SMTL ID : 1yqd.1

Sinapyl Alcohol Dehydrogenase complexed with NADP+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.54, S.56, H.76, C.170 Ligands: NAP.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.54, A:H.76, A:C.170, H2O.2 ZN.2: 5 residues within 4Å: Chain A: C.107, H.108, C.110, C.113, C.121 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.107, A:C.110, A:C.113, A:C.121 ZN.5: 5 residues within 4Å: Chain B: C.107, H.108, C.110, C.113, C.121 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.107, B:C.110, B:C.113, B:C.121 ZN.6: 5 residues within 4Å: Chain B: C.54, S.56, H.76, C.170 Ligands: NAP.7 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.54, B:H.76, B:C.170, H2O.13

2 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.3: 32 residues within 4Å: Chain A: C.54, H.55, S.56, H.59, W.65, C.170, T.174, G.195, L.196, G.197, G.198, L.199, S.218, T.219, S.220, K.223, T.258, V.259, S.260, A.261, V.281, G.282, A.283, S.305, G.306, I.307, L.344, N.347, R.352 Chain B: I.296 Ligands: ZN.1, DTT.4 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:T.174, A:L.199 Hydrogen bonds: A:H.55, A:H.59, A:L.196, A:G.198, A:L.199, A:T.219, A:S.220, A:S.260, A:V.281, A:A.283, A:I.307, A:N.347 Water bridges: A:G.197, A:G.200, A:I.217, A:V.262, A:Y.351, A:R.352 Salt bridges: A:H.55, A:K.223, A:R.352 NAP.7: 32 residues within 4Å: Chain A: I.296 Chain B: C.54, H.55, S.56, H.59, W.65, C.170, T.174, G.195, L.196, G.197, G.198, L.199, S.218, T.219, S.220, K.223, T.258, V.259, S.260, A.261, V.281, G.282, A.283, S.305, G.306, I.307, L.344, N.347, R.352 Ligands: ZN.6, DTT.8 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:T.174, B:L.199 Hydrogen bonds: B:H.55, B:H.59, B:L.196, B:G.198, B:L.199, B:T.219, B:V.281, B:A.283, B:I.307, B:N.347 Water bridges: B:G.197, B:G.200, B:I.217, B:Y.351, B:R.352 Salt bridges: B:H.55, B:K.223, B:R.352

2 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.4: 8 residues within 4Å: Chain A: S.56, W.65, H.76, C.102, A.283 Chain B: F.293, I.296 Ligands: NAP.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.56 DTT.8: 9 residues within 4Å: Chain A: F.293, I.296 Chain B: S.56, W.65, H.76, C.102, A.283, I.307 Ligands: NAP.7 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.56

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 4 residues within 4Å: Chain B: L.272, K.273, S.274, K.300 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:L.272, B:K.300 Water bridges: B:G.250, B:S.274, B:S.274

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bomati, E.K. et al., Structural and Kinetic Basis for Substrate Selectivity in Populus tremuloides Sinapyl Alcohol Dehydrogenase. Plant Cell (2005)

Release Date

2005-07-12

Peptides

sinapyl alcohol dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

sinapyl alcohol dehydrogenase

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