IL-17 cytokine family members have no sequence similarity to any other known cytokine or other mammalian proteins [ 2 ]. (hindawi.com)
the principal aim of this is to determine whether and to what level does the protein produced by the genetically modified foods have similarity to other known proteins that have the potential of causing allergies among humans and animals. (gmo-safety.eu)
This is through the determination of the overall structure of the protein of interest and its similarity to allergens that are known. (gmo-safety.eu)
The use of the protein database offers the possibility of determining the similarity of the novel protein of interest with those of allergens that are known on their sequence alignments homology. (gmo-safety.eu)
The core proteins of alphaviruses (think Semliki Forest virus) has structural similarity with chymotrypsin-like serine proteases. (virology.ws)
These bacteriophages appear to be most similar to bacteriophages that infect Pseudomonas and Ralstonia rather than Enterobacteriales bacteria by protein similarity, however, we were only able to detect infection of Erwinia and the closely related strains of Pantoea . (frontiersin.org)

The challenge in the post genomic era is to make full use of the vast genomic data in understanding the molecular mechanism of the function of proteins. (utmb.edu)
MASIA, in combination with homology modeling and molecular dynamics simulations, can be used to characterize functional motifs in protein families. (utmb.edu)
Recurrent structural motifs, molecular ancestry/homology, and insights into proteins structure evolution. (uconn.edu)
The molecular approach of using Geneious Prime software and protein prediction data base for characterization of bacteriocin is novel and predicts " KSSAYSLQMGATAIKQVKKLFKKWGW " as peptide responsible for antimicrobial activity. (researchsquare.com)
Taken together, our data indicate that diverse mammalian poxviruses use a conserved molecular claw in a C7-like protein to target SAMD9 and overcome host restriction. (uthscsa.edu)
Mauno Vihinen is well-known for his experience and interest in investigating variations and their effects whether they emerge at molecular levels (DNA, RNA protein), in structural context or in the cellular networks and pathways. (lu.se)
These findings provide insight into the molecular basis for human antibody recognition of paramyxovirus surface proteins and the mechanisms of SOSV neutralization. (cdc.gov)
However, in the mid 1990s, other proteins were also found to accumulate in the abnormal muscle fibers, and molecular genetic studies revealed several chromosomal loci. (medscape.com)

Mouse ANG 3 cDNA encodes a 509 amino acid (aa) precursor protein with a 21 aa signal peptide. (reliatech.de)

Like all members of the Ras superfamily, the Rho proteins cycle between active GTP-bound and inactive GDP-bound conformational states. (embl-heidelberg.de)
Using contextual information from conserved gene neighborhoods we show that these proteins primarily function in restriction-modification systems, in conjunction with diverse superfamily II DNA helicases and endonucleases. (beds.ac.uk)
A multiple alignment of the eukaryotic MORCs with these prokaryotic homologs showed that both versions contained all four conserved motifs required for adenosine and phosphate binding in the GHKL superfamily (Fig. 1 ). (beds.ac.uk)
regulatory switch in EHD2 and demonstrate the versatility of EPR to study structure and function of dynamin superfamily proteins. (researchatlanta.org)
A second interface in the G domain promotes nucleotide-dependent assembly in dynamin and septin superfamily proteins (Schwefel et al. (researchatlanta.org)

Protein conformation is critically linked to function and often controlled by interactions with regulatory factors. (cipsm.de)
Here we report the selection of camelid-derived single-domain antibodies (nanobodies) that modulate the conformation and spectral properties of the green fluorescent protein (GFP). (cipsm.de)
The overall objective of EuroNeut-41 was to design a vaccine that raises antibodies able to prevent HIV cell fusion by blocking the virus fusion protein gp41 in its pre-fusogenic conformation. (europa.eu)
PROTEIN STRUCTURE, QUATERNARY describes the conformation assumed by multimeric proteins (aggregates of more than one polypeptide chain). (bvsalud.org)

