CPASS specifications


Unique identifier OMICS_22004
Alternative name Comparison of Protein Active Site Structures
Software type Application/Script
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Computer skills Advanced
Version 2.0
Stability Stable
Registration required Yes
Maintained Yes


No version available


  • person_outline Robert Powers

Publication for Comparison of Protein Active Site Structures

CPASS citation


Structural and Functional Similarity between the Bacterial Type III Secretion System Needle Protein PrgI and the Eukaryotic Apoptosis Bcl 2 Proteins

PLoS One
PMCID: 2757720
PMID: 19823588
DOI: 10.1371/journal.pone.0007442
call_split See protocol

[…] d ligand-docked structures with experimental x-ray and NMR structures has yielded an overall average rmsd of 1.17±0.74 Å .A co-structure of the lipid derivative DDAB bound to PrgI was uploaded to the CPASS database ( to identify proteins with similar ligand binding sites by maximizing an rmsd weighted BLOSUM62 , scoring function (Sab). (3)where active site […]

CPASS institution(s)
Department of Chemistry, University of Nebraska-Lincoln, Lincoln, NE, USA; Holland Computing Center, University of Nebraska-Lincoln, Lincoln, NE, USA
CPASS funding source(s)
Supported by the National Institute of Allergy and Infectious Diseases [grant number R21AI081154] and by the Nebraska Tobacco Settlement Biomedical Research Development Funds.

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