Structure of PDB 9fdj Chain D Binding Site BS02
Receptor Information
>9fdj Chain D (length=418) Species:
224324
(Aquifex aeolicus VF5) [
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MRSYPAIPRIYAETTLNMLLKRAKKPRVHSIDEYLKDGGYQALEKALNMS
PEEIIDWVDKSTLRGGGGAGFPTGKKWKFAVQNPGPRYFICNADESEPGT
FKDRIIIERDPHLLIEGIIISSYAIGANEAYIYIRGEYPAGYYILRDAIE
EAKKKGFLGKNILGSGFDLEIYVARGAGAYICGEETALIESLEGKRGHPR
LKPPYPVQKGLWGKPTVVNNVETIANVPFIISMGWEEYRYIGPSDYAGPK
LFPVSGKVKKPGVYELPMNTTLREVIFKYAGGTLGNKKVKAVFSGALDCF
SSEELDIPMDYSPLGFGGTGTVIVLTEEDDIVEAALKIAEFYEHETCGQC
TPCRVGCYEQANLLEKIYKGEATEQDWEGFDFVNRNIQPTSICGLGAVAG
RLIRQTLEKFPEEWEKYR
Ligand information
Ligand ID
FMN
InChI
InChI=1S/C17H21N4O9P/c1-7-3-9-10(4-8(7)2)21(15-13(18-9)16(25)20-17(26)19-15)5-11(22)14(24)12(23)6-30-31(27,28)29/h3-4,11-12,14,22-24H,5-6H2,1-2H3,(H,20,25,26)(H2,27,28,29)/t11-,12+,14-/m0/s1
InChIKey
FVTCRASFADXXNN-SCRDCRAPSA-N
SMILES
Software
SMILES
OpenEye OEToolkits 1.7.6
Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)C3=N2)CC(C(C(COP(=O)(O)O)O)O)O
OpenEye OEToolkits 1.7.6
Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)C3=N2)C[C@@H]([C@@H]([C@@H](COP(=O)(O)O)O)O)O
ACDLabs 12.01
N=2C(=O)NC(=O)C3=Nc1cc(C)c(C)cc1N(C=23)CC(O)C(O)C(O)COP(=O)(O)O
CACTVS 3.385
Cc1cc2N=C3C(=O)NC(=O)N=C3N(C[CH](O)[CH](O)[CH](O)CO[P](O)(O)=O)c2cc1C
CACTVS 3.385
Cc1cc2N=C3C(=O)NC(=O)N=C3N(C[C@H](O)[C@H](O)[C@H](O)CO[P](O)(O)=O)c2cc1C
Formula
C17 H21 N4 O9 P
Name
FLAVIN MONONUCLEOTIDE;
RIBOFLAVIN MONOPHOSPHATE
ChEMBL
CHEMBL1201794
DrugBank
DB03247
ZINC
ZINC000003831425
PDB chain
9fdj Chain D Residue 502 [
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Receptor-Ligand Complex Structure
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PDB
9fdj
Structural robustness of the NADH binding site in NADH:ubiquinone oxidoreductase (complex I).
Resolution
1.7 Å
Binding residue
(original residue number in PDB)
G65 G67 K76 N92 E95 Y180 G183 E184 E185 V218 N219 N220 T223
Binding residue
(residue number reindexed from 1)
G65 G67 K76 N92 E95 Y180 G183 E184 E185 V218 N219 N220 T223
Annotation score
1
Gene Ontology
Molecular Function
GO:0046872
metal ion binding
GO:0048038
quinone binding
GO:0051539
4 iron, 4 sulfur cluster binding
Biological Process
GO:1902600
proton transmembrane transport
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Molecular Function
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Biological Process
External links
PDB
RCSB:9fdj
,
PDBe:9fdj
,
PDBj:9fdj
PDBsum
9fdj
PubMed
38960077
UniProt
O66841
|NUOF_AQUAE NADH-quinone oxidoreductase subunit F (Gene Name=nuoF)
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