Tag: protein structure


Found 154 sources
Source Match ReputationScore*

RCSB Protein Data Bank


This resource is powered by the Protein Data Bank archive-information about the 3D shapes of proteins, nucleic acids, and complex assemblies that helps students and researchers understand all aspects of biomedicine and agriculture, from protein synth ...
100%

SWISS-MODEL Repository of 3D protein structure models


The SWISS-MODEL Repository is a database of annotated 3D protein structure models generated by the SWISS-MODEL homology-modelling pipeline for protein sequences of selected model organisms.
82%

The Cambridge Structural Database


Established in 1965, the Cambridge Structural Database (CSD) is the a repository for small-molecule organic and metal-organic crystal 3D structures. Database records are automatically checked and manually curated by one of our expert in-house scienti ...
78%

Conserved Domain Database


The Conserved Domain Database (CDD) brings together several collections of multiple sequence alignments representing conserved domains, including NCBI-curated domains, which use 3D-structure information to explicitly to define domain boundaries and p ...
77%

Worldwide Protein Data Bank


The Protein Data Bank (PDB) is an archive of experimentally determined three-dimensional structures of biological macromolecules that serves a global community of researchers, educators, and students. The data contained in the archive include atomic ...
71%

Saccharomyces Genome Database


The Saccharomyces Genome Database (SGD) provides comprehensive integrated biological information for the budding yeast Saccharomyces cerevisiae along with search and analysis tools to explore these data, enabling the discovery of functional relations ...
69%

Structural Classification Of Proteins


The SCOP database is a curated both manually and with the use of automated tools. This freely available resource aims to provide a comprehensive description of the structural and evolutionary relationships between all proteins whose structure is know ...
68%

Influenza Research Database


The Influenza Research Database (IRD) is a free, open, publicly-accessible resource funded by the U.S. National Institute of Allergy and Infectious Diseases through the Bioinformatics Resource Centers program. IRD provides a comprehensive, integrated ...
68%

MEROPS


The MEROPS database is an information resource for peptidases (also termed proteases, proteinases and proteolytic enzymes) and the proteins that inhibit them.
66%

Protein Data Bank in Europe


The Protein Data Bank in Europe (PDBe) is the European resource for the collection, organisation and dissemination of data on biological macromolecular structures. It is a founding member of the worldwide Protein Data Bank which collects, organises a ...
63%

Database of Protein Disorder


The Database of Protein Disorder (DisProt) is a curated database that provides information about intrinsically disordered proteins that lack fixed 3D structure in their putatively native states, either in their entirety or in part. Disordered regions ...
59%

Biological Magnetic Resonance Databank


BMRB collects, annotates, archives, and disseminates (worldwide in the public domain) the important spectral and quantitative data derived from NMR spectroscopic investigations of biological macromolecules and metabolites. The goal is to empower scie ...
59%

ConoServer


ConoServer is a database specializing in sequences and structures of peptides expressed by marine cone snails. The database gives access to protein sequences, nucleic acid sequences and structural information on conopeptides. ConoServer's data are fi ...
59%

SUPERFAMILY


SUPERFAMILY is a database of structural and functional annotation for all proteins and genomes.
59%

Information system for G protein-coupled receptors


The GPCRDB is a molecular-class information system that collects, combines, validates and stores large amounts of heterogenous data on G protein-coupled receptors (GPCRs). The GPCRDB contains data on sequences, ligand binding constants and mutations. ...
56%

Small Molecule Pathway Database


The Small Molecule Pathway Database (SMPDB) contains small molecule pathways found in humans, which are presented visually. All SMPDB pathways include information on the relevant organs, subcellular compartments, protein cofactors, protein locations, ...
55%

PDBsum; at-a-glance overview of macromolecular structures


PDBsum provides an overview of every macromolecular structure deposited in the Protein Data Bank (PDB), giving schematic diagrams of the molecules in each structure and of the interactions between them.
54%

Virus Particle Explorer


VIPERdb is a database for icosahedral virus capsid structures. The emphasis is on providing data from structural and computational analyses on these systems, as well as high quality renderings for visual exploration.
54%