Activation of Rho proteins through release of bound GDP and subsequent binding of GTP, is catalysed by guanine nucleotide exchange factors (GEFs) in the Dbl family. (embl-heidelberg.de)
The guanine nucleotide exchange factor (GEF) Dbl targets Rho family proteins thereby stimulating their GDP/GTP exchange, and thus is believed to be involved in receptor-mediated regulation of the proteins. (embl-heidelberg.de)
2011 pointing to a different function or regulation of nucleotide hydrolysis in these two proteins. (researchatlanta.org)

Funding from the Department of Energy has allowed us to develop an expert system, MASIA, to quantitatively identify motifs and patterns of diversity in protein sequences. (utmb.edu)
By now you get the idea that cells generate proteins, which are sequences of amino acids. (ainews.one)
The extra sequences at the N-termini of viral jelly roll capsid proteins, involved in recognizing the viral genome, likely evolved after the capture of these proteins from cells. (virology.ws)
By using in silico tools, LipJG3 was related to the transporter protein sequences. (ugm.ac.id)
A multiple alignment of the domain in the most divergent sequences, including the AtCOG1058 and the SoCOG1058/PncC proteins characterized in this work, is depicted in Figure 8. (calpaininhibitor.com)

Screening gene databases with these novel motifs should reveal new candidates for APE related proteins. (utmb.edu)
This protein encoded by this gene belongs to the WD repeat-containing family of proteins, which function in the formation of protein-protein complexes in a variety of biological pathways. (nih.gov)
We report evidence from cDNA isolation and expression analysis as well as analyses of genome, expressed sequence tag (EST), cDNA and expression databases for a new gene named SPRN (shadow of prion protein). (nih.gov)
Lymphocyte activation gene-3 (LAG-3) is a coinhibitory receptor associated with impaired T-cell function and is frequently coexpressed with programmed cell death protein-1 (PD-1) in the context of human cancers. (aacrjournals.org)
Do the products of the novel gene inserted into plants elicit allergic reactions in humans or animals that are already sensitized to the same protein? (gmo-safety.eu)
Three Dimensional Structural Modelling of Lipase Encoding Gene from Soil Bacterium Alcaligenes sp. (ugm.ac.id)

Human sterile alpha motif domain-containing 9 (SAMD9) protein is a host restriction factor for poxviruses, but it can be overcome by some poxvirus host-range proteins that share homology with vaccinia virus C7 protein. (uthscsa.edu)

The provenance and biochemical roles of eukaryotic MORC proteins have remained poorly understood since the discovery of their prototype MORC1, which is required for meiotic nuclear division in animals. (beds.ac.uk)
To unravel the provenance and relationships of the MORC family, we initiated sequence profile searches using the PSI-BLAST program seeded with eukaryotic MORC proteins. (beds.ac.uk)
The prokaryotic and eukaryotic MORC homologs were unified to the exclusion of the other GHKL proteins by a specific GhXhhpXXRhl motif (h: hydrophobic, p: polar, X: any) in the S5-fold domain (Fig. 1 ). (beds.ac.uk)
The top-level topology of the species tree, i.e. the bacterial, archaeal and Title Loaded From File eukaryotic proteins form distinct clusters. (calpaininhibitor.com)
The analysis of the tree also shows that the proteins in the aproteobacterial group are evolutionarily closer to the eukaryotic and archaeal proteins than to their bacterial counterparts. (calpaininhibitor.com)
In addition, the d-proteobacterial group of enzymes is present in the eukaryotic branch, suggesting that it likely represents the ancestor group of the eukaryotic proteins. (calpaininhibitor.com)
As to the domain composition, the two-domain bacterial proteins cluster into a homogenous group, well separated from all other forms, i.e. the bacterial, archaeal and eukaryotic single-domain enzymes and the eukaryotic two-domain enzymes. (calpaininhibitor.com)
doi:10.1371/journal.pone.0065595.gMutagenesis Guided by Multiple Sequence Alignment and Structural Analysis Reveals the Identity of Catalytic ResiduesA multiple sequence alignment using a collection of 361 bacterial, 36 archaeal, and 34 eukaryotic completely sequenced genomes, annotated in The SEED database [23], revealed that the COG1058 domain is highly conserved (Figure S2). (calpaininhibitor.com)
The superimposition of the 3KBQ three-dimensional structure and domain III of E. coli MoeA (PDB ID: 1G8L) is shown.The top-level topology of the species tree, i.e. the bacterial, archaeal and eukaryotic proteins form distinct clusters. (calpaininhibitor.com)

