Predict contacting residue pairs proteins protein residues. Medical search. Frequent questions

These methods effectively reduce false positive predictions by globally considering all inter-residue correlations. (biomedcentral.com)
Protein inter-residue contact maps provide a translation and rotation invariant topological representation of a protein. (biomedcentral.com)
Predicting full inter-residue distance maps and applying them in protein structure predictions has been relatively unexplored in the past. (biomedcentral.com)
Over the years, we have employed methods based on inter-residue average distance statistics to predict the folding mechanisms of various ordered proteins. (biomedcentral.com)

Theoretically, native residue contacts that are essential for protein structure or function could be inferred from correlated mutations of residue pairs in evolution. (biomedcentral.com)
Within groups separated by MSS/MSI status, this identifies distinct profiles of nucleotide hotspots, and suggests differing profiles of protein-damaging effects of mutations. (nature.com)
Mutations in ganglioside-induced differentiation-associated protein 1 (GDAP1) cause two types of CMT, demyelinating CMT4A and axonal CMT2K. (biorxiv.org)
Ganglioside-induced differentiation-associated protein 1 (GDAP1) is an integral mitochondrial outer membrane (MOM) protein, and the GDAP1 gene is one of the most abundant in missense mutations linked to CMT [ 8 - 10 ]. (biorxiv.org)
Experiments together with molecular modeling using NMR chemical shifts suggest that new interactions involving intrinsically disordered proteins may evolve via a low-affinity complex which is optimized by modulating direct interactions as well as dynamics, while tolerating several potentially disruptive mutations. (elifesciences.org)
Furthermore, accurate identification of key residues participating in PPIs is critical to understand disease-associated mutations and fine-tune PPIs. (nature.com)
The overwhelming majority of inherited retinal diseases result in the loss of these cells, either directly, such as in dominant mutations that affect rhodopsin protein folding, or indirectly, such as in recessive mutations that affect retinal recycling pathways in the retinal pigment epithelium (RPE). (justia.com)

However, subsequent research has shown that there are many proteins without specific 3D-structures under physiological conditions, so-called intrinsically disordered proteins (IDPs). (biomedcentral.com)
Protein-protein interactions involving intrinsically disordered proteins are important for cellular function and common in all organisms. (elifesciences.org)
However, a group of proteins called 'intrinsically disordered proteins' are flexible in their shape and lack a stable three-dimensional structure. (elifesciences.org)
analyzed the amino acid sequences of two specific intrinsically disordered proteins from different organisms to reconstruct the versions of the proteins that were likely found in their common ancestors 450-600 million years ago. (elifesciences.org)

Motivated by the development of techniques for determining the primary (amino acid) sequence of proteins by Frederick Sanger in 1955, Zuckerkandl and Pauling postulated that such sequences could be used to infer not only the phylogeny relating the observed protein sequences, but also the ancestral protein sequence at the earliest point (root) of this tree. (wikipedia.org)
Today, computational methods for ancestral reconstruction continue to be extended and applied in a diversity of settings, so that ancestral states are being inferred not only for biological characteristics and the molecular sequences, but also for the structure or catalytic properties of ancient versus modern proteins, the geographic location of populations and species (phylogeography) and the higher-order structure of genomes. (wikipedia.org)
The residue contact information could be predicted from amino acid sequences. (biomedcentral.com)
Subsequently, ADARs were found to deaminate adenosines site-specifically within the coding sequences of transcripts encoding ion-channel subunits, increasing the diversity of these proteins in the central nervous system. (biomedcentral.com)
From generating novel protein sequences to novel protein structures, ML-based deep neural networks have paved the way for further novel discoveries. (cbirt.net)
Creationist scientists and Intelligent Design proponents have drawn attention to the sparseness of native-like folded proteins among random polypeptide sequences. (creation.com)
and the need for many protein sequences which fold into a single stable conformation. (creation.com)
FIG. 6 provides amino acid sequences corresponding to amino acids 570-610 of AAV2 ( FIG. 5 ) of AAV capsid protein VP1 of various AAV serotypes. (justia.com)

