Structure Alignment View

Pre-calculated jCE Circular Permutation results for 3CNA.A vs. 2PEL.A .
 

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

Structure Alignment Results
Alignment Details: Query: (
 
orange/dark grey)
CONCANAVALIN A
Subject: (
 
cyan/light grey)
PEANUT LECTIN
Z-score: 7.24
Score: 444.78
RMSD: 1.76
%Id: 38.5%
3CNA
PDB ID: 3CNA
Chain ID: A
Length: 237
Similarity: 95%
EC number:
2PEL
PDB ID: 2PEL
Chain ID: A
Length: 232
Similarity: 97%
EC number:
 
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 3CNA.A or 2PEL.A
 
 
Jmol
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Display Query & Target Style Color
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Color Legend
Show All Blocks
Block 1
 
3CNA.A |
 
2PEL.A
Block 2
 
3CNA.A |
 
2PEL.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 jCE Circular Permutation algorithm, a Java port of the original Combinatorial Extension (CE) algorithm. (Implementation by Spencer Bliven and Andreas Prlić).

I.N. Shindyalov, P.E. Bourne (1998)
Protein structure alignment by incremental combinatorial extension (CE) of the optimal path. 
Protein Eng 11: 739-747
[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.