Nickel-binding periplasmic protein
Ligand-induced domain movement details

Jmol view of liganded conformation 1

Domain Movement

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

Sequence


           __________________________________________________ 
 2noo(A) : **DEITTAWPVNVGPLNPHLATPNQMFAQSMVYEPLVKYQADGSVIPWLA 
         :                                                    
 1zlq(B) : APDEITTAWPVNVGPLNPHLYTPNQMFAQSMVYEPLVKYQADGSVIPWLA 
           __________________________________________________ 

           __________________________________________________ 
 2noo(A) : KSWTHSEDGKTWTFTLRDDVKFSNGEPFDAEAAAENFRAVLDNRQAHAAL 
         :                                                    
 1zlq(B) : KSWTHSEDGKTWTFTLRDDVKFSNGEPFDAEAAAENFRAVLDNRQRHAWL 
           __________________________________________________ 

           _____________________125__________________________ 
 2noo(A) : ELANQIVDVKALSKTELQITLKSAYYPFLQELALPAPFRFIAPSQFKNHE 
         :                                                    
 1zlq(B) : ELANQIVDVKALSKTELQITLKSAYYPFLQELALPRPFRFIAPSQFKNHE 
           _____________________125__________________________ 

           __________________________________________________ 
 2noo(A) : TMNGIKAPIGTGPWILQESKLNQYDVFVRNENYWGEKPAIKKITFNVIPD 
         :                                                    
 1zlq(B) : TMNGIKAPIGTGPWILQESKLNQYDVFVRNENYWGEKPAIKKITFNVIPD 
           __________________________________________________ 

           _______________________________________243________ 
 2noo(A) : PTTRAVAFETGDIDLLYGNEGLLPLDTFARFSQNPAYHTQLSQPIETVML 
         :                                                    
 1zlq(B) : PTTRAVAFETGDIDLLYGNEGLLPLDTFARFSQNPAYHTQLSQPIETVML 
           _______________________________________243________ 

           __________________________________________________ 
 2noo(A) : ALNTAKAPTNELAVREALNYAVNKKSLIDNALYGTQQVADTLFAPSVP-a 
         :                                                    
 1zlq(B) : ALNTAKAPTNELAVREALNYAVNKKSLIDNALYGTQQVADTLFAPSVPYA 
           __________________________________________________ 

           __________________________________________________ 
 2noo(A) : NLGLKPSQYDPQKAKALLEKAGWTLPAGKDIREKNGQPLRIELSFIGTDA 
         :                                                    
 1zlq(B) : NLGLKPSQYDPQKAKALLEKAGWTLPAGKDIREKNGQPLRIELSFIGTDA 
           __________________________________________________ 

           __________________________________________________ 
 2noo(A) : LSKSMAEIIQADMRQIGADVSLIGEEESSI-aRQRDGRFGMIFHRTAGAP 
         :                                                    
 1zlq(B) : LSKSMAEIIQADMRQIGADVSLIGEEESSIYARQRDGRFGMIFHRTWGAP 
           __________________________________________________ 

           __________________________________________________ 
 2noo(A) : ADPHAFLSSMRVPSHADFQAQQGLADKPLIDKEIGEVLATHDETQRQALY 
         :                                                    
 1zlq(B) : YDPHAFLSSMRVPSHADFQAQQGLADKPLIDKEIGEVLATHDETQRQALY 
           __________________________________________________ 

           ________________470______________________________  
 2noo(A) : RDILTRLHDEAVYLPISYISMMVVSKPELGNIPYAPIATEIPFEQIKP*  
         :                                                    
 1zlq(B) : RDILTRLHDEAVYLPISYISMMVVSKPELGNIPYAPIATEIPFEQIKPV  
           ________________470______________________________  

Details

  Property   Value
 Conformer 1 2noo(A)
 Conformer 2 1zlq(B)
 Radius gyration for conformer 1 24.34 A
 Radius gyration for conformer 2 23.82 A
 EC Number 3.6.3.24  
Click here to see the DynDom results or the famliy
 Trigger ligands NI1001
 Trigger ligands in which conformation Conformation  1
 Conformaton with trigger ligands is compact No
 Spanning ligands Yes
 Residues in enzyme contacting ligands HIS442  HIS56 
 Residues in extended bending regions contacting ligands Null
 Residues in extended bending regions making H-bonds or salt-bridges with ligands Null
  Residues in extended bending regions with an H-bond between its main chain and ligands Null
Click here to see the details of H-bonds between ligands and enzyme in PDF format generated by LIGPLOT