The objectives of this research were to identify in silico new protein targets of BPs associated with seven noncommunicable diseases (NCDs), and to study their protein-ligand interactions using computer-aided tools. (nih.gov)
Protein-protein interactions between predicted targets were examined using STRING, and the protocol was validated in terms of binding site recognition and correlation between in silico affinities and in vitro data. (nih.gov)
However, information of residue pairing in β strands could be extracted from a noisy contact map, due to the presence of characteristic contact patterns in β-β interactions. (biomedcentral.com)
Furthermore, it can also predict a core region of IDPs forming definite 3D structures through interactions, such as dimerization. (biomedcentral.com)
Surprisingly, IDPs exhibit their functions through interactions with another protein despite their lack of well-defined structures. (biomedcentral.com)
3. Causality, transfer entropy, and allosteric communication landscapes in proteins with harmonic interactions. (nih.gov)
At multiple time points during evolution, new or modified proteins - and consequently new potential interactions between proteins - have emerged. (elifesciences.org)
The findings shed light on fundamental principles of how new protein-protein interactions emerge and evolve on a molecular level. (elifesciences.org)
A next step for the future will be to investigate how other protein-protein interactions have evolved and to identify general underlying patterns. (elifesciences.org)
A deeper knowledge of how this molecular evolution happened will broaden our understanding of present day protein-protein interactions and might aid the design of drugs that can mimick proteins. (elifesciences.org)
The heavy chain of HPlm consists of five repeating triple-disulfide-linked peptide regions, c. 80 amino acid residues in length, termed kringles (K), that are responsible for interactions of HPlg and HPlm with substrates, inhibitors and regulators of HPlg activation. (embl.de)
The amino acid residues important in these kringle/ligand binding interactions have been proposed by structural determinations, and their relative importance quantified by site-directed mutagenesis experimentation. (embl.de)
To evaluate the range of HLA alleles that could display the ALK neoepitopes, we used structure-based Rosetta comparative modeling calculations, which accurately predict several additional high affinity interactions and compare our results with commonly used prediction tools. (frontiersin.org)
The authors screened 49 billion protein-DNA interactions to generate codes and rules to design ZFs in a DL-based model ZFDesign. (cbirt.net)
Globular proteins have been the best studied, being easier to isolate in vitro , separated from other cellular bio-chemical interactions. (creation.com)

Thousands of globular proteins are critically important, and are used as enzymes and for other purposes 8 . (creation.com)
9 To function at all, and reliably, globular proteins must fold into precise three dimensional structures. (creation.com)

