PepX
Names
More detailed information about this field from each metasource.
PepX
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:45.052055
pepx
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:45.052055
Names
More detailed information about this field from each metasource.
PepX
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:45.052055
pepx
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:45.052055
Names
More detailed information about this field from each metasource.
PepX
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:45.052055
pepx
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:45.052055
A non-redundant database of protein-peptide complexes
Description
More detailed information about this field from each metasource.
A non-redundant database of protein-peptide complexes
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Exhaustive data set of all protein-peptide complexes available in the PDB with peptide lengths up to 35 residues. Complexes have been clustered based on their binding interfaces rather than sequence homology, providing a set of structurally diverse protein-peptide interactions. Each complex is annotated with both biological and structural information. Peptides are also annotated with naturally occurring backbone variations using fragment clusters from the BriX database to aid peptide design.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:45.052055
Webpage:
http://pepx.switchlab.org/Webpage
More detailed information about this field from each metasource.
http://pepx.switchlab.org/
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
http://pepx.switchlab.org/pepx/
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:45.052055
Publications:
Publications
More detailed information about this field from each metasource.
PepX: a structural database of non-redundant protein-peptide complexes
PMID: 19880386
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:45.052055
http://nar.oxfordjournals.org/content/38/suppl_1/D545
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Publications
More detailed information about this field from each metasource.
PepX: a structural database of non-redundant protein-peptide complexes
PMID: 19880386
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:45.052055
http://nar.oxfordjournals.org/content/38/suppl_1/D545
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
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PepX: a structural database of non-redundant protein-peptide complexes
PubMed citations: 40.
40 articles citing: PepX: a structural database of non-redundant protein-peptide complexes
Propedia: a database for protein-peptide identification based on a hybrid clustering algorithm. PMID:33388027
DPL: a comprehensive database on sequences, structures, sources and functions of peptide ligands. PMID:33216893
ProtCID: a data resource for structural information on protein interactions. PMID:32024829
PepPro: A Nonredundant Structure Data Set for Benchmarking Peptide-Protein Computational Docking. PMID:31793016
Improved Modeling of Peptide-Protein Binding Through Global Docking and Accelerated Molecular Dynamics Simulations. PMID:31737642
A Structure-Informed Atlas of Human-Virus Interactions. PMID:31474372
A Comprehensive Review on Current Advances in Peptide Drug Development and Design. PMID:31091705
Building Bridges Between Structural and Network-Based Systems Biology. PMID:30656572
Computer-aided design of amino acid-based therapeutics: a review. PMID:29795978
FoldX accurate structural protein-DNA binding prediction using PADA1 (Protein Assisted DNA Assembly 1). PMID:29608705
PixelDB: Protein-peptide complexes annotated with structural conservation of the peptide binding mode. PMID:29024246
Protein structural motifs in prediction and design. PMID:28460216
A Comprehensive View of the β-Arrestinome. PMID:28321204
PepComposer: computational design of peptides binding to a given protein surface. PMID:27131789
DOMMINO 2.0: integrating structurally resolved protein-, RNA-, and DNA-mediated macromolecular interactions. PMID:26827237
A fast topological analysis algorithm for large-scale similarity evaluations of ligands and binding pockets. PMID:26561508
Predicting peptide-mediated interactions on a genome-wide scale. PMID:25938916
BactPepDB: a database of predicted peptides from a exhaustive survey of complete prokaryote genomes. PMID:25377257
Break CDK2/Cyclin E1 interface allosterically with small peptides. PMID:25290691
A systematic approach to identify novel cancer drug targets using machine learning, inhibitor design and high-throughput screening. PMID:25165489
PeptiSite: a structural database of peptide binding sites in 4D. PMID:24406170
3did: a catalog of domain-based interactions of known three-dimensional structure. PMID:24081580
PepBind: a comprehensive database and computational tool for analysis of protein-peptide interactions. PMID:23896518
A unified conformational selection and induced fit approach to protein-peptide docking. PMID:23516555
Learning a peptide-protein binding affinity predictor with kernel ridge regression. PMID:23497081
Mining tertiary structural motifs for assessment of designability. PMID:23422424
Secondary structure, a missing component of sequence-based minimotif definitions. PMID:23236358
BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions. PMID:23087378
In silico and in vitro elucidation of BH3 binding specificity toward Bcl-2. PMID:22702834
PEP-FOLD: an updated de novo structure prediction server for both linear and disulfide bonded cyclic peptides. PMID:22581768
Biophysical and structural considerations for protein sequence evolution. PMID:22171550
Minimotif Miner 3.0: database expansion and significantly improved reduction of false-positive predictions from consensus sequences. PMID:22146221
DOMMINO: a database of macromolecular interactions. PMID:22135305
Bimolecular integrin-ligand interactions quantified using peptide-functionalized dextran-coated microparticles. PMID:22120019
Pocketome: an encyclopedia of small-molecule binding sites in 4D. PMID:22080553
Rosetta FlexPepDock web server--high resolution modeling of peptide-protein interactions. PMID:21622962
Rosetta FlexPepDock ab-initio: simultaneous folding, docking and refinement of peptides onto their receptors. PMID:21572516
BriX: a database of protein building blocks for structural analysis, modeling and design. PMID:20972210
3did: identification and classification of domain-based interactions of known three-dimensional structure. PMID:20965963
Can self-inhibitory peptides be derived from the interfaces of globular protein-protein interactions? PMID:20607702 - http://nar.oxfordjournals.org/content/38/suppl_1/D545
Tags:
Tags
More detailed information about this field from each metasource.
metabolic and signaling pathways
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
protein-protein interactions
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
small molecules
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:45.052055
molecular interactions, pathways and networks
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:45.052055
protein folding, stability and design
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:45.052055
proteins
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:45.052055
structure analysis
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:45.052055
Tags
More detailed information about this field from each metasource.
metabolic and signaling pathways
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
protein-protein interactions
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
small molecules
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:45.052055
molecular interactions, pathways and networks
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:45.052055
protein folding, stability and design
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:45.052055
proteins
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:45.052055
structure analysis
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:45.052055
metabolic and signaling pathways protein-protein interactions small molecule molecular interactions, pathways and networks protein folding, stability and design proteins structure analysis
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