MA is extremely efficient because it exploits the fact that the amino acids in a structural motif are not equally important to function. (nih.gov)
Positively charged amino acids that make up the protein help form this site between subunits. (wikipedia.org)
We also constructed, by homology modeling, a theoretical structure of the pUL105 N-terminal domain which indicates that the mutated conserved amino acids in this domain could be involved in ATP hydrolysis. (frontiersin.org)
SPRN comprises two exons, with the open reading frame (ORF) contained within exon 2, and codes for a protein of 130-150 amino acids named Shadoo (Japanese shadow), predicted to be extracellular and GPI-anchored. (nih.gov)
In other words, amino acids are the structural elements of all proteins . (ainews.one)

The comparison of structural subsites in proteins is increasingly relevant to the prediction of their biological function. (nih.gov)
Overview over prediction of protein function. (tum.de)
Prediction of the effect of single point mutations (sequence variants) on protein function and the organism. (tum.de)
As for the first part (Protein Prediction I), the module include an introduction into machine learning with particular focus on how to avoid over-estimating performance. (tum.de)
As opposed to the first part (Protein Prediction I), protein structure has only played a minor role: it has been introduced if it has been helpful to further our understanding of function. (tum.de)
Students understand the principle concepts in protein sequence analysis with focus on protein function and protein function prediction and are able to evaluate these. (tum.de)
Lectures, Seminars, Exercises, Problems for individual and team study: The students apply the theory presented in the lecture by writing a protein function prediction method in the exercise starting from data in varying form (depending on the problem at hand). (tum.de)
Here, we describe a generic approach to obtain crystals, solve the structure of a given protein, and perform a preliminary analysis, highlighting novel and efficient possibilities offered by automatization and contribution of Alpha Fold 2 structure prediction. (bvsalud.org)

Our results show that the hierarchy of functional importance within structural motifs speeds up the search within targets, and points to a new method to score their statistical significance. (nih.gov)
The PH domain is invariably located immediately C-terminal to the DH domain and this invariant topography suggests a functional interdependence between these two structural modules. (embl-heidelberg.de)
Here we demonstrate that PSRP1 is not a bona fide ribosomal protein, but rather a functional homologue of the Escherichia coli cold-shock protein pY. (cipsm.de)
This structure suggests potential receptor-binding sites of these pheromones and we are examining common functional and structural characteristics of pheromones of other species. (utmb.edu)
This result together with some common structural features led to the suggestive hypothesis of a possible functional link between mammalian PrP and Sho proteins. (nih.gov)
We isolated six mAbs recognizing the functional attachment protein hemagglutinin-neuraminidase (HN) and 18 mAbs against the fusion (F) protein. (cdc.gov)

After mutation of the inhibitory motif in various Fic proteins, including the human homologue FICD (also known as HYPE), adenylylation activity is considerably boosted, consistent with the anticipated relief of inhibition. (rcsb.org)
Mutation of CFAP57, a protein required for the asymmetric targeting of a subset of inner dynein arms in Chlamydomonas, causes primary ciliary dyskinesia. (nih.gov)
En effet, la mutation de la valine engendre une diminution de la fonction de la molécule et des expériences de BRET ont démontré une modification de l'orientation spatiale des queues cytoplasmiques. (umontreal.ca)