This document outlines metrics used in contact prediction in the past and provides feedback from the CASP13 contact prediction assessor, Andras Fiser. (predictioncenter.org)
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)
David Baker/Rosetta and Jinbo Xu/RaptorX-Contact groups speculate that we need 1.5L ~ 2L contacts to obtain good contact-assisted ab initio contact prediction. (predictioncenter.org)
Despite the rapid progress of protein residue contact prediction, predicted residue contact maps frequently contain many errors. (biomedcentral.com)
This information may benefit the tertiary structure prediction of mainly β proteins. (biomedcentral.com)
Our algorithm RDb 2 C adopts ridge detection, a well-developed technique in computer image processing, to capture consecutive residue contacts, and then utilizes a novel multi-stage random forest framework to integrate the ridge information and additional features for prediction. (biomedcentral.com)
Taking the prediction of the more advanced RaptorX-Contact as input, RDb 2 C achieves impressively higher performance, with F1-scores reaching ~ 76% and ~ 86% at the residue level and strand level, respectively. (biomedcentral.com)
In a test of structural modeling using the top 1 L predicted contacts as constraints, for 61 mainly β proteins, the average TM-score achieves 0.442 when using the raw RaptorX-Contact prediction, but increases to 0.506 when using the improved prediction by RDb 2 C. (biomedcentral.com)
Our method can significantly improve the prediction of β-β contacts from any predicted residue contact maps. (biomedcentral.com)
Prediction results of our algorithm could be directly applied to effectively facilitate the practical structure prediction of mainly β proteins. (biomedcentral.com)
Since Anfinsen's dogma [ 1 ] was firstly introduced, prediction of the tertiary structures of proteins has become the Holy Grail in structural bioinformatics. (biomedcentral.com)
Although practical tertiary structure prediction generally requires intensive sampling in the conformational space, the computational consumption could be greatly alleviated with the knowledge of residue pairs that are in contact in the native conformation. (biomedcentral.com)
Prediction results are frequently output as a score matrix that lists the possibility of each residue pair to be close in the native conformation, but could also be plotted as an image that is known as the predicted residue contact map. (biomedcentral.com)
It was reported that predicted residue contacts with an accuracy of 22% or higher could be used as restraints to positively contribute to the practical protein structure prediction [ 3 ]. (biomedcentral.com)
However, the prediction of contact maps represents an unbalanced problem as far fewer examples of contacts than non-contacts exist in a protein structure. (biomedcentral.com)
In this study we explore the possibility of completely eliminating the unbalanced nature of the contact map prediction problem by predicting real-value distances between residues. (biomedcentral.com)
The methodology presented here, if complemented by more complex reconstruction protocols, can represent a possible path to improve machine learning algorithms for 3D protein structure prediction. (biomedcentral.com)
In the absence of a reliable solution to the protein structure prediction problem, some research groups have focused on solving simplified problems such as the prediction of protein structural features [ 12 - 14 ]. (biomedcentral.com)
1. Prediction of allosteric communication pathways in proteins. (nih.gov)
12. Prediction of Protein Allosteric Signalling Pathways and Functional Residues Through Paths of Optimised Propensity. (nih.gov)
Whilst elicitation of the symptoms of allergic contact computational sensitization hazard prediction dermatitis (ACD) upon subsequent exposure to rulebase tools such as Deduction and Estimation the same or cross-reactive chemicals. (cdc.gov)

Analysis of non-redundant SCOP structures from Y. Zhang's group shows that the average number of short, medium, and long-range contacts of a well folded protein domain is 0.3*L, 0.4*L, and 1.2*L, respectively. (predictioncenter.org)
Because only a few sugar porter structures have been determined, mechanistic models have been constructed by piecing together structural states of distantly related proteins. (bvsalud.org)
Here, we have combined coevolution analysis and comparative modeling, to predict structures of the entire sugar porter superfamily in each state of the transport cycle. (bvsalud.org)
Template-based models utilize sequence and structure similarity between an unknown protein, the so-called 'target' , and known structures, termed 'templates' , fathomed to be homologous to the target. (biomedcentral.com)
However, the most prevalent ab initio models still utilize known protein structures to some degree, i.e. small structural fragments with the strong sequence-structure relationship [ 7 ]. (biomedcentral.com)
Analysis of the X-ray structures of the two peptides bound to HLA-B*15:01 reveals drastically different conformations with measurable changes in the stability of the protein complexes, while the self-epitope is excluded from binding due to steric hindrance in the MHC groove. (frontiersin.org)
And, you know, collagen is probably the most abundant protein, and there had been several structures of collagen, related to collagen. (nih.gov)

1987. Statistical correlations for predicting the partition coefficient for nonpolar organic contaminants between aquifer organic carbon and water. (cdc.gov)

Many eukaryotic protein kinases are activated by phosphorylation on a specific conserved residue in the regulatory activation loop, a post-translational modification thought to stabilize the active DFG-In state of the catalytic domain. (elifesciences.org)
The catalytic activity of protein kinases is regulated by finely-tuned allosteric mechanisms that reversibly switch the kinase domain between active and inactive conformational states ( Huse and Kuriyan, 2002 ). (elifesciences.org)

