Structure of PDB 5yob Chain A Binding Site BS01

Receptor Information

>5yob Chain A (length=148) Species: 882 (Nitratidesulfovibrio vulgaris str. Hildenborough)

SAKALIVYGSTTGNTEYTAETIARELADAGYEVDSRDAASVEAGGLFEGF
DLVLLGCSTWGDDSIELQDDFIPLFDSLEETGAQGRKVACFGCGDSSWEY
FCGAVDAIEEKLKNLGAEIVQDGLRIDGDPRAARDDIVGWAHDVRGAI

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:
  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: 5yob Chain A Residue 201

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5yob Protein crystal quality oriented disulfide bond engineering.
• Resolution: 1.142 Å
• Binding residue (original residue number in PDB): S10 T11 T12 N14 T15 S58 T59 W60 G61 G94 D95 W98 F101 C102
• Binding residue (residue number reindexed from 1): S10 T11 T12 N14 T15 S58 T59 W60 G61 G94 D95 W98 F101 C102
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0009055 electron transfer activity
• GO:0010181 FMN binding

External links

• PDB: RCSB:5yob, PDBe:5yob, PDBj:5yob
• PDBsum: 5yob
• PubMed: 29039033
• UniProt: P00323|FLAV_NITV2 Flavodoxin (Gene Name=DVU_2680)