TTD, Therapeutic Target Database


The Therapeutic Target Database provides information about therapeutic protein and nucleic acid targets, the targeted disease, pathway information and the corresponding drugs directed at each of these targets. Also included in this database are links ...
53%

Protein Data Bank Japan


The Protein Data Bank is the single worldwide archive of structural data of biological macromolecules.
53%

Eukaryotic Linear Motifs


This computational biology resource mainly focuses on annotation and detection of eukaryotic linear motifs (ELMs) by providing both a repository of annotated motif data and an exploratory tool for motif prediction. ELMs, or short linear motifs (SLiMs ...
53%

European Hepatitis C Virus database


The euHCVdb is mainly oriented towards protein sequence, structure and function analyses and structural biology of Hepatitis C Virus.
51%

CAPS-DB : a structural classification of helix-capping motifs


CAPS-DB is a structural classification of helix-cappings or caps compiled from protein structures. Caps extracted from protein structures have been structurally classified based on geometry and conformation and organized in a tree-like hierarchical c ...
51%

Open Provenance Model


The Open Provenance Model (OPM) is a model of provenance that is designed to meet the following requirements: (1) To allow provenance information to be exchanged between systems, by means of a compatibility layer based on a shared provenance model. ( ...
50%

H-Invitational Database


H-Invitational Database (H-InvDB) is an integrated database of human genes and transcripts. By extensive analyses of all human transcripts, we provide curated annotations of human genes and transcripts that include gene structures, alternative splici ...
49%

Protein Circular Dichroism Data Bank


The Protein Circular Dichroism Data Bank (PCDDB) is an open-access online repository for protein circular dichroism spectral- and meta-data. Users may freely extract and deposit validated data and the validation process is conveniently integrated int ...
49%

Animal Transcription Factor Database


AnimalTFDB is a comprehensive animal transcription factor database. The resource is classification of transcription factors from 50 genomes from species including Homo sapiens and Caenorhabditis elegans. The database also has information on co-transc ...
49%

Molecular Modeling Database


The Molecular Modeling Database (MMDB), as part of the Entrez system, facilitates access to structure data by connecting them with associated literature, protein and nucleic acid sequences, chemicals, biomolecular interactions, and more.
49%

Model Archive


The Model Archive provides a stable archive for computational macro-molecular models published in the scientific literature. The model archive provides a unique stable accession code (DOI) for each deposited model, which can be directly referenced in ...
49%

Gene3D


Gene3D uses the information in CATH to predict the locations of structural domains on millions of protein sequences available in public databases. Sequence data from UniProtKB and Ensembl for domains with no experimentally determined structures are s ...
48%

PASS2


PASS2 contains alignments of structural motifs of protein superfamilies. PASS2 is an automatic version of the original superfamily alignment database, CAMPASS (CAMbridge database of Protein Alignments organised as Structural Superfamilies). PASS2 con ...
48%

IMGT/3Dstructure-DB


IMGT/3Dstructure-DB (1,2) is the three-dimensional (3D) structure database of IMGT®, the international ImMunoGenetics information system® (3,4) that is acknowledged as the global reference in immunogenetics and immunoinformatics. IMGT ...
48%

ModBase database of comparative protein structure models


ModBase (http://salilab.org/modbase) is a database of annotated comparative protein structure models. The models are calculated by ModPipe, an automated modeling pipeline that relies primarily on Modeller for fold assignment, sequence-structure align ...
48%

3D interacting domains


The database of 3D Interaction Domains (3did) is a collection of domain-domain interactions in proteins for which high-resolution three-dimensional structures are known. 3did exploits structural information to provide critical molecular details neces ...
48%

Continuously Automated Model Evaluation


Continuous automated benchmarking of computational protein structure prediction methods (and model quality estimation techniques). CAMEO assessment is based on blind predictions for weekly pre-released targets from PDB. Benchmarking results are made ...
47%

Structure Function Linkage Database Archive


Structure Function Linkage Database (SFLD) is a database of enzymes classified by linking sequences to chemical function. A hierachical systems is used to classify enzymes by family or superfamily other category levels include functional domain, subg ...
47%