This mechanism raises new questions about the functional role of the DFG-Out state in protein kinases. (elifesciences.org)
9. MCPath: Monte Carlo path generation approach to predict likely allosteric pathways and functional residues. (nih.gov)
Then, we couple this ability to predict potential functional outcomes with a screening and selection assay in live Escherichia coli to reduce the mutational search space of five residues along the proton-pumping pathway in GR1-CFP. (acs.org)

In this work, we propose a novel ridge-detection-based β-β contact predictor to identify residue pairing in β strands from any predicted residue contact map. (biomedcentral.com)
After demonstrating the reconstruction potential of distance maps, we develop two classes of predictors using two-dimensional recursive neural networks: an ab initio predictor that relies only on the protein sequence and evolutionary information, and a template-based predictor in which additional structural homology information is provided. (biomedcentral.com)

The nht, mia, sa and rye proteins contain histone fold domain dimerization motifs. (sdbonline.org)

7. Allostery and cooperativity in multimeric proteins: bond-to-bond propensities in ATCase. (nih.gov)

NoVs to examine their infectivity and to produce convales- capsid protein (VP2) (1,4,5). (cdc.gov)
The capsid protein contains cent-phase antiserum for antigenic analysis. (cdc.gov)
The present disclosure provides adeno-associated virus (AAV) virions with altered capsid protein, where the AAV virions exhibit greater infectivity of retinal cells, when administered via intravitreal injection, compared to wild-type AAV. (justia.com)

Our computational approach is transferable to any transporter, and to other protein families in general. (bvsalud.org)
The ability to correlate the function of a protein and its three-dimensional (3D) structure is a challenge of fundamental importance in computational biology. (biomedcentral.com)
The ancestral proteins were then 'resurrected' by recreating them in test tubes and their characteristics and properties analyzed with experimental and computational biophysical methods. (elifesciences.org)

were the first to apply bioinformatics techniques to the study of IDPs [ 4 ] by developing a program to predict regions with no defined 3D structure in a protein sequence, called PONDR [ 5 ]. (biomedcentral.com)

2. Information flow and allosteric communication in proteins. (nih.gov)
8. Contact rearrangements form coupled networks from local motions in allosteric proteins. (nih.gov)
13. Entropy Transfer between Residue Pairs and Allostery in Proteins: Quantifying Allosteric Communication in Ubiquitin. (nih.gov)
15. Exploiting protein flexibility to predict the location of allosteric sites. (nih.gov)
18. Probing Allosteric Mechanism with Long-Range Rigidity Transmission Across Protein Networks. (nih.gov)
19. Computation of conformational coupling in allosteric proteins. (nih.gov)

Stringent regulatory control of protein kinases is critically important for the integrity of cellular signal transduction. (elifesciences.org)

An in-house analysis shows that the three definitions on CASP targets agree in 80+ % of cases (i.e., contact between two residues according to measure x is also a contact according to measure y). (predictioncenter.org)
Lastly, we demonstrate the ability of the two predictors to reconstruct the CASP9 targets shorter than 200 residues producing the results similar to the state of the machine learning art approach implemented in the Distill server. (biomedcentral.com)

Also, previous assessments evaluated predictions on medium + long-range contacts (12+ residues separation). (predictioncenter.org)
They can be used as an intermediary step in protein structure predictions. (biomedcentral.com)
Moreover, it can be used as an intermediary step in protein structure predictions either on its own or complemented by NMR restraints. (biomedcentral.com)

We further discuss the case of p53, a tumor-suppressor protein, which is the most significant protein among cell cycle regulatory proteins. (biomedcentral.com)
Plasminogen, HGF/SF and HGF1/MSP represent paradigmatic examples of the modern, multi-domain proteins typically associated with vertebrate organisms and illustrate a novel evolutionary pathway that led to the emergence of molecules with growth regulatory activity from proteolytic enzymes. (embl.de)
The non-structural rep gene encodes four regulatory proteins essential for viral replication, whereas cap encodes three structural proteins (VPI-3) that assemble into a 60-mer capsid shell. (justia.com)

