Structure of PDB 8ed4 Chain A Binding Site BS01

Receptor Information
>8ed4 Chain A (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 A Residue 2001 [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)
G174 H199 N200 W417 G486 C487 D488 T492 V543 D544 I545 T562 D593 N718 R720 Q726 S727 Y729 F792 Y815 K816
Binding residue
(residue number reindexed from 1)
G173 H198 N199 W416 G485 C486 D487 T491 V542 D543 I544 T561 D592 N717 R719 Q725 S726 Y728 F791 Y814 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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