Small angle scattering biological data bank


Curated repository for small angle scattering data and models. SASBDB contains X-ray (SAXS) and neutron (SANS) scattering data from biological macromolecules in solution.
47%

Kinase-Ligand Interaction Fingerprints and Structures database


Kinase-Ligand Interaction Fingerprints and Structures database (KLIFS) is a database that revolves around the protein structure of catalytic kinase domains and the way kinase inhibitors can interact with them. Based on the underlying systematic and c ...
46%

Protein Model Database


The Protein Model DataBase (PMDB) is a database that stores three dimensional protein models obtained by structure prediction techniques.
46%

MoonProt


MoonProt Database is a manually curated, searchable, internet-based resource with information about the over 200 proteins that have been experimentally verified to be moonlighting proteins. Moonlighting proteins comprise a class of multifunctional pr ...
45%

BAliBASE


BAliBASE; a benchmark alignment database, including enhancements for repeats, transmembrane sequences and circular permutations.
45%

Bacterial protein tYrosine Kinase database


The Bacterial protein tYrosine Kinase database (BYKdb) contains computer-annotated BY-kinase sequences. The database web interface allows static and dynamic queries and provides integrated analysis tools including sequence annotation.
45%

TargetMine


TargetMine integrates many types of data for human, rat and mouse. Flexible queries, export of results and data analysis are available.
44%

ValidatorDB


ValidatorDB is a collection of validation results for the entire Protein Data Bank. Annotation (3-letter code) of HET residues larger than 6 heavy atoms is inspected, i.e. if the residue has the same topology and stereochemistry as the model ligand o ...
44%

PDZBase


PDZBase is a manually curated protein-protein interaction database developed specifically for interactions involving PDZ domains. PDZBase currently contains 339 experimentally determined protein protein interactions.
44%

European Mouse Mutant Archive


The European Mouse Mutant Archive (EMMA) is a non-profit repository for the collection, archiving (via cryopreservation) and distribution of relevant mutant strains essential for basic biomedical research. The laboratory mouse is the most important m ...
44%

RESID Database of Protein Modifications


The RESID Database of Protein Modifications is a comprehensive collection of annotations and structures for protein modifications including amino-terminal, carboxyl-terminal and peptide chain cross-link post-translational modifications.
43%

MetalPDB


MetalPDB is a resource aimed at conveying the information available on the three-dimensional structures of metal-binding biological macromolecules in a consistent and effective manner. This is achieved through the systematic and automated representat ...
43%

Integrated Resource for Reproducibility in Macromolecular Crystallography


The Integrated Resource for Reproducibility in Macromolecular Crystallography (IRRMC) was created to make the raw data of protein crystallography more widely available. The IRRMC identifies, catalogs and provides metadata related to datasets that cou ...
42%

Intrinsically Disordered proteins with Extensive Annotations and Literature


IDEAL (Intrinsically Disordered proteins with Extensive Annotations and Literature) is a collection of experimentally-verified intrinsically disordered proteins (IDPs) that cannot adopt stable globular structures under physiological conditions. IDEAL ...
42%

Pocketome: an encyclopedia of small-molecule binding sites in 4D


The Pocketome is an encyclopedia of conformational ensembles of druggable binding sites that can be identified experimentally from co-crystal structures in the Protein Data Bank. Each Pocketome entry describes a site on a protein surface that is invo ...
42%

FunTree: A Resource For Exploring The Functional Evolution Of Structurally Defined Enzyme Superfamilies


A resource for exploring the evolution of protein function through relationships in sequence, structure, phylogeny and function.
42%

Protein-Chemical Structural Interactions


Protein-Chemical Structural Interactions provides information on the 3-dimensional chemical structures of protein interactions with low molecular weight.
42%

Genome3D


Genome3D is a resource that provides structural annotation and 3D models of genomes of model organisms such as human, yeast and E.coli. The database can be used to predict protein structures that have not yet been identified. Genome3D uses structural ...
41%

RNA Characterization of Secondary Structure Motifs


RNA Characterization of Secondary Structure Motifs (RNA CoSSMos) database allows the systematic searching of all catalogued three-dimensional nucleic acid PDB structures that contain secondary structure motifs such as mismatches, (a)symmetric interna ...
41%

