Structure of PDB 8uzk Chain D Binding Site BS01

Receptor Information

>8uzk Chain D (length=486) Species: 1028307 (Klebsiella aerogenes KCTC 2190)

AEQQLYIHGKFVAATSGKTFETINPATGEVLATVQAAGREDVDRAVKSAQ
QGQKVWAAMSAMARSRILRKAVDILRERNDELARLETLDTGKPLSETAAV
DIVTGADVLEYYAGLIPALEGSQIPLRDSSFVYTRREPLGVVAGIGAWNY
PIQIALWKSAPALAAGNAMIFKPSEVTPLTALKLAEIYREAGLPDGVFNV
LPGIGAETGQYLTEHPDIAKISFTGGVASGKKVMANSAASSLKEVTMELG
GKSPLIIAEDANLDLAADIAMMANFYSSGQVCTNGTRVFVPAKFKAEFEH
KILERVGRIRAGDLFADDTNFGPLVSFPHRQNVLRYIESGKSEGARLLCG
GDVLKGEGFDNGAWVAPTVFTDCTDDMTIVREEIFGPVMSILSYDDEAEV
IRRANATEYGLAAGVVTPDLNRAHRIIHQLEAGICWINSWGESPAEMPVG
GYKHSGIGRENGVMTLQSYTQVKSIQVEMGPFQSIF

Ligand information

• Ligand ID: NAP
• InChI: InChI=1S/C21H28N7O17P3/c22-17-12-19(25-7-24-17)28(8-26-12)21-16(44-46(33,34)35)14(30)11(43-21)6-41-48(38,39)45-47(36,37)40-5-10-13(29)15(31)20(42-10)27-3-1-2-9(4-27)18(23)32/h1-4,7-8,10-11,13-16,20-21,29-31H,5-6H2,(H7-,22,23,24,25,32,33,34,35,36,37,38,39)/t10-,11-,13-,14-,15-,16-,20-,21-/m1/s1
• InChIKey: XJLXINKUBYWONI-NNYOXOHSSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: c1cc(c[n+](c1)C2C(C(C(O2)COP(=O)([O-])OP(=O)(O)OCC3C(C(C(O3)n4cnc5c4ncnc5N)OP(=O)(O)O)O)O)O)C(=O)N
  CACTVS 3.341: NC(=O)c1ccc[n+](c1)[CH]2O[CH](CO[P]([O-])(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O[P](O)(O)=O)[CH]3O)n4cnc5c(N)ncnc45)[CH](O)[CH]2O
  CACTVS 3.341: NC(=O)c1ccc[n+](c1)[C@@H]2O[C@H](CO[P]([O-])(=O)O[P@@](O)(=O)OC[C@H]3O[C@H]([C@H](O[P](O)(O)=O)[C@@H]3O)n4cnc5c(N)ncnc45)[C@@H](O)[C@H]2O
  OpenEye OEToolkits 1.5.0: c1cc(c[n+](c1)[C@H]2[C@@H]([C@@H]([C@H](O2)CO[P@@](=O)([O-])O[P@](=O)(O)OC[C@@H]3[C@H]([C@H]([C@@H](O3)n4cnc5c4ncnc5N)OP(=O)(O)O)O)O)O)C(=O)N
• Formula: C21 H28 N7 O17 P3
• Name: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE;
  2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE
• ChEMBL: CHEMBL295069
• DrugBank: DB03461
• PDB chain: 8uzk Chain D Residue 501

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8uzk Crystal Structure of Betaine aldehyde dehydrogenase (BetB) from Klebsiella aerogenes (NADP+ bound)
• Resolution: 1.9 Å
• Binding residue (original residue number in PDB): I149 G150 A151 W152 K176 S178 E179 G209 G213 F227 G229 G230 S233 E252 C286 E387 F389
• Binding residue (residue number reindexed from 1): I145 G146 A147 W148 K172 S174 E175 G205 G209 F223 G225 G226 S229 E248 C282 E383 F385
• Annotation score: 3

Enzymatic activity

• Enzyme Commision number: 1.2.1.8: betaine-aldehyde dehydrogenase.

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0008802 betaine-aldehyde dehydrogenase (NAD+) activity
• GO:0016491 oxidoreductase activity
• GO:0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
• GO:0046872 metal ion binding

Biological Process

• GO:0019285 glycine betaine biosynthetic process from choline

External links

• PDB: RCSB:8uzk, PDBe:8uzk, PDBj:8uzk
• PDBsum: 8uzk
• UniProt: A0A0H3FPU4