Structure Alignment View

Pre-calculated jFATCAT_rigid results for 1TGS.Z vs. 1UK4.A .

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

Structure Alignment Results
Alignment Details: Query: (
orange/dark grey)
Subject: (
cyan/light grey)
3C-like proteinase
P-value: 7.95e-04
Score: 207.00
RMSD: 3.09
%Id: 5.2%
Chain ID: Z
Length: 225
Similarity: 65%
EC number:
Chain ID: A
Length: 301
Similarity: 49%
EC number: 3.4.24
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 1TGS.Z or 1UK4.A
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Display Query & Target Style Color
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Color Legend
1TGS.Z |

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

Download Alignment

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

For more information on the algorithms see here.