NRG-CING


Validated NMR structures of proteins and nucleic acids.
41%

BacMap


BacMap is a picture atlas of annotated bacterial genomes. It is an interactive visual database containing hundreds of fully labeled, zoomable, and searchable maps of bacterial genomes.
41%

Protein-ligand affinity change upon mutation


Platinum is a manually curated, literature-derived database comprising over 1,000 mutations which for the first time associates experimental information on changes in protein-ligand affinity with the three-dimensional structures of the complex.
41%

Protein Structure Change Database


The Protein Structural Change DataBase (PSCDB) presents the structural changes found in proteins, represented by pairs of ligand-free and ligand-bound structures of identical proteins, and links these changes to ligand-binding.
41%

Protein Protein Interaction Inhibition Database


2P2Idb is a hand-curated structural database dedicated to the modulation of protein-protein interactions (PPIs). It includes all interactions for which both the protein-protein and protein-modulator complexes have been structurally characterized by X ...
41%

Statistical Torsional Angles Potentials of NMR Refinement Database


The STAP database contains refined versions of the NMR structures deposited in PDB. These refinements have been performed using statistical torsion angle potential and structurally- or experimentally- derived distance potential. The refined structure ...
41%

PathBank


PathBank is an interactive, visual database containing more than 100 000 machine-readable pathways found in model organisms such as humans, mice, E. coli, yeast, and Arabidopsis thaliana. The majority of these pathways are not found in any other path ...
41%

WALTZ-DB 2.0


WALTZ-DB 2.0 is a database for characterizing short peptides for their amyloid fiber-forming capacities. The majority of the data comes from electron microscopy, FTIR and Thioflavin-T experiments done by the Switch lab. Apart from that class of data ...
41%

Database of fuzzy protein complexes


FuzDB compiles experimentally observed fuzzy protein complexes, where intrinsic disorder (ID) is maintained upon interacting with a partner (protein, nucleic acid or small molecule) and directly impacts biological function. Entries in the database ha ...
40%

PDB-REPRDB


PDB-REPRDB is a reorganized database of protein chains from PDB(Protein Data Bank), and provides 'the list of the representative protein chains' and 'the list of similar protein chain groups'.
40%

Compilation and Creation of datasets from PDB


ccPDB (Compilation and Creation of datasets from PDB) is a collection of commonly used data sets for structural or functional annotation of proteins. There are numerous datasets from the literature and the Protein Data Bank (PDB), which were used for ...
40%

ChannelsDB


ChannelsDB is a comprehensive and regularly updated resource of channels, pores and tunnels found in biomacromolecules deposited in the Protein Data Bank.
40%

Protein Data Bank in Europe - Knowledge Base


PDBe-KB (Protein Data Bank in Europe - Knowledge Base) is a community-driven resource managed by the PDBe team, collating functional annotations and predictions for structure data in the PDB archive. PDBe-KB is a collaborative effort between PDBe and ...
40%

ArchDB


ArchDB is a compilation of structural classifications of loops extracted from known protein structures. The structural classification is based on the geometry and conformation of the loop. The geometry is defined by four internal variables and the ty ...
40%

Pocket Similarity Search using Multiple-Sketches


POcket Similarity Search Using Multiple-Sketches (PoSSuM) includes all the discovered protein-small molecule binding site pairs with annotations of various types (e.g., UniProt, CATH, SCOP, SCOPe, EC number and Gene ontology). PoSSuM enables rapid ex ...
39%

KinMutBase


KinMutBase is a comprehensive database of disease-causing mutations in protein kinase domains. This resources provides plenty of information, namely mutation statistics and display, clickable sequences with mutations and changes to restriction enzyme ...
39%

Database of Aligned Ribosomal Complexes


The Database for Aligned Ribosomal Complexes (DARC) site provides a resource for directly comparing the structures of available ribosomal complexes.
39%

