pyruvate,orthophosphate dikinase
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

__________________________________________________   1vbg(A) : KKRVFHFGKGKSEGNKTMKELLGGKGANLAEMASIGLSVPPGFTVSTEAC           :                                                      1vbh(A) : KKRVFHFGKGKSEGNKTMKELLGGKGANLAEMASIGLSVPPGFTVSTEAC             __________________________________________________             __________________________________________________   1vbg(A) : QQYQDAGCALPAGLWAEIVDGLQWVEEYMGATLGDPQRPLLLSVRSGAAV           :                                                      1vbh(A) : QQYQDAGCALPAGLWAEIVDGLQWVEEYMGATLGDPQRPLLLSVRSGAAV             __________________________________________________             __________________________________________________   1vbg(A) : SMPGMMDTVLNLGLNDEVAAGLAAKSGERFAYDSFRRFLDMFGNVVMDIP           :                                                      1vbh(A) : SMPGMMDTVLNLGLNDEVAAGLAAKSGERFAYDSFRRFLDMFGNVVMDIP             __________________________________________________             __________________________________________________   1vbg(A) : RSLFEEKLEHMKESKGLKNDTDLTASDLKELVGQYKEVYLSAKGEPFPSD           :                                                      1vbh(A) : RSLFEEKLEHMKESKGLKNDTDLTASDLKELVGQYKEVYLSAKGEPFPSD             __________________________________________________             __________________________________________________   1vbg(A) : PKKQLELAVLAVFNSWESPRAKKYRSINQITGLRGTAVNVQCMVFGNMGN           :                                                      1vbh(A) : PKKQLELAVLAVFNSWESPRAKKYRSINQITGLRGTAVNVQCMVFGNMGN             __________________________________________________             __________________________________________________   1vbg(A) : TSGTGVLFTRNPNTGEKKLYGEFLVNAQGEDVVAGIRTPEDLDAMKNLMP           :                                                      1vbh(A) : TSGTGVLFTRNPNTGEKKLYGEFLVNA---------rTPEDLDAMKNLMP             __________________________________________________             __________________________________________________   1vbg(A) : QAYDELVENCNILESHYKEMQDIEFTVQENRLWMLQCRTGKRTGKSAVKI           :                                                      1vbh(A) : QAYDELVENCNILESHYKEMQDIEFTVQENRLWMLQCRTGKRTGKSAVKI             __________________________________________________             ________________________________387____394___400_4   1vbg(A) : AVDMVNEGLVEPRSAIKMVEPGHLDQLLHPQFENPSAYKDQVIATGLPAS           :                                                      1vbh(A) : AVDMVNEGLVEPRSAIKMVEPGHLDQLLHPQFENPSAYKDQVIATGLPAS             ________________________________387____394___400_4             04________________________________________________   1vbg(A) : PGAAVGQVVFTAEDAEAWHSQGKAAILVRAETSPEDVGGMHAAVGILTER           :                                                      1vbh(A) : PGAAVGQVVFTAEDAEAWHSQGKAAILVRAETSPEDVGGMHAAVGILTE-             04________________________________________________             ______________469____________________________500__   1vbg(A) : GGMTSHAAVVARGWGKCCVSGCSGIRVNDAEKLVTIGGHVLREGEWLSLN           :                                                      1vbh(A) : --mTSHAAVVARGWGKCCVSGCSGIRVNDAEKLVTIGGHVLREGEWLSLN             ______________469____________________________500__             __507_511___517___________________________________   1vbg(A) : GSTGEVILGKQPLSPPALSGDLGTFMAWVDDVRKLKVLANADTPDDALTA           :                                                      1vbh(A) : GSTGEVILGKQPLSPPALSGDLGTFMAWVDDVRKLKVLANADTPDDALTA             __507_511___517___________________________________             __________________________________________________   1vbg(A) : RNNGAQGIGLCRTEHMFFASDERIKAVRQMIMAPTLELRQQALDRLLPYQ           :                                                      1vbh(A) : RNNGAQGIGLCRTEHMFFASDERIKAVRQMIMAPTLELRQQALDRLLPYQ             __________________________________________________             __________________________________________________   1vbg(A) : RSDFEGIFRAMDGLPVTIRLLDPPLHEFLPEGNIEDIVSELCAETGANQE           :                                                      1vbh(A) : RSDFEGIFRAMDGLPVTIRLLDPPLHEFLPEGNIEDIVSELCAETGANQE             __________________________________________________             __________________________________________________   1vbg(A) : DALARIEKLSEVNPMLGFRGCRLGISYPELTEMQARAIFEAAIAMTNQGV           :                                                      1vbh(A) : DALARIEKLSEVNPMLGFRGCRLGISYPELTEMQARAIFEAAIAMTNQGV             __________________________________________________             __________________________________________________   1vbg(A) : QVFPEIMVPLVGTPQELGHQVTLIRQVAEKVFANVGKTIGYKVGTMIEIP           :                                                      1vbh(A) : QVFPEIMVPLVGTPQELGHQVTLIRQVAEKVFANVGKTIGYKVGTMIEIP             __________________________________________________             __________________________________________________   1vbg(A) : RAALVADEIAEQAEFFSFGTNDLTQMTFGYSRDDVGKFIPVYLAQGILQH           :                                                      1vbh(A) : RAALVADEIAEQAEFFSFGTNDLTQMTFGYSRDDVGKFIPVYLAQGILQH             __________________________________________________             __________________________________________________   1vbg(A) : DPFEVLDQRGVGELVKFATERGRKARPNLKVGICGEHGGEPSSVAFFAKA           :                                                      1vbh(A) : DPFEVLDQRGVGELVKFATERGRKARPNLKVGICGEHGGEPSSVAFFAKA             __________________________________________________             ________________________                             1vbg(A) : GLDYVSCSPFRVPIARLAAAQVLV                                     :                                                      1vbh(A) : GLDYVSCSPFRVPIARLAAAQVLV                                       ________________________

Details

Property   Value  Conformer 1 1vbg(A)  Conformer 2 1vbh(A)  Radius gyration for conformer 1 34.73 A  Radius gyration for conformer 2 34.74 A  EC Number 2.7.9.1   Click here to see the DynDom results or the famliy  Trigger ligands PEP3000  Trigger ligands in which conformation Conformation  2  Conformaton with trigger ligands is compact No  Spanning ligands No  Residues in enzyme contacting ligands ARG564  ARG621  ASN773  ASP624  ASP774  CYS836  GLU750  GLY771  GLY837  LEU562  MET748  THR772   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