Structure of PDB 1bxs Chain D Binding Site BS01

Receptor Information

>1bxs Chain D (length=494) Species: 9940 (Ovis aries)

DVPAPLTNLQFKYTKIFINNEWHSSVSGKKFPVFNPATEEKLCEVEEGDK
EDVDKAVKAARQAFQIGSPWRTMDASERGRLLNKLADLIERDRLLLATME
AMNGGKLFSNAYLMDLGGCIKTLRYCAGWADKIQGRTIPMDGNFFTYTRS
EPVGVCGQIIPWNFPLLMFLWKIGPALSCGNTVVVKPAEQTPLTALHMGS
LIKEAGFPPGVVNIVPGYGPTAGAAISSHMDVDKVAFTGSTEVGKLIKEA
AGKSNLKRVSLELGGKSPCIVFADADLDNAVEFAHQGVFYHQGQCCIAAS
RLFVEESIYDEFVRRSVERAKKYVLGNPLTPGVSQGPQIDKEQYEKILDL
IESGKKEGAKLECGGGPWGNKGYFIQPTVFSDVTDDMRIAKEEIFGPVQQ
IMKFKSLDDVIKRANNTFYGLSAGIFTNDIDKAITVSSALQSGTVWVNCY
SVVSAQCPFGGFKMSGNGRELGEYGFHEYTEVKTVTIKISQKNS

Ligand information

• Ligand ID: NAD
• InChI: InChI=1S/C21H27N7O14P2/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/h1-4,7-8,10-11,13-16,20-21,29-32H,5-6H2,(H5-,22,23,24,25,33,34,35,36,37)/t10-,11-,13-,14-,15-,16-,20-,21-/m1/s1
• InChIKey: BAWFJGJZGIEFAR-NNYOXOHSSA-N
• SMILES:
  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)[C@@H]3O)n4cnc5c(N)ncnc45)[C@@H](O)[C@H]2O
  OpenEye OEToolkits 1.5.0: c1cc(c[n+](c1)C2C(C(C(O2)COP(=O)([O-])OP(=O)(O)OCC3C(C(C(O3)n4cnc5c4ncnc5N)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)[CH]3O)n4cnc5c(N)ncnc45)[CH](O)[CH]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)O)O)O)O)C(=O)N
• Formula: C21 H27 N7 O14 P2
• Name: NICOTINAMIDE-ADENINE-DINUCLEOTIDE
• ChEMBL: CHEMBL1234613
• DrugBank: DB14128
• PDB chain: 1bxs Chain D Residue 550

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1bxs Sheep liver cytosolic aldehyde dehydrogenase: the structure reveals the basis for the retinal specificity of class 1 aldehyde dehydrogenases.
• Resolution: 2.35 Å
• Binding residue (original residue number in PDB): I165 I166 P167 W168 K192 E195 G225 G229 F243 G245 S246 V249 L269 C302 Q349 K352 E399 F401
• Binding residue (residue number reindexed from 1): I159 I160 P161 W162 K186 E189 G219 G223 F237 G239 S240 V243 L263 C296 Q343 K346 E393 F395
• Annotation score: 4

Enzymatic activity

• Catalytic site (original residue number in PDB): N169 K192 E268 C302 E399 E476
• Catalytic site (residue number reindexed from 1): N163 K186 E262 C296 E393 E470
• Enzyme Commision number: 1.2.1.19: aminobutyraldehyde dehydrogenase.
  1.2.1.28: benzaldehyde dehydrogenase (NAD(+)).
  1.2.1.3: aldehyde dehydrogenase (NAD(+)).
  1.2.1.36: retinal dehydrogenase.

Gene Ontology

Molecular Function

• GO:0001758 retinal dehydrogenase activity
• GO:0004029 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:0018479 benzaldehyde dehydrogenase (NAD+) activity
• GO:0019145 aminobutyraldehyde dehydrogenase (NAD+) activity
• GO:0051287 NAD binding
• GO:0106373 3-deoxyglucosone dehydrogenase activity

Biological Process

• GO:0001523 retinoid metabolic process
• GO:0006629 lipid metabolic process
• GO:0009449 gamma-aminobutyric acid biosynthetic process
• GO:0030392 fructosamine catabolic process
• GO:0036438 maintenance of lens transparency
• GO:0042572 retinol metabolic process
• GO:0110095 cellular detoxification of aldehyde

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0030424 axon
• GO:0042995 cell projection
• GO:0045202 synapse

External links

• PDB: RCSB:1bxs, PDBe:1bxs, PDBj:1bxs
• PDBsum: 1bxs
• PubMed: 9862807
• UniProt: P51977|AL1A1_SHEEP Aldehyde dehydrogenase 1A1 (Gene Name=ALDH1A1)