SMTL ID : 3cos.2 (1 other biounit)

Crystal structure of human class II alcohol dehydrogenase (ADH4) in complex with NAD and Zn

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: C.48, T.50, H.70, C.181 Ligands: NAD.3, ACY.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.48, A:H.70, A:C.181 ZN.2: 6 residues within 4Å: Chain A: C.100, R.101, C.103, C.106, C.114, G.115 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.100, A:C.103, A:C.106, A:C.114 ZN.6: 6 residues within 4Å: Chain B: C.48, T.50, H.70, C.181 Ligands: NAD.8, ACY.11 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.48, B:H.70, B:C.181 ZN.7: 6 residues within 4Å: Chain B: C.100, R.101, C.103, C.106, C.114, G.115 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.100, B:C.103, B:C.106, B:C.114

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

NAD.3: 30 residues within 4Å: Chain A: C.48, H.49, T.50, Y.96, C.181, T.185, G.206, L.207, G.208, G.209, V.210, I.229, D.230, I.231, K.235, C.275, A.276, T.281, I.299, G.300, V.301, T.324, F.325, F.326, M.369, R.376 Chain B: I.316 Ligands: ZN.1, EDO.4, ACY.5 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:T.185, A:V.210 Hydrogen bonds: A:H.49, A:T.185, A:L.207, A:G.209, A:V.210, A:I.231, A:K.235, A:A.276, A:I.299, A:V.301, A:F.326, A:R.376 Water bridges: A:G.208, A:G.211, A:K.235, A:K.235, A:K.235, A:M.369 Salt bridges: A:H.49, A:K.235, A:R.376 NAD.8: 29 residues within 4Å: Chain A: I.316 Chain B: C.48, H.49, T.50, C.181, T.185, G.206, L.207, G.208, G.209, V.210, I.229, D.230, I.231, K.235, C.275, A.276, T.281, I.299, G.300, V.301, T.324, F.325, F.326, M.369, R.376 Ligands: ZN.6, EDO.10, ACY.11 23 PLIP interactions: 23 interactions with chain B Hydrophobic interactions: B:T.185, B:V.210 Hydrogen bonds: B:H.49, B:T.50, B:Y.96, B:G.206, B:L.207, B:L.207, B:G.209, B:V.210, B:I.231, B:A.276, B:I.299, B:V.301, B:F.326, B:R.376 Water bridges: B:H.49, B:G.208, B:G.211, B:K.235, B:M.369 Salt bridges: B:H.49, B:R.376

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 8 residues within 4Å: Chain A: F.205, I.229, P.250, I.257, E.280, T.281, A.284 Ligands: NAD.3 No protein-ligand interaction detected (PLIP) EDO.9: 5 residues within 4Å: Chain B: S.125, D.126, Q.127, Q.128, L.129 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.125, B:D.126, B:Q.127, B:Q.128, B:L.129 Water bridges: B:L.129 EDO.10: 7 residues within 4Å: Chain B: F.205, I.229, P.250, I.257, T.281, A.284 Ligands: NAD.8 No protein-ligand interaction detected (PLIP)

2 x ACY: ACETIC ACID(Non-functional Binders)

ACY.5: 8 residues within 4Å: Chain A: C.48, T.50, H.70, Y.96, F.148, C.181 Ligands: ZN.1, NAD.3 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.50 Hydrogen bonds: A:T.50 Salt bridges: A:H.70 ACY.11: 8 residues within 4Å: Chain B: C.48, T.50, H.70, Y.96, F.148, C.181 Ligands: ZN.6, NAD.8 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:T.50 Salt bridges: B:H.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kavanagh, K.L. et al., Crystal structure of human class II alcohol dehydrogenase (ADH4) in complex with NAD and Zn. To be Published

Release Date

2008-04-15

Peptides

Alcohol dehydrogenase 4: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Alcohol dehydrogenase 4

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