Compilation and Creation of datasets from PDB
Names
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Compilation and Creation of datasets from PDB
metasource: Fairsharing.org
version: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
ccPDB
metasource: Fairsharing.org
version: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:23:28.455363
ccpdb
metasource: bio.tools
version: extracted_at: 2022-11-04T11:23:28.455363
Names
More detailed information about this field from each metasource.
Compilation and Creation of datasets from PDB
metasource: Fairsharing.orgversion: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
ccPDB
metasource: Fairsharing.orgversion: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:23:28.455363
ccpdb
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:23:28.455363
Names
More detailed information about this field from each metasource.
Compilation and Creation of datasets from PDB
metasource: Fairsharing.orgversion: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
ccPDB
metasource: Fairsharing.orgversion: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:23:28.455363
ccpdb
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:23:28.455363
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 developing methods to annotate proteins at the sequence (or residue) level. A tool is available for creating a wide range of customized data sets from PDB.
Description
More detailed information about this field from each metasource.
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 developing methods to annotate proteins at the sequence (or residue) level. A tool is available for creating a wide range of customized data sets from PDB.
metasource: Fairsharing.orgversion: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
Compilation and Creation of datasets from Protein Data Bank
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
ccPDB (Compilation and Creation of datasets from PDB) is designed to provide service to scientific community working in the field of function or structure annoation of proteins. This database of datasets is complied from the literature and the Protein Data Bank (PDB), where all datasets were derived from PDB.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:23:28.455363
Webpage:
https://webs.iiitd.edu.in/raghava/ccpdb/Webpage
More detailed information about this field from each metasource.
https://webs.iiitd.edu.in/raghava/ccpdb/
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:23:28.455363
http://crdd.osdd.net/raghava/ccpdb/
metasource: Fairsharing.orgversion: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Licence:
Name: Creative Commons Attribution-NonCommercial 3.0 Unported (CC BY-NC 3.0)Licence name
More detailed information about this field from each metasource.
Creative Commons Attribution-NonCommercial 3.0 Unported (CC BY-NC 3.0)
metasource: Fairsharing.orgversion: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
Licence URL
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https://creativecommons.org/licenses/by-nc/3.0/
metasource: Fairsharing.orgversion: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
ccPDB: compilation and creation of data sets from Protein Data Bank
PMID: 22139939
metasource: Fairsharing.org
version: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:23:28.455363
http://dx.doi.org/10.1093/nar/GKR1150
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.
ccPDB: compilation and creation of data sets from Protein Data Bank
PMID: 22139939
metasource: Fairsharing.org
version: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:23:28.455363
http://dx.doi.org/10.1093/nar/GKR1150
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
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ccPDB: compilation and creation of data sets from Protein Data Bank
PubMed citations: 12.
12 articles citing: ccPDB: compilation and creation of data sets from Protein Data Bank
Localpdb- a Python package to manage protein structures and their annotations. PMID:35199148
DeepDISE: DNA Binding Site Prediction Using a Deep Learning Method. PMID:34073705
CavBench: A benchmark for protein cavity detection methods. PMID:31609980
ccPDB 2.0: an updated version of datasets created and compiled from Protein Data Bank. PMID:30689843
A CATH domain functional family based approach to identify putative cancer driver genes and driver mutations. PMID:30670742
Dihedral angle preferences of amino acid residues forming various non-local interactions in proteins. PMID:28577238
The Loss and Gain of Functional Amino Acid Residues Is a Common Mechanism Causing Human Inherited Disease. PMID:27564311
A web server for analysis, comparison and prediction of protein ligand binding sites. PMID:27016210
BLAST-based structural annotation of protein residues using Protein Data Bank. PMID:26810894
Evaluation of protein dihedral angle prediction methods. PMID:25166857
Open source drug discovery in practice: a case study. PMID:23029588
TFinDit: transcription factor-DNA interaction data depository. PMID:22943312 - http://dx.doi.org/10.1093/nar/GKR1150
Tags:
Tags
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annotation
metasource: Fairsharing.org
version: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein structure
metasource: Fairsharing.org
version: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
structure databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
proteins
metasource: bio.tools
version: extracted_at: 2022-11-04T11:23:28.455363
database management
metasource: bio.tools
version: extracted_at: 2022-11-04T11:23:28.455363
protein folding, stability and design
metasource: bio.tools
version: extracted_at: 2022-11-04T11:23:28.455363
protein structure analysis
metasource: bio.tools
version: extracted_at: 2022-11-04T11:23:28.455363
protein secondary structure
metasource: bio.tools
version: extracted_at: 2022-11-04T11:23:28.455363
Tags
More detailed information about this field from each metasource.
annotation
metasource: Fairsharing.orgversion: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein structure
metasource: Fairsharing.orgversion: FAIRsharing.org: ccPDB; Compilation and Creation of datasets from PDB; DOI: https://doi.org/10.25504/FAIRsharing.3vfc16; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
structure databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
proteins
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:23:28.455363
database management
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:23:28.455363
protein folding, stability and design
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:23:28.455363
protein structure analysis
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:23:28.455363
protein secondary structure
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:23:28.455363
protein structure structure proteins data management protein folding, stability and design protein structure analysis protein secondary structure
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