SMTL ID : 6zyz.1

Structure of the borneol dehydrogenases of Salvia rosmarinus with NAD+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.27 Å

Oligo State

homo-tetramer

Ligands

2 x PXN: (2S)-1-[3-{[(2R)-2-hydroxypropyl]oxy}-2,2-bis({[(2R)-2-hydroxypropyl]oxy}methyl)propoxy]propan-2-ol(Non-covalent)

PXN.1: 11 residues within 4Å: Chain A: P.121, N.122, S.123, D.126, G.174 Chain B: S.193, V.196, E.197, S.200 Chain C: I.282, T.286 9 PLIP interactions: 7 interactions with chain A, 1 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: A:P.121, C:I.282, B:V.196 Hydrogen bonds: A:S.123, A:D.126 Water bridges: A:N.122, A:G.174, A:A.176, A:A.176 PXN.5: 8 residues within 4Å: Chain B: I.282 Chain C: S.193, V.196, E.197, S.200 Chain D: P.121, N.122, G.174 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C Water bridges: D:I.175 Hydrogen bonds: C:S.200

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

NAD.2: 23 residues within 4Å: Chain A: G.40, S.43, G.44, I.45, D.64, I.65, Q.66, C.86, D.87, V.88, N.114, A.115, G.116, V.118, I.138, T.165, A.166, S.167, Y.180, K.184, P.210, F.211, V.213 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:G.40, A:S.43, A:S.43, A:I.45, A:Q.66, A:D.87, A:V.88, A:N.114, A:G.116, A:K.184, A:V.213, A:V.213 Water bridges: A:G.46, A:N.114 NAD.3: 24 residues within 4Å: Chain B: G.40, S.43, G.44, I.45, D.64, I.65, Q.66, C.86, D.87, V.88, N.114, A.115, G.116, V.118, I.138, T.165, A.166, S.167, Y.180, K.184, P.210, F.211, V.213, T.215 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:P.210, B:V.213 Hydrogen bonds: B:G.40, B:A.42, B:S.43, B:S.43, B:S.43, B:S.43, B:I.45, B:Q.66, B:D.87, B:D.87, B:V.88, B:N.114, B:G.116, B:Y.180, B:K.184, B:V.213, B:T.215 Water bridges: B:G.46, B:N.114 NAD.4: 27 residues within 4Å: Chain C: G.40, S.43, G.44, I.45, D.64, I.65, Q.66, C.86, D.87, V.88, N.114, A.115, G.116, V.118, I.138, T.165, A.166, S.167, Y.180, K.184, P.210, F.211, G.212, V.213, T.215, G.216, I.217 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:P.210 Hydrogen bonds: C:G.40, C:G.40, C:S.43, C:S.43, C:I.45, C:Q.66, C:D.87, C:V.88, C:N.114, C:G.116, C:Y.180, C:K.184, C:V.213, C:V.213, C:T.215, C:G.216 NAD.6: 23 residues within 4Å: Chain D: G.40, S.43, G.44, I.45, D.64, I.65, Q.66, C.86, D.87, V.88, N.114, A.115, G.116, V.118, I.138, T.165, A.166, Y.180, K.184, P.210, G.212, V.213, T.215 15 PLIP interactions: 15 interactions with chain D Hydrophobic interactions: D:P.210 Hydrogen bonds: D:G.40, D:G.40, D:S.43, D:S.43, D:I.45, D:Q.66, D:D.87, D:D.87, D:V.88, D:N.114, D:G.116, D:K.184, D:V.213, D:V.213

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 3 residues within 4Å: Chain D: E.171, I.172, T.275 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chanique, A.M. et al., A Structural View on the Stereospecificity of Plant Borneol-Type Dehydrogenases. Chemcatchem (2021)

Release Date

2021-02-17

Peptides

Borneol dehydrogenase from salvia rosmarinus: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Borneol dehydrogenase from salvia rosmarinus

Related Entries With Identical Sequence