SMTL ID : 1u3u.1

Crystal Structure of Human Alcohol Dehydrogenase Beta-1-Beta-1 Isoform Complexed with N-Benzylformamide Determined to 1.6 Angstrom Resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: C.97, G.98, C.100, C.103, C.111, L.112 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.97, A:C.100, A:C.103, A:C.111 ZN.2: 6 residues within 4Å: Chain A: C.46, T.48, H.67, C.174 Ligands: NAD.3, BNF.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.46, A:H.67, A:C.174 ZN.5: 6 residues within 4Å: Chain B: C.97, G.98, C.100, C.103, C.111, L.112 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.97, B:C.100, B:C.103, B:C.111 ZN.6: 6 residues within 4Å: Chain B: C.46, T.48, H.67, C.174 Ligands: NAD.8, BNF.9 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.46, B:H.67, B:C.174

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.3: 32 residues within 4Å: Chain A: C.46, R.47, T.48, H.51, F.93, C.174, T.178, G.199, L.200, G.201, G.202, V.203, D.223, I.224, N.225, K.228, V.268, I.269, G.270, R.271, T.274, V.292, G.293, V.294, A.317, V.318, Y.319, L.362, R.369 Chain B: L.309 Ligands: ZN.2, BNF.4 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:T.178 Hydrogen bonds: A:R.47, A:H.51, A:L.200, A:L.200, A:V.203, A:I.224, A:I.269, A:R.271, A:V.292, A:V.294, A:Y.319 Water bridges: A:G.201, A:G.201, A:G.202, A:G.202, A:K.228, A:R.271, A:R.271, A:G.320, A:I.368 Salt bridges: A:R.47, A:K.228, A:R.369 NAD.8: 32 residues within 4Å: Chain A: L.309 Chain B: C.46, R.47, T.48, H.51, F.93, C.174, T.178, G.199, L.200, G.201, G.202, V.203, D.223, I.224, N.225, K.228, V.268, I.269, G.270, R.271, T.274, V.292, G.293, V.294, A.317, V.318, Y.319, L.362, R.369 Ligands: ZN.6, BNF.9 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:T.178 Hydrogen bonds: B:R.47, B:H.51, B:T.178, B:L.200, B:L.200, B:V.203, B:I.224, B:I.269, B:R.271, B:V.292, B:V.294, B:Y.319 Water bridges: B:G.201, B:G.201, B:G.202, B:G.202, B:N.225, B:K.228, B:K.228, B:R.271, B:G.320, B:I.368 Salt bridges: B:R.47, B:K.228, B:R.369

2 x BNF: N-BENZYLFORMAMIDE(Non-covalent)

BNF.4: 10 residues within 4Å: Chain A: C.46, T.48, H.67, F.93, L.116, C.174, V.294, V.318 Ligands: ZN.2, NAD.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.48, A:L.116, A:V.294, A:V.318 BNF.9: 11 residues within 4Å: Chain A: M.306, L.309 Chain B: C.46, T.48, H.67, F.93, L.116, C.174, V.294 Ligands: ZN.6, NAD.8 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:T.48, B:L.116, B:L.116, B:V.294, A:L.309

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.7: 3 residues within 4Å: Chain B: T.127, R.128, P.136 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:R.128 Water bridges: B:T.127, B:R.128, B:R.128, B:R.129, B:R.129 Salt bridges: B:R.128

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gibbons, B.J. et al., Structure of three class I human alcohol dehydrogenases complexed with isoenzyme specific formamide inhibitors. Biochemistry (2004)

Release Date

2004-10-26

Peptides

Alcohol dehydrogenase beta chain: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Alcohol dehydrogenase beta chain

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