POP-OUT | CLOSE
 

Structure Alignment View

Pre-calculated jCE results for d4hhba_ vs. d4hhbb_ .
 

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

Structure Alignment Results
Alignment Details: Query: (
 
orange/dark grey)
HEMOGLOBIN (DEOXY) (ALPHA CHAIN)4hhb A: a.1.1.2 Globin-like
Subject: (
 
cyan/light grey)
HEMOGLOBIN (DEOXY) (BETA CHAIN)4hhb B: a.1.1.2 Globin-like
Z-score: 6.47
Score: 366.29
RMSD: 1.49
%Id: 40.8%
4HHB
PDB ID: 4HHB
SCOP domain d4hhba_
Length: 141
Similarity: 99%
EC number:
4HHB
PDB ID: 4HHB
SCOP domain d4hhbb_
Length: 146
Similarity: 95%
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 d4hhba_ or d4hhbb_
 
 
Jmol
Tip: right-mouse click on Jmol to get access to additional Jmol functionality.
Display Query & Target Style Color
Toggle Selection H-Bonds SS Bonds Rotation Antialias Display (nicer) Black Background
Color Legend
 
d4hhba_ |
 
d4hhbb_
 
 
 

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

 
 
Download Alignment
 
 
Help

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 algorithm, a Java port of the original Combinatorial Extension (CE) algorithm. (Implementation by 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.