Glyceraldehyde 3-phosphate dehydrogenase
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

______________________________31__________________   2gd1(R) : AVKVGINGFGRIGRNVFRAALKNPDIEVVAVNDLTDANTLAHLLKYDSVH           :                                                      1nq5(A) : AVKVGINGFGRIGRNVFRAALKNPDIEVVAVNDLTDANTLAHLLKYDSVH             ______________________________31__________________             __54______________________________________________   2gd1(R) : GRLDAEVSVNGNNLVVNGKEIIVKAERDPENLAWGEIGVDIVVESTGRFT           :                                                      1nq5(A) : GRLDAEVSVNGNNLVVNGKEIIVKAERDPENLAWGEIGVDIVVESTGRFT             __54______________________________________________             _________________________________________________1   2gd1(R) : KREDAAKHLEAGAKKVIISAPAKNEDITIVMGVNQDKYDPKAHHVISNAS           :                                                      1nq5(A) : KREDAAKHLEAGAKKVIISAPAKNEDITIVMGVNQDKYDPKAHHVISNAS             _________________________________________________1             50________________________________________________   2gd1(R) : CTTNCLAPFAKVLHEQFGIVRGMMTTVHSYTNDQRILDLPHKDLRRARAA           :                                                      1nq5(A) : STTNCLAPFAKVLHEQFGIVRGMMTTVHSYTNDQRILDLPHKDLRRARAA             50________________________________________________             __________________________________________________   2gd1(R) : AESIIPTTTGAAKAVALVLPELKGKLNGMAMRVPTPNVSVVDLVAELEKE           :                                                      1nq5(A) : AESIIPTTTGAAKAVALVLPELKGKLNGMAMRVPTPNVSVVDLVAELEKE             __________________________________________________             __________________________________________________   2gd1(R) : VTVEEVNAALKAAAEGELKGILAYSEEPLVSRDYNGSTVSSTIDALSTMV           :                                                      1nq5(A) : VTVEEVNAALKAAAEGELKGILAYSEEPLVSRDYNGSTVSSTIDALSTMV             __________________________________________________             ______________316_________________                   2gd1(R) : IDGKMVKVVSWYDNETGYSHRVVDLAAYIASKGL                           :                                                      1nq5(A) : IDGKMVKVVSWYDNETGYSHRVVDLAAYIASKGL                             ______________316_________________

Details

Property   Value  Conformer 1 2gd1(R)  Conformer 2 1nq5(A)  Radius gyration for conformer 1 20.33 A  Radius gyration for conformer 2 20.14 A  EC Number 1.2.1.12   Click here to see the DynDom results or the famliy  Trigger ligands NAD5336  Trigger ligands in which conformation Conformation  2  Conformaton with trigger ligands is compact Yes  Spanning ligands Yes  Residues in enzyme contacting ligands ALA120  ARG10  ARG77  ARG98  ASN180  ASN31  ASN313  ASP32  GLU76  GLY7  GLY9  GLY97  ILE11  LEU33  PHE8  PHE99  SER119  SER149  SER95  THR179  THR96  TYR317   Residues in extended bending regions contacting ligands ASN31  ASN313  ASP32  LEU33  SER149  TYR317   Residues in extended bending regions making H-bonds or salt-bridges with ligands ASN313  ASP32    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