Structure Alignment View

Pre-calculated jFATCAT_rigid results for 2PYP.A vs. 2Z6C.A .
 

This page provides a summary view of the protein structure alignment.

Structure Alignment Results
Alignment Details: Query: (
 
orange/dark grey)
PHOTOACTIVE YELLOW PROTEIN
 Subject: (
 
cyan/light grey)
Phototropin-1
P-value: 1.02e-06
Score: 178.72
RMSD: 2.74
%Id: 16.0%
 2PYP
PDB ID: 2PYP
Chain ID: A
Length: 125
Similarity: 78%
EC number:
2Z6C
PDB ID: 2Z6C
Chain ID: A
Length: 121
Similarity: 81%
EC number: 2.7.11.1
 
Comparison Method
Select these two chains for other comparison:
Click here to align other protein chains. Back to the all vs. all search results for 2PYP.A or 2Z6C.A
 
 
Jmol
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Color Legend
 
 2PYP.A |
 
 2Z6C.A
 
 
 

It is also possible to view this alignment using the stand-alone Java Web Start application.

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A detailed description of the procedure for the all vs. all alignments is available.

Algorithm: The alignment displayed on this page is based on the jFATCAT_rigid algorithm, a Java port of the original FATCAT algorithm.

Yuzhen Ye & Adam Godzik (2003)
Flexible structure alignment by chaining aligned fragment pairs allowing twists. 
Bioinformatics vol.19 suppl. 2. ii246-ii255.
[pdf  ]

RCSB PDB Comparison Tool Reference
Andreas Prlić; Spencer Bliven; Peter W. Rose; Wolfgang F. Bluhm; Chris Bizon; Adam Godzik; Philip E. Bourne (2010)
Pre-calculated protein structure alignments at the RCSB PDB website
Bioinformatics 26: 2983-2985
[PubMed]

For more information on the algorithms see here.