However, there may exist other transport proteins with uncharacterized roles in sugar compartmentation. (bvsalud.org)
Yet, these proteins play important roles in many processes that require the protein to interact with a number of other proteins. (elifesciences.org)

These methods rely on various measures like amino acid propensity, secondary structure propensity or amino acid contact potential with various techniques such as support vector machine, neural net and so on [ 3 ]. (biomedcentral.com)

Or we simply can use the number of long-range contacts in the native structure? (predictioncenter.org)
For instance, L /8 ( L is the protein length) native residue contacts are sufficient to guide a protein to fold into its correct 3D structure [ 2 ]. (biomedcentral.com)
As such, structural fragments are used as building blocks in reconstructing the complete structure of the target protein. (biomedcentral.com)
Information in the contact map about which residues are predicted to not be close in space is applied via conservative repulsive distance restraints which are used in early phases of the structure calculations. (nih.gov)
It had long been thought that a protein exhibits its specific function through its own specific 3D-structure under physiological conditions. (biomedcentral.com)
The technique in our study may also serve as a means of predicting a disordered region which would become an ordered structure when binding to another protein. (biomedcentral.com)
Anfinsen's discovery [ 1 ] that a protein exhibits its specific function through its own specific 3D-structure under physiological conditions dominated protein research for many years. (biomedcentral.com)
In practice, the problem becomes even more complex when one also wants to achieve a balance between a good fit of atom positions to the map, while also establishing good stereochemistry or allowing protein secondary structure to change during fitting. (biophysics.se)
The disease variant proteins retain close to normal structure and solution behaviour, but both present a large decrease in thermal stability. (biorxiv.org)
The specific order of amino acids in a protein determines its shape and structure, which in turn controls what the protein can do. (elifesciences.org)
Proteins that bind in a structure-specific manner enable the seeding of condensates with the potential to regulate a wide range of biological processes. (mdpi.com)
Subsequent determination of the X-ray structure of an HLA-A*01:01 bound neoepitope validates atomic features seen in our Rosetta models with respect to key residues relevant for MHC stability and T cell receptor recognition. (frontiersin.org)
It was trained on 53 complexes using various features, based on both protein 3D structure and sequence. (nature.com)
The structure of membrane proteins, however, is completely different when embedded in a membrane as to when in aqueous solution. (creation.com)
They used a polyproline sequence structure and they had every third residue of glycine, and the glycine made a contact with the main chain of another, with another main chain, and that's what held the whole thing together. (nih.gov)
The polyproline structure had a threefold repeat, so you went from three residues and then you were above the first---one, two, three, and you were above the first one, and we kept on doing that. (nih.gov)

Observations suggest that hydrophilic residues in IDRs are abundant and hydrophobic residues are scarce [ 4 ]. (biomedcentral.com)

Instead, typically, a small set of residues contributes the most to binding, the so-called binding Hot-Spots (HS). (nature.com)

Sugar transport proteins are present in plasma membranes and in membranes of organelles such as vacuoles, the Golgi apparatus, and plastids. (bvsalud.org)

However, these methods ignore the transitive correlation between residues and thus generate many false positive results. (biomedcentral.com)
We have analyzed the state-specific contacts inferred from coevolving residue pairs and shown how this information can be used to rapidly generate free-energy landscapes consistent with experimental estimates, as illustrated here for the mammalian fructose transporter GLUT5. (bvsalud.org)
A well accepted definition for HS residues are those which, upon alanine mutation, generate a binding free energy difference (ΔΔG binding ) ≥2.0 kcal/mol. (nature.com)

These states include the genetic sequence (ancestral sequence reconstruction), the amino acid sequence of a protein, the composition of a genome (e.g., gene order), a measurable characteristic of an organism (phenotype), and the geographic range of an ancestral population or species (ancestral range reconstruction). (wikipedia.org)
The results showed that the ancestral proteins created weaker bonds between them compared to more 'modern' ones, and were more flexible even when bound together. (elifesciences.org)