In a different avenue we are developing software tools for determining protein structures by NMR in Structural Genomics Projects. (utmb.edu)
In the Cancer and Medical Genomics session, Marcin Imielinski of the New York Genome Center highlighted the enormous complexity of structural rearrangements that can be found in individual cancer genomes. (biomedcentral.com)

A very common motif among viral capsid proteins is called the single jelly roll , made up of eight beta strands in two four-stranded sheets. (virology.ws)
Retroviral structural proteins also appear to have originated from cell proteins, with clear homologies with matrix, capsid, and nucleocapsid proteins. (virology.ws)
Given this information on the origin of viral capsid proteins, we can modify the three hypotheses for the origin of viruses into one. (virology.ws)

Bacterial DNA-damage-inducible protein G (DinG). (embl.de)
Bacterial primosomal protein N' (PriA). (embl.de)
In contrast to apoferritin bacterial secretion systems are typical examples of multi protein complexes exhibiting high flexibility owing to their functions relating to the transportation of small molecules, proteins, and DNA into the extracellular space or target cells. (bvsalud.org)

The N-terminal domain also contains motif III (S-A-T) which was proposed to participate in linking ATPase and helicase activities. (embl.de)

Association of the proto-oncogene product dbl with G protein betagamma subunits. (embl-heidelberg.de)
Here, we show the association of Dbl with G protein betagamma subunits (Gbetagamma) in transient co-expression and cell-free systems. (embl-heidelberg.de)
Our structure explains how this TPR sub-complex, together with additional scaffolding subunits (Apc1, Apc4 and Apc5), coordinate the juxtaposition of the catalytic and substrate recognition module (Apc2, Apc11 and Apc10 (also known as Doc1)), and TPR-phosphorylation sites, relative to co-activator, regulatory proteins and substrates. (ox.ac.uk)

Myosin-1A targets to microvilli using multiple membrane binding motifs in the tail homology 1 (TH1) domain. (nih.gov)
The trimeric Sec61/SecY complex is a protein-conducting channel (PCC) for secretory and membrane proteins. (cipsm.de)
2011 Studies in identified a function of Rme-1 in mediating the exit of cargo proteins from the endocytic recycling compartment (ERC) to the plasma membrane (Grant et Cyclothiazide al. (researchatlanta.org)
Cyclothiazide 2013 which are cup-shaped invaginations of the plasma membrane enriched in the protein caveolin (Parton et al. (researchatlanta.org)
2012 Despite recent progress in Cyclothiazide structural studies our previous structural analysis did not reveal the conformational changes associated with membrane-binding of EHD2. (researchatlanta.org)
It is composed of 8 β-sheets , forming a beta-sandwich motif, and co-ordinates 2 or 3 calcium ions, which bind in an indentation formed by the first and final loops of the domain, on the membrane binding face. (bionity.com)

It has the characteristic structural motifs of angiopoietins including the coiled coiled domain near the amino-terminus and a fibrinogen like domain at the C-terminus. (reliatech.de)

Structural studies of bio-complexes using single particle cryo-Electron Microscopy (cryo-EM) is nowadays a well-established technique in structural biology and has become competitive with X-ray crystallography. (bvsalud.org)

New drugs targeting essential viral proteins other than pUL54 are therefore urgently needed. (frontiersin.org)
We know that viral proteins can be returned to cells, where they serve useful functions. (virology.ws)

3] The new proposed LGMD subtype classification system follows the formula: "LGMD, inheritance (R [recessive] or D [dominant]), order of discovery (number), affected protein. (medscape.com)

ED1 , encoding a ligand-ectodysplasinA-A1 (EDA-A1), EDAR , coding for ectodysplasinA-A1 receptor, EDARADD , programming the structure of EDAR-associated death domain protein and NEMO whose protein product, NFκB essential modulator (NEMO), is necessary for an indirect activation of nuclear factor κB (NFκB). (springer.com)

