Structure of PDB 3vy2 Chain A Binding Site BS01

Receptor Information

>3vy2 Chain A (length=122) Species: 883 (Nitratidesulfovibrio vulgaris str. 'Miyazaki F')

MLPGTFFEVLKNEGVVAIATQGEDGPHLVNTWDSYLKVLDGNRIVVPVGG
MHKTEANVARDERVLMTLGSRKVAGRNGPGTGFLIRGSAAFRTDGPEFEA
IARFKWARAALVITVVSAEQTL

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: 3vy2 Chain A Residue 201

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3vy2 Crystal structure of N33D mutant of FMN-binding protein from Desulfovibrio vulgaris (Miyazaki F)
• Resolution: 1.6 Å
• Binding residue (original residue number in PDB): H27 V29 N30 T31 W32 Y35 P47 G49 G50 M51 H52 K53 T54
• Binding residue (residue number reindexed from 1): H27 V29 N30 T31 W32 Y35 P47 G49 G50 M51 H52 K53 T54
• Annotation score: 4

Gene Ontology

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:3vy2, PDBe:3vy2, PDBj:3vy2
• PDBsum: 3vy2
• UniProt: Q46604|FMNB_NITV9 FMN-binding protein (Gene Name=DvMF_2023)