RepeatsDB


RepeatsDB (http://repeatsdb.bio.unipd.it/) is a database of annotated tandem repeat protein structures. Tandem repeats pose a difficult problem for the analysis of protein structures, as the underlying sequence can be highly degenerate. Several repea ...
38%

Polbase


Polbase is an open and searchable database providing information from published and unpublished sources on the biochemical, genetic, and structural information of DNA polymerases.
38%

LinkProt: A database of proteins with topological links


LinkProt collects information about protein chains and complexes that form links. LinkProt detects deterministic links (with loops closed by cysteine), and determines likelihood of formation of links in networks of protein chains called MacroLinks. L ...
38%

Mutual Folding Induced by Binding Database


Mutual Folding Induced by Binding (MFIB) is a repository of protein complexes for which the folding of each constituent protein chain is coupled to the interaction forming the complex. This means that while the complexes are stable enough to have the ...
38%

PDBselect


PDBselect (http://bioinfo.tg.fh-giessen.de/pdbselect/) is a list of representative protein chains with low mutal sequence identity selected from the protein data bank (PDB) to enable unbiased statistics. The list increased from 155 chains in 1992 to ...
38%

FireDB


fireDB is a database of Protein Data Bank structures, ligands and annotated functional site residues. The database can be accessed by PDB codes or UniProt accession numbers as well as keywords.
38%

Brix


Protein building blocks for structural analysis, modeling and design
36%

IEDB-3D


Structural data within the Immune Epitope Database
36%

CUBE-DB


Detection of functional divergence in human protein families. Cube-DB is a database of pre-evaluated conservation and specialization scores for residues in paralogous proteins belonging to multi-member families of human proteins. Protein family class ...
36%

Sequence-Structural Templates of Single-member Superfamilies


SSToSS is a database which provides sequence-structural templates of single member protein domain superfamilies like PASS2. Sequence-structural templates are recognized by considering the content and overlap of sequence similarity and structural para ...
36%

Protein Geometry Database


Protein conformation and bond angles and lengths
36%

ComSin


Protein structures in bound and unbound states
36%

Apo and Holo structures DataBase


AH-DB (Apo and Holo structures DataBase) collects the apo and holo structure pairs of proteins. Proteins are frequently associated with other molecules to perform their functions. Experimental structures determined in the bound state are named holo s ...
35%

Enzyme Structure Function Ontology


The ESFO provides a new paradigm for organizing enzyme sequence, structure, and function information, whereby specific elements of enzyme sequence and structure are mapped to specific conserved aspects of function, thus facilitating the functional an ...
35%

PCDB


Protein Conformational Diversity database
35%

BSDB


Biomolecule Stretching Database
34%

Start2Fold


Hydrogen/deuterium exchange data on protein folding and stability
34%

fPOP


fPOP (footprinting Pockets Of Proteins) is a database of the protein functional surfaces identified by shape analysis. In this relational database, we collected the spatial patterns of protein binding sites including both holo and apo forms from more ...
34%

TOPSAN


The Open Protein Structure Annotation Network
34%

DOMMINO


Database of MacroMolecular INteractions
34%

SAHG


Structural Atlas of Human Genome
34%

BISC


Binary SubComplexes in Proteins Database
33%

Conformation Angles Database


Conformation Angles DataBase [ CADB-3.0 ] is a comprehensive, authoritative and timely knowledge base developed to facilitate retrieval of information related to the conformational angles (main-chain and side-chain) of the amino acid residues present ...
33%

PROtein-protein compleX MutAtion ThErmodynamics Database


PROXiMATE is a database of thermodynamic data for more than 6000 missense mutations in 174 heterodimeric protein-protein complexes, supplemented with interaction network data from STRING database, solvent accessibility, sequence, structural and funct ...
32%

PTGL


Protein Topology Graph library: Secondary structure-based protein topologies
32%

Yeast Resource Center Public Data Repository


The National Center for Research Resources' Yeast Resource Center is located at the University of Washington in Seattle, Washington. The mission of the center is to facilitate the identification and characterization of protein complexes in the yeast ...
31%

Disordered Binding Sites Database


Disordered Binding Sites (DIBS) is a repository of protein complexes that are formed by ordered and disordered proteins. Intrinsically disordered proteins (IDPs) do not have a stable 3D structure in isolation and therefore they defy structure determi ...
31%

