ccPDB specifications


Unique identifier OMICS_16423
Name ccPDB
Alternative name Compilation and Creation of datasets from PDB
Restrictions to use None
Database management system MySQL
Community driven No
Data access File download, Browse
User data submission Allowed
Maintained Yes


Publications for Compilation and Creation of datasets from PDB

ccPDB citations


BLAST based structural annotation of protein residues using Protein Data Bank

Biol Direct
PMCID: 4727276
PMID: 26810894
DOI: 10.1186/s13062-016-0106-9

[…] ion of protein. The default annotation is based on the consensus of structure/function information of most similar ten PDB chains. The structure/function information of PDB chains is derived from the ccPDB database and non-redundant databases are created using the NCBI toolkit. The number of PDB chains can be increased to boost the annotation confidence score and PDB search space. Since, many PDB […]


Evaluation of Protein Dihedral Angle Prediction Methods

PLoS One
PMCID: 4148315
PMID: 25166857
DOI: 10.1371/journal.pone.0105667

[…] prediction methods SPINE X and ANGLOR. These methods were evaluated on three different datasets; (i) SPINE X (2479 protein chains), (ii) ANGLOR (1989 protein chains), and (iii) a latest dataset from ccPDB (4682 protein chains) , , . As the standalone of TANGLE method was not available, we were unable to benchmark TANGLE method on all datasets. Instead, we compared it with SPINE X and ANGLOR metho […]

ccPDB funding source(s)
This work was supported by OSDD, CSIR and DBT (India).

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