SMTL ID : 3m6i.1 (1 other biounit)

L-arabinitol 4-dehydrogenase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-tetramer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.53, H.78, E.79 Ligands: NAD.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.53, A:H.78, H2O.2 ZN.2: 5 residues within 4Å: Chain A: C.108, N.109, C.111, C.114, C.122 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.108, A:C.111, A:C.114, A:C.122 ZN.4: 4 residues within 4Å: Chain B: C.53, H.78, E.79 Ligands: NAD.6 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.53, B:H.78, H2O.6 ZN.5: 5 residues within 4Å: Chain B: C.108, N.109, C.111, C.114, C.122 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.108, B:C.111, B:C.114, B:C.122 ZN.7: 4 residues within 4Å: Chain C: C.53, H.78, E.79 Ligands: NAD.9 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:C.53, C:H.78, H2O.10 ZN.8: 5 residues within 4Å: Chain C: C.108, N.109, C.111, C.114, C.122 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.108, C:C.111, C:C.114, C:C.122 ZN.10: 4 residues within 4Å: Chain D: C.53, H.78, E.79 Ligands: NAD.12 3 PLIP interactions: 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:C.53, D:H.78, H2O.13 ZN.11: 5 residues within 4Å: Chain D: C.108, N.109, C.111, C.114, C.122 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.108, D:C.111, D:C.114, D:C.122

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

NAD.3: 25 residues within 4Å: Chain A: C.53, G.54, S.55, V.167, G.187, A.188, G.189, P.190, I.191, T.210, D.211, I.212, R.216, V.232, C.259, T.260, S.264, S.265, I.282, G.283, V.284, Q.306, Y.307, R.308 Ligands: ZN.1 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:V.167, A:I.191 Hydrogen bonds: A:G.54, A:S.55, A:G.189, A:I.191, A:I.212, A:R.216, A:R.216, A:S.264, A:S.265, A:V.284, A:Q.306, A:R.308 Water bridges: A:I.52, A:G.54, A:G.192, A:G.192, A:T.210 Salt bridges: A:R.216 NAD.6: 25 residues within 4Å: Chain B: C.53, G.54, S.55, V.167, G.187, A.188, G.189, P.190, I.191, T.210, D.211, I.212, R.216, V.232, C.259, T.260, S.264, S.265, I.282, G.283, V.284, Q.306, Y.307, R.308 Ligands: ZN.4 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:V.167, B:I.191 Hydrogen bonds: B:G.54, B:S.55, B:G.189, B:I.191, B:I.212, B:R.216, B:R.216, B:S.264, B:S.265, B:V.284, B:Q.306, B:R.308 Water bridges: B:I.52, B:G.54, B:G.192, B:G.192, B:T.210 Salt bridges: B:R.216 NAD.9: 25 residues within 4Å: Chain C: C.53, G.54, S.55, V.167, G.187, A.188, G.189, P.190, I.191, T.210, D.211, I.212, R.216, V.232, C.259, T.260, S.264, S.265, I.282, G.283, V.284, Q.306, Y.307, R.308 Ligands: ZN.7 19 PLIP interactions: 19 interactions with chain C Hydrophobic interactions: C:V.167, C:I.191 Hydrogen bonds: C:G.54, C:S.55, C:G.189, C:I.191, C:I.212, C:R.216, C:R.216, C:S.264, C:S.265, C:V.284, C:Q.306, C:R.308 Water bridges: C:I.52, C:G.54, C:G.192, C:G.192 Salt bridges: C:R.216 NAD.12: 25 residues within 4Å: Chain D: C.53, G.54, S.55, V.167, G.187, A.188, G.189, P.190, I.191, T.210, D.211, I.212, R.216, V.232, C.259, T.260, S.264, S.265, I.282, G.283, V.284, Q.306, Y.307, R.308 Ligands: ZN.10 19 PLIP interactions: 19 interactions with chain D Hydrophobic interactions: D:V.167, D:I.191 Hydrogen bonds: D:G.54, D:S.55, D:G.189, D:I.191, D:I.212, D:R.216, D:R.216, D:S.264, D:S.265, D:V.284, D:Q.306, D:R.308 Water bridges: D:I.52, D:G.54, D:G.192, D:G.192 Salt bridges: D:R.216

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bae, B. et al., Structure and engineering of L-arabinitol 4-dehydrogenase from Neurospora crassa. J.Mol.Biol. (2010)

Release Date

2010-07-21

Peptides

L-arabinitol 4-dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

L-arabinitol 4-dehydrogenase

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