Structure of PDB 8ed4 Chain E Binding Site BS02

Receptor Information
>8ed4 Chain E (length=843) Species: 1125847 (Pseudorhizobium banfieldiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AFKRHIDRLPIIPADAKKHNVTCHFCIVGCGYHAYTWPINKQGGTDPQNN
IFGVDLSEQQQAESDAWYSPSMYNVVKQDGRDVHVVIKPDHECVVNSGLG
SVRGARMAETSFSEARNTQQQRLTDPLVWRYGQMQPTSWDDALDLVARVT
AKIVKEKGEDALIVSAFDHGGAGGGYENTWGTGKLYFEAMKVKNIRIHNR
PAYNSEVHGTRDMGVGELNNCYEDAELADTIVAVGTNALETQTNYFLNHW
IPNLRGESLGKKKELMPEEPHEAGRIIIVDPRRTVTVNACEQTAGADNVL
HLAINSGTDLALFNALFTYIADKGWVDRDFIDKSTLREGTARPPLYPARG
VSEANPGHLSSFEDAVEGCRMSIEEAAEITGLDAAQIIKAAEWIGMPKEG
GKRRRVMFGYEKGLIWGNDNYRTNGALVNLALATGNIGRPGGGVVRLGGH
QEGYVRPSDAHVGRPAAYVDQLLIGGQGGVHHIWGCDHYKTTLNAHEFKR
VYKKRTDMVKDAMSAAPYGDREAMVNAIVDAINQGGLFAVNVDIIPTKIG
EACHVILPAATSGEMNLTSMNGERRMRLTERYMDPPGQSMPDCLIAARLA
NTMERVLTEMGDVGYAAQFKGFDWQTEEDAFMDGYNKNAHGGEFVTYERL
SAMGTNGFQEPATGFTDGKIEGTQRLYTDGVFSTDDGKARFMDAPWRGLQ
APGKQQQKDSHKYLINNGRANVVWQSAYLDQENDFVMDRFPYPFIEMNPE
DMAEAGLKEGDLVEIYNDAGATQAMAYPTPTARRGETFMLFGFPTGVQGN
VTSAGTNELIIPNYKQTWGNIRKISDAPRNVAHLSFKSKEYQS
Ligand information
Ligand IDMGD
InChIInChI=1S/C20H26N10O13P2S2/c21-19-26-13-7(15(33)28-19)24-6-12(47)11(46)5(41-17(6)25-13)2-40-45(37,38)43-44(35,36)39-1-4-9(31)10(32)18(42-4)30-3-23-8-14(30)27-20(22)29-16(8)34/h3-6,9-10,17-18,24,31-32,46-47H,1-2H2,(H,35,36)(H,37,38)(H3,22,27,29,34)(H4,21,25,26,28,33)/t4-,5-,6+,9-,10-,17-,18-/m1/s1
InChIKeyVQAGYJCYOLHZDH-ILXWUORBSA-N
SMILES
SoftwareSMILES
CACTVS 3.341NC1=NC2=C(N[CH]3[CH](N2)O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH]([CH](O)[CH]4O)n5cnc6C(=O)NC(=Nc56)N)C(=C3S)S)C(=O)N1
OpenEye OEToolkits 1.5.0c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(=C(C5C(O4)NC6=C(N5)C(=O)NC(=N6)N)S)S)O)O)N=C(NC2=O)N
OpenEye OEToolkits 1.5.0c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=O)(O)O[P@@](=O)(O)OC[C@@H]4C(=C([C@H]5[C@@H](O4)NC6=C(N5)C(=O)NC(=N6)N)S)S)O)O)N=C(NC2=O)N
ACDLabs 10.04O=C1C=2NC3C(S)=C(S)C(OC3NC=2N=C(N)N1)COP(=O)(O)OP(=O)(O)OCC6OC(n5cnc4c5N=C(N)NC4=O)C(O)C6O
CACTVS 3.341NC1=NC2=C(N[C@@H]3[C@H](N2)O[C@H](CO[P@@](O)(=O)O[P@@](O)(=O)OC[C@H]4O[C@H]([C@H](O)[C@@H]4O)n5cnc6C(=O)NC(=Nc56)N)C(=C3S)S)C(=O)N1
FormulaC20 H26 N10 O13 P2 S2
Name2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE;
MOLYBDOPTERIN GUANOSINE DINUCLEOTIDE
ChEMBL
DrugBank
ZINCZINC000195757106
PDB chain8ed4 Chain E Residue 2002 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8ed4 The structure of the complex between the arsenite oxidase from Pseudorhizobium banfieldiae sp. strain NT-26 and its native electron acceptor cytochrome c 552.
Resolution2.25 Å
Binding residue
(original residue number in PDB)
R104 G236 T237 E241 T242 V280 D281 P282 R283 G308 D310 E412 K413 G414 G450 H451 N717 G719 R720 N722 V724 W725 Q726 K816
Binding residue
(residue number reindexed from 1)
R103 G235 T236 E240 T241 V279 D280 P281 R282 G307 D309 E411 K412 G413 G449 H450 N716 G718 R719 N721 V723 W724 Q725 K815
Annotation score4
Enzymatic activity
Enzyme Commision number 1.20.98.1: Transferred entry: 1.20.9.1.
Gene Ontology
Molecular Function
GO:0016491 oxidoreductase activity
GO:0043546 molybdopterin cofactor binding
GO:0046872 metal ion binding
GO:0051536 iron-sulfur cluster binding
GO:0051538 3 iron, 4 sulfur cluster binding
Biological Process
GO:0045333 cellular respiration
Cellular Component
GO:1990204 oxidoreductase complex

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:8ed4, PDBe:8ed4, PDBj:8ed4
PDBsum8ed4
PubMed36995233
UniProtQ6VAL8

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