SISYPHUS


The SISYPHUS database contains manually curated multiple structural alignments constructed for a set of proteins with known three-dimensional structures that have revealed non-trivial structural relationships and whose structural similarity is ambigu ...
29%

CPDB


The circular permutation database
29%

ConSurf-DB


Sequence conservation profiles of the proteins of known structures
29%

Phospho3D


Phospho3D is a database of three-dimensional structures of phosphorylation sites which stores information retrieved from the phospho.ELM database and which is enriched with structural information and annotations at the residue level. The database als ...
29%

GTOP - Genomes To Protein structures


Although large-scale genome projects generate an unprecedented number of protein sequences, most of them are experimentally uncharacterized. Prediction of the 3D structures of the proteins encoded by sequences provides important clues to their functi ...
27%

ProSAS


Protein Structure and Alternative Splicing: effects of alternative splicing events on protein structure
27%

PSI-SGKB


Protein Structure Initiative Structural Genomics Knowledgebase
27%

Dockground


Protein-protein interfaces in co-crystallized protein structures
27%

AS-ALPS


Alternative Splicing-induced Alteration of Protein Structure
27%

PDBflex


Flexibility in protein structures
27%

MegaMotifbase


Structural motifs in protein families and superfamilies
27%

D2P2


Database of Disordered Protein Predictions
27%

HOMSTRAD - Homologous Structure Alignment Database


HOMSTRAD (HOMologous STRucture Alignment Database) is a curated database of structure-based alignments for homologous protein families. All known protein structure are clustered into homologous families (i.e., common ancestry), and the sequences of r ...
27%

JAIL


Structure-based interface library for macromolecules
27%

ECOD


Evolutionary Classification of Protein Domains
27%

SNAPPI


Structures, iNterfaces and Alignments for Protein-Protein Interactions
27%

SIFTS


Structure Integration with Function, Taxonomy and Sequences
27%

HotSprint


Hot spots (functionally and structurally important residues) in protein interfaces
27%

Structure Superposition Database


Pairwise superposition of TIM-barrel structures
27%

MALISAM


Manual alignments for structurally analogous motifs in proteins
27%

LPFC


Library of protein family core structures
27%

AutoPSI


Automated structural classification of protein sequences
27%

piSite


Database of Protein Interaction Sites using multiple binding states in PDB
27%

Voronoia


A database for the computation of atomic packing density values of protein structures
27%

pE-DB


Protein Ensemble Database: ensembles of intrinsically disordered and of unfolded proteins
27%

SPROUTS


Structural Prediction for pRotein fOlding UTility System
27%

TargetDB


Target data from worldwide structural genomics projects
27%

EMDataBank


3D cryo-electron microscopy maps, models and metadata
27%

TSTMP


TSTMP is a database designed to help the target selection of human transmembrane proteins for structural genomics projects. The database contains human transmembrane proteins with two or more transmembrane segments considering the existence of an exa ...
27%

RsiteDB


RNA-binding sites database
27%

PDB facilities


Database of secondary structures of proteins
27%

CC+


A resource for elucidating sequence-to-structure relationships for coiled-coil folding and assembly
27%

iGNM


A database housing conformational dynamics data for all the proteins and their biological assemblies from PDB
27%

SCOPPI


SCOPPI is a database of all domain-domain interactions and their interfaces derived from PDB structure files and SCOP domain definitions. Interfaces are classified according to the geometry of the domain associations and are annotated with various in ...
27%

MolMovDB - Database of Macromolecular Movements


Descriptions of protein and macromolecular motions, including movies
27%

PRTAD


PRTAD is a dedicated database and structural bioinformatics system for protein analysis and modeling. The database is developed to host and analyze the statistical data for protein residue level "virtual" bond and torsion angles, based on their distr ...
27%

PIDD


PIDD is a dedicated database and structural bio-informatics system for distance based protein modeling. The database is developed to host and analyze the statistical data for protein inter-atomic distances based on their distributions in databases of ...
27%