For the past several years, we have been developing new tools and methodologies to accurately predict HS. (nature.com)

Among the diverse structural families of DNA-binding proteins, the Cys 2 His 2 zinc finger motif is the most frequently used, starting from yeast to humans, and the mechanism of its binding to DNA is well understood. (cbirt.net)

In this review, we consider some of the theoretical aspects of protein haptenation, how mechanisms of protein haptenation can be investigated experimentally and how we can use such knowledge in the development of novel, alternative approaches for predicting skin sensitization potential in the future. (cdc.gov)
The basis of hapten- molecular mechanisms of the sensitization pro- protein binding work is the hypothesis that upon cess will result in novel opportunities for the skin absorption, only protein-reactive chemicals development of alternative methods for assessing (or those that can be metabolically or chemically skin sensitization hazard and relative potency of converted to protein-reactive species) are able to chemicals. (cdc.gov)

The necessity of expressing and purifying each individual protein before measurement leads to the low-throughput of these techniques, which is a major bottleneck in HS identification 6 . (nature.com)

In the endogenous presentation pathway (MHC class I), abundantly expressed intracellular proteins are processed by the immunoproteasome and proteasome to yield short peptide fragments that are transported into the endoplasmic reticulum and assembled together with the MHC-I heavy chain and β2-microglobulin light chain (β 2 m) by the peptide-loading complex ( 2 ). (frontiersin.org)

The NoV genome is 7.3-7.7 kb long with 3 open by RT-PCR with a calicivirus universal primer pair reading frames (ORFs) encoding a polyprotein that under- p290/110 targeting the RdRp region (15,16), followed by goes protease processing to produce several nonstructural sequencing the 3 kb on the 3 end of the genome for 5 NoV proteins, including an RNA-dependent RNA polymerase strains. (cdc.gov)
To identify proteins that might collaborate with the dTAF5 homolog can to regulate expression of specific target genes in Drosophila spermatocytes, the expression and function of other TAF II homologs in the Drosophila genome were investigated (Hiller, 2004). (sdbonline.org)

Contrary to this opinion, it was alleged that protein folds are very common among random amino acid chains. (creation.com)

neighboring mine proteins contain formatted Researched for a molecular layer of possible species and the protein of a molecular Existence is curved to temporal and Everyday ia of the l, in permanent approach request. (sojars593.org)

However, other molecules, such as bisphenol A bis(diphenyl phosphate) (BDP), bisphenol PH (BPPH), and Pergafast 201 also exhibited great affinities (top 10 affinity scores for each disease) with proteins related to NCDs. (nih.gov)

It is proposed that the products of the five Drosophila genes encoding testis TAF homologs collaborate in an alternative TAF-containing protein complex to regulate a testis-specific gene expression program in primary spermatocytes required for terminal differentiation of male germ cells (Hiller, 2004). (sdbonline.org)
For example, an alternate form of TAF4 (TAF4b -- formerly hTAF II 105) highly expressed in granulosa cells was found to associate with TBP and TAF1 in a large, TFIID-like protein complex in ovarian extracts (Freiman, 2001) and to be required for normal follicular development and for expression of a number of genes in developing ovarian follicles in mice (Hiller, 2004 and references therein). (sdbonline.org)

The ADM technique was developed to predict compact regions or structural domains in a protein. (biomedcentral.com)
Kringles are autonomous structural domains, found throughout the blood clotting and fibrinolytic proteins. (embl.de)

This protein contains a partially disordered region which becomes ordered upon interaction with its co-activator, CREB-binding protein (CBP), thereby permiting its function. (biomedcentral.com)
Understanding the molecular function of the proteins involved in the etiology of neuropathies is vital in efforts towards treatment and diagnosis. (biorxiv.org)
To unlock this non-natural function, a single point mutation at the Schiff counterion position (D121V) was introduced into wt GR fused to cyan fluorescent protein (CFP) resulting in GR1-CFP. (acs.org)

