Succinyl-CoA ligase [GDP-forming] beta-chain,
Ligand-induced domain movement details

Jmol view of liganded conformation 2

Domain Movement

domain 1 is binding domain(fixed in space) domain 2 is binding domain(fixed in space)

Sequence


           _____5_____________20_____________________________ 
 1eud(B) : MVNLQEYQSKKLMSDNGVKVQRFFVADTANEALEAAKRLNAKEIVLKAQI 
         :                                                    
 2fp4(B) : *MNLQEYQSKKLMSDNGVKVQRFFVADTANEALEAAKRLNAKEIVLKAQI 
           _____5_____________20_____________________________ 

           __________________________________________________ 
 1eud(B) : LAGGRGKGVFSSGLKGGVHLTKDPEVVGQLAKQMIGYNLATKQTPKEGVK 
         :                                                    
 2fp4(B) : LAGGRGKGVFSSGLKGGVHLTKDPEVVGQLAKQMIGYNLATKQTPKEGVK 
           __________________________________________________ 

           _____107__________________________________________ 
 1eud(B) : VNKVMVAEALDISRETYLAILMDRSCNGPVLVGSPQGGVDIEEVAASNPE 
         :                                                    
 2fp4(B) : VNKVMVAEALDISRETYLAILMDRSCNGPVLVGSPQGGVDIEEVAASNPE 
           _____107__________________________________________ 

           __________________________________________________ 
 1eud(B) : LIFKEQIDIIEGIKDSQAQRMAENLGFLGPLQNQAADQIKKLYNLFLKID 
         :                                                    
 2fp4(B) : LIFKEQIDIIEGIKDSQAQRMAENLGFLGPLQNQAADQIKKLYNLFLKID 
           __________________________________________________ 

           __________________________________________________ 
 1eud(B) : ATQVEVNPFGETPEGQVVCFDAKINFDDNAEFRQKDIFAMDDKSENEPIE 
         :                                                    
 2fp4(B) : ATQVEVNPFGETPEGQVVCFDAKINFDDNAEFRQKDIFAMDDKSENEPIE 
           __________________________________________________ 

           __________________________________________________ 
 1eud(B) : NEAAKYDLKYIGLDGNIACFVNGAGLAMATCDIIFLNGGKPANFLDLGGG 
         :                                                    
 2fp4(B) : NEAAKYDLKYIGLDGNIACFVNGAGLAMATCDIIFLNGGKPANFLDLGGG 
           __________________________________________________ 

           __________________________________________________ 
 1eud(B) : VKESQVYQAFKLLTADPKVEAILVNIFGGIVN-aIIANGITKA-rELELK 
         :                                                    
 2fp4(B) : VKESQVYQAFKLLTADPKVEAILVNIFGGIVNCAIIANGITKACRELELK 
           __________________________________________________ 

           _____________________________________________      
 1eud(B) : VPLVVRLEGTNVHEAQNILTNSGLPITSAVDLEDAAKKAVASVTK      
         :                                                    
 2fp4(B) : VPLVVRLEGTNVHEAQNILTNSGLPITSAVDLEDAAKKAVASVT*      
           _____________________________________________      

Details

  Property   Value
 Conformer 1 1eud(B)
 Conformer 2 2fp4(B)
 Radius gyration for conformer 1 26.05 A
 Radius gyration for conformer 2 25.32 A
 EC Number 6.2.1.4  
Click here to see the DynDom results or the famliy
 Trigger ligands GTP301
 Trigger ligands in which conformation Conformation  2
 Conformaton with trigger ligands is compact Yes
 Spanning ligands Yes
 Residues in enzyme contacting ligands ALA108  ARG54  ASP220  GLN20  GLU114  GLY52  GLY53  GLY55  ILE111  LEU109  LEU69  LYS222  PHE219  VAL44  VAL67 
 Residues in extended bending regions contacting ligands ALA108  GLN20  ILE111  LEU109 
 Residues in extended bending regions making H-bonds or salt-bridges with ligands GLN20  LEU109 
  Residues in extended bending regions with an H-bond between its main chain and ligands LEU109 
Click here to see the details of H-bonds between ligands and enzyme in PDF format generated by LIGPLOT