DBAli


DBAli, a database of pairwise and multiple structure alignments, stores pairwise comparisons of all structures in the Protein Data Bank calculated using the program MAMMOTH. It also contains multiple structure alignments generated by the SALIGN comma ...
27%

NPIDB (Nucleic acids – Protein Interaction DataBase)


NPIDB (Nucleic acids – Protein Interaction DataBase) includes a collection of files in the PDB format containing structural information on DNA-protein and RNA-protein complexes, and a number of tools for analysis of those complexes: CluD, a pr ...
27%

eF-site - Electrostatic surface of Functional site


Electrostatic potentials and hydrophobic properties of the active sites
27%

Decoys-R-Us


Decoys are computer generated conformations of protein sequences that possess some characteristics of native proteins, but are not biologically real. The primary use of decoys is to test scoring, or energy, functions.
27%

KineticDB


KineticDB is a systematically compiled database of protein folding kinetics. The main goal of the KineticDB is to provide users with a diverse set of protein folding rates determined experimentally. At present, the KineticDB contains the results of f ...
27%

SCOPe


The ASTRAL compendium provides a set of tools and databases designed to aid investigators in the analysis of protein structure, particularly through the use of sequence comparison. Astral augments SCOP, a manual classification of protein domains acco ...
27%

PFD - Protein Folding Database


The Protein Folding Database (PFD) is a searchable collection of all annotated structural, methodological, kinetic and thermodynamic data relating to experimental protein folding studies. The database structure allows visualization of folding data in ...
27%

Jenalib: Jena Library of Biological Macromolecules


The IMB Jena Image Library of Biological Macromolecules (http://www.imb-jena.de/IMAGE.html) is aimed at a better dissemination of information on three-dimensional biopolymer structures with an emphasis on visualization and analysis. It provides acces ...
27%

IMOTdb


Structural motifs are central to the integrity of the fold and require careful analysis for their identification. IMOTdb is a repertoire of spatially interacting motifs in single protein structures as well as those among distantly related protein str ...
27%

Dali database


The Dali database is based on exhaustive all-against-all 3D structure comparison of protein structures currently in the Protein Data Bank (PDB). The classification and alignments are automatically maintained and continuously updated using the Dali se ...
27%

STINGreport


Sting Report is a service for extracting information about an individual amino acid of a protein. This information is presented as a series of GIF images and a table, integrated in a single printer-friendly HTML page, containing values of up to 125 s ...
27%

PDB_TM


Integral membrane proteins play important roles in living cells. Although these proteins are estimated to constitute around 25% of proteins at a genomic scale, the Protein Data Bank (PDB, http://www.rcsb.org/pdb) contains only a few hundred membrane ...
27%

DomIns - Database of Domain Insertions


Proteins can be formed by single or multiple domains. The process of recombination at the molecular level has generated a wide variety of multi-domain proteins with specific domain organization to cater to the functional requirements of an organism. ...
27%

CATH


The CATH database of protein domain structures (http://www.biochem.ucl.ac.uk/bsm/cath_new) currently contains 34,287 domain structures classified into 1,383 superfamilies and 3,285 sequence families. Each structural family is expanded with domain seq ...
27%

SMoS.2: Update of database of Structural Motifs in Superfamilies


Remote homology detection, namely the accumulation of reliable but distantly related sequences of a protein family, remains a challenging problem in biology. Early realisation of such relationships can provide clues on evolutionary trends and to attr ...
27%

DSDBASE


DSDBASE is a database of disulphide bonds in proteins that provides information on native disulphides and those that are stereochemically possible between pairs of residues for all known protein structural entries. The modelling of disulphides has be ...
27%

OrthoMCL


OrthoMCL is a genome-scale algorithm for grouping orthologous protein sequences. It provides not only groups shared by two or more species/genomes, but also groups representing species-specific gene expansion families. So it serves as an important ut ...
27%

DSMM - a Database of Simulated Molecular Motions


DSMM is a Database of Simulated Molecular Motions. This database is designed to serve as a single searchable site for locating movies and animations from simulations of biomolecules. DSMM is accessible via a webserver at: http://projects.villa-bosch. ...
27%

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