In CASP12 assessors stated that "No definite answer can be drawn regarding the best number of contacts to use for modeling. (predictioncenter.org)

Gene expression is controlled by various protein switches, like repressors and activators, via DNA binding in a sequence-specific manner. (cbirt.net)
FIG. 3 provides representative fluorescence images of retinal cryoslices showing green fluorescent protein (GFP) expression resulting from 7M8 carrying the GFP gene under the control of the ubiquitous CAG promoter (left) or a photoreceptor-specific Rho promoter (right). (justia.com)

Thus, the principle of protein or peptide haptenation could be used in in vitro assays to predict the sensitization potential of a new chemical entity. (cdc.gov)

The nht and rye proteins interact structurally when co-expressed in bacteria, similarly to their generally expressed homologs TAF4 and TAF12, which heterodimerize. (sdbonline.org)

We present SpotOn, a web server to identify and classify interfacial residues as Hot-Spots (HS) and Null-Spots (NS). (nature.com)

Critical for the understanding of PPIs has been the discovery that the driving forces for protein coupling are not evenly distributed across their interaction surfaces. (nature.com)

Starting from the predicted contact map of CCMpred, RDb 2 C remarkably outperforms all state-of-the-art methods on two conventional test sets of β proteins (BetaSheet916 and BetaSheet1452), and achieves F1-scores of ~ 62% and ~ 76% at the residue level and strand level, respectively. (biomedcentral.com)
The transfer of phosphate groups onto proteins (protein phosphorylation) is one of the most important methods used to send signals inside cells. (elifesciences.org)
A skin sensitizer is a chemical with an intrinsic currently reliant on in vivo methods such as the ability to induce contact allergy. (cdc.gov)
In affected indivi- chemicals possessing the ability to react with duals, it has a serious impact on their quality of proteins, and hence these methods do not esti- life. (cdc.gov)

Contact Dermatitis 2005: 53: 189-200 absence of in vivo animal data. (cdc.gov)
This would indicate that abiogenesis beginning with proteins in the absence of a genetic code would have no scientific support. (creation.com)

Contacts in target proteins. (predictioncenter.org)
According to the vHTS, several BPs may target proteins associated with NCDs, some of them with stronger affinities than bisphenol A (BPA). (nih.gov)
However, the accuracy of template-based models strongly relies on the degree of similarity between the target and its templates, thus preventing its application to a significant fraction of unannotated proteins. (biomedcentral.com)

One of the key molecular events in skin sensitization is protein haptenation, i.e. the chemical modification of self-skin protein(s) thus forming macromolecular immunogens. (cdc.gov)

Each contact is assigned a probability p [0;1] reflecting confidence of the assignment. (predictioncenter.org)
We show results of running the new PASD protocol on six proteins and demonstrate that useful assignment and structural information is extracted on proteins of more than 220 residues. (nih.gov)

In RL evaluation, the previous assessments mainly discussed results on the L/5 long-range contact lists. (predictioncenter.org)
The DNA binding results from α-helices being placed into the major groove facilitating specific amino acids to engage in base-specific contacts. (cbirt.net)

They are found in a varying number of copies in some plasma proteins including prothrombin and urokinase-type plasminogen activator, which are serine proteases belonging to MEROPS peptidase family S1A. (embl.de)
Membrane proteins probably make up the majority of all proteins found in the cell. (creation.com)

Proteins are an important building block of life and are vital for almost every process that keeps cells alive. (elifesciences.org)

Anatomy10

Organisms10

Chemicals and Drugs104

Analytical, Diagnostic and Therapeutic Techniques and Equipment45

Phenomena and Processes85

Disciplines and Occupations3

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Inter-residue4

Mutations7

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Sequences8

Interactions15

Globular proteins2

Prediction21

Structures7

Correlations1

Catalytic2

Functional3

Predictor2

Motifs1

Propensities1

Capsid protein3

Computational3

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Critically important1

Targets2

Predictions3

Regulatory3

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Propensity1

Structure16

Abundant1

Typically1

Membranes1

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