These proteins are involved in signal transduction from ectoderm to mesenchyme during development of the fetus and are indispensable for the differentiation of ectoderm-derived structures such as eccrine sweat glands, teeth, hair, skin, and/or nails. (springer.com)
The latest advances in EM have enabled the determination of protein complex structures at 1.4-3 Å resolution for an extremely broad range of sizes (from ~100 kDa up to hundreds of MDa (Bartesaghi et al. (bvsalud.org)
X-ray crystallography is a method of choice to determine and analyze protein structures. (bvsalud.org)
Despite their different functions and only 23% sequence identity, the two proteins have very similar overall structures, displaying a previously unidentified fold comprised of a compact 12-stranded antiparallel β-sandwich wrapped in two short α helices. (uthscsa.edu)

The secondary structural propensity (SSP) score combines all measured chemical shifts into a single value. (biomedcentral.com)

The KPFxxxNPF motif also mediates direct interactions with caveolae and specific caveolar targeting (Daumke et al. (researchatlanta.org)

2012 EHDs are composed of an N-terminal Cyclothiazide extended GTPase domain (G domain) followed by a helical domain and a C-terminal Eps15-homology (EH) domain. (researchatlanta.org)
It provides a quantitative measure of the percentage of conformers in the structural ensemble with α-helical geometry (positive SSP score) or extended geometry (negative SSP score). (biomedcentral.com)

RNA-binding proteins of the PUF family share a conserved domain consisting of tandemly repeated 36-40 amino acid motifs (typically eight) known as Puf repeats. (biomedcentral.com)
Proteins containing tandem repeats are often dominant targets of humoral responses during infectious diseases. (biomedcentral.com)

The prokaryotic MORC proteins were widely, but sporadically, distributed in several distantly related bacteria such as proteobacteria, cyanobacteria and actinobacteria, as well as certain crenarchaea and euryarchaea [ 7 ]. (beds.ac.uk)

The C-terminal domain has an 'open fold' with no structural homology to other proteins. (wikipedia.org)
These methods dramatically increase the likelihood of producing proteins that cannot fold or assemble appropriately. (cipsm.de)

The expectation is that these patterns may also subsequently allow recognition of patterns that will implicate specific cancer treatments e.g. homology-directed repair deficiency and response to polyADP ribose polymerase (PARP) inhibition. (biomedcentral.com)

Identified recently as part of the non-LEE-encoded (Nle) effector set, this family remained uncharacterised and shared no sequence homology to other proteins including those of known function. (rcsb.org)
The Rho family of GTP-binding proteins has been implicated in the regulation of various cellular functions including actin cytoskeleton-dependent morphological change. (embl-heidelberg.de)
An amino-terminal portion conserved among a subset of Dbl family proteins is sufficient for the binding of Gbetagamma. (embl-heidelberg.de)
We identify the prokaryotic MORCs and establish that the MORC family belongs to a larger radiation of several families of GHKL proteins (paraMORCs) in prokaryotes. (beds.ac.uk)
Among the IL-17 cytokine family members, IL-17F shows the highest amino acid sequence homology (50%) to IL-17A, while only 10-30% sequence identity is seen between IL-17A and the other family members [ 10 ]. (hindawi.com)
A constitutive nucleolar protein identified as a member of the nucleoplasmin family. (wikidata.org)
Here, employing whole-genome databases, we report the composition, and structural features, of the PUF family in Leishmania infantum . (biomedcentral.com)

He is the Professor of Medical Structural Biology at Lund University. (lu.se)

Its activity is directed by intracellular signals mediated by various types of receptors such as G protein-coupled receptors. (embl-heidelberg.de)

ATP binds to the amino proximal alpha-beta domain, where the Walker A (motif I) and Walker B (motif II) are found. (embl.de)
This study reports that LKB1 binds to Phosphoinositide-dependent kinase (PDK1) by a conserved binding motif. (sdbonline.org)
Calcium binds in a cup-shaped depression formed by the N- and C-terminal loops of the C2-key motif. (bionity.com)

