Structure of PDB 5wjs Chain B Binding Site BS01

Receptor Information

>5wjs Chain B (length=258) Species: 271848 (Burkholderia thailandensis E264)

RSAQDERYARYPSLAGRAVLITGGATGIGASFVEHFARQGARVAFVDLDE
QAARALAARLADAAHEPVFVACDLTDIAALRGAIEAIRARIGPIAALVNN
AANDVRHAIADVTPDSFDACIAVNLRHQFFAAQAVIDDMKRLGGGSIVNL
GSISWMLKNAGYPVYASAKAAVQGLTRALARELGPFGIRVNTLVPGWVMT
DKQRRLWLDDAGRAAIKAGQCIDAELLPGDLARMALFLAADDSRMITAQD
VVVDGGWA

Ligand information

• Ligand ID: NAI
• InChI: InChI=1S/C21H29N7O14P2/c22-17-12-19(25-7-24-17)28(8-26-12)21-16(32)14(30)11(41-21)6-39-44(36,37)42-43(34,35)38-5-10-13(29)15(31)20(40-10)27-3-1-2-9(4-27)18(23)33/h1,3-4,7-8,10-11,13-16,20-21,29-32H,2,5-6H2,(H2,23,33)(H,34,35)(H,36,37)(H2,22,24,25)/t10-,11-,13-,14-,15-,16-,20-,21-/m1/s1
• InChIKey: BOPGDPNILDQYTO-NNYOXOHSSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)N5C=CCC(=C5)C(=O)N)O)O)O)O)N
  CACTVS 3.341: NC(=O)C1=CN(C=CC1)[C@@H]2O[C@H](CO[P@@](O)(=O)O[P@](O)(=O)OC[C@H]3O[C@H]([C@H](O)[C@@H]3O)n4cnc5c(N)ncnc45)[C@@H](O)[C@H]2O
  OpenEye OEToolkits 1.5.0: c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)O[P@@](=O)(O)OC[C@@H]4[C@H]([C@H]([C@@H](O4)N5C=CCC(=C5)C(=O)N)O)O)O)O)N
  CACTVS 3.341: NC(=O)C1=CN(C=CC1)[CH]2O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O)[CH]3O)n4cnc5c(N)ncnc45)[CH](O)[CH]2O
• Formula: C21 H29 N7 O14 P2
• Name: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE;
  NADH
• ChEMBL: CHEMBL1234616
• DrugBank: DB00157
• ZINC: ZINC000008215403
• PDB chain: 5wjs Chain B Residue 302

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5wjs Crystal structure of oxidoreductase (short chain dehydrogenase/reductase family) from Burkholderia thailandensis complexed with NADH
• Resolution: 2.15 Å
• Binding residue (original residue number in PDB): G36 T39 G40 I41 D60 L61 D86 L87 N113 A114 A115 L163 G164 S165 K182 P208 G209 W210 V211 K215
• Binding residue (residue number reindexed from 1): G23 T26 G27 I28 D47 L48 D73 L74 N100 A101 A102 L150 G151 S152 K169 P195 G196 W197 V198 K202
• Annotation score: 4

Enzymatic activity

• Catalytic site (original residue number in PDB): G40 S165 Y175 Y178 K182
• Catalytic site (residue number reindexed from 1): G27 S152 Y162 Y165 K169

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0016491 oxidoreductase activity

External links

• PDB: RCSB:5wjs, PDBe:5wjs, PDBj:5wjs
• PDBsum: 5wjs
• UniProt: Q2SZC0