The viral core protein retains protease activity, needed for cleavage from a protein precursor. (virology.ws)

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. (embl.de)
Indeed, we found that all in the latter group of proteins bind SAMD9. (uthscsa.edu)

The heterochromatin-enriched HP1 proteins play a critical role in regulation of transcription. (cipsm.de)
Plastid-specific ribosomal proteins (PSRPs) have been proposed to play roles in the light-dependent regulation of chloroplast translation. (cipsm.de)
Structure-function correlations, and structural basis of regulation. (uconn.edu)

What is protein function? (tum.de)
We are relating motifs identified by MASIA to the function of DNA recognition, catalysis and protein-protein interaction. (utmb.edu)
WD-repeat proteins: structure characteristics, biological function, and their involvement in human diseases. (nih.gov)
Within the last 10 years significant progress has been made in understanding the pathogenesis of HED and this is mainly due to the discovery of unknown proteins and the elucidation of their function in signal transduction via the TNFα-related pathway. (springer.com)
To fulfil its function NS5A interacts with a large number of different proteins including both viral and human ones. (biomedcentral.com)
Limb-girdle muscular dystrophy (LGMD) protein defects occur in several pathways involved in the biologic function of muscle and can be divided into groups based on cellular localization. (medscape.com)
These include proteins associated with the sarcolemma (see image below), proteins associated with the contractile apparatus (see image below), and various enzymes involved in muscle function. (medscape.com)
Specific protein function and abnormalities are discussed below with each LGMD. (medscape.com)

Furthermore, a PDK1-consensus motif is located within the kinase domain of LKB1 and LKB1 gets phosphorylated by PDK1 in vitro. (sdbonline.org)

We are determining the structural characteristics of cedar pollen allergens in collaboration Drs. E. Brooks, T. Midoro-Horiuti and R. Goldblum (Department of Pediatrics). (utmb.edu)
The theory, in this case, is that relative resistance plays a role in inducing allergic responses on condition that the protein of interest possesses allergenic characteristics. (gmo-safety.eu)

At some point these genetic elements acquired structural proteins from the cells and became bona fide virus particles. (virology.ws)

To study the interaction of Bin1 SH3 domain with NS5A via non-canonical binding sites, we used an NS5A fragment lacking the high-affinity SH3 binding site (PxxP motif). (biomedcentral.com)

An analysis of the sequence an structure of major virion proteins has identified likely ancestors in cellular proteins. (virology.ws)
The matrix Z proteins of arenaviruses are related to cellular RING domain proteins, and the matrix proteins of some negative strand RNA viruses are related to cellular cyclophilin. (virology.ws)
Now, the question if of course - is it of viral origin or is it a cellular protein co-opted by viruses? (virology.ws)

Mechanical forces driving the constriction are attributed to myosin motor proteins, which slide actin filaments along each other. (ciisb.org)

Anatomy3

Organisms4

Chemicals and Drugs27

Analytical, Diagnostic and Therapeutic Techniques and Equipment15

Phenomena and Processes42

Disciplines and Occupations1

Information Science4

Residues13

Domains22

Genes16

Putative3

Similarity9

Molecular8

Peptide1

Superfamily5

Conformation4

Nucleotide3

Sequences5

Gene6

Sterile Alpha Motif1

Eukaryotic9

Amino acids5

Prediction8

Functional6

Mutation3

GENOMICS2

Capsid3

Bacterial3

Helicase1

Subunits3

Membrane6

Characteristic1

Complexes1

Viral proteins2

Classification1

Domain protein1

Structures4

Chemical Shifts1

Interactions1

Helical2

Repeats2

Related bacteria1

Fold2

Inhibition1

Family7

Biology1

Intracellular1

Binds3

Precursor1

Bind2

Regulation3

Function8

Kinase domain1

Characteristics2

Bona fide1

Interaction1

Cellular3

Myosin1