SMTL ID : 3cea.1

Crystal structure of myo-inositol 2-dehydrogenase (NP_786804.1) from Lactobacillus plantarum at 2.40 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 28 residues within 4Å: Chain A: I.14, G.15, L.16, G.17, R.18, L.19, G.20, C.40, A.41, L.42, D.43, Q.46, V.78, A.79, P.80, T.81, F.83, H.84, M.87, E.101, K.102, P.103, G.129, M.131, F.173, H.189, F.290, F.298 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:L.19, A:F.290 Hydrogen bonds: A:L.16, A:G.17, A:R.18, A:L.19, A:G.20, A:L.42, A:D.43, A:Q.46, A:A.79, A:T.81, A:T.81, A:E.101 Salt bridges: A:R.18 pi-Cation interactions: A:K.102 NAD.3: 28 residues within 4Å: Chain B: I.14, G.15, L.16, G.17, R.18, L.19, G.20, C.40, A.41, L.42, D.43, Q.46, V.78, A.79, P.80, T.81, F.83, H.84, M.87, E.101, K.102, P.103, G.129, M.131, F.173, H.189, F.290, F.298 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:L.19, B:F.290, B:F.290 Hydrogen bonds: B:L.16, B:R.18, B:L.19, B:G.20, B:L.42, B:D.43, B:Q.46, B:Q.46, B:A.79, B:T.81, B:E.101 Water bridges: B:G.17, B:G.17, B:T.81, B:K.172, B:E.176 Salt bridges: B:R.18 NAD.4: 27 residues within 4Å: Chain C: I.14, G.15, L.16, G.17, R.18, L.19, G.20, C.40, A.41, L.42, D.43, Q.46, V.78, A.79, P.80, T.81, F.83, H.84, M.87, E.101, K.102, P.103, G.129, M.131, H.189, F.290, F.298 20 PLIP interactions: 20 interactions with chain C Hydrophobic interactions: C:L.19, C:F.290, C:F.290 Hydrogen bonds: C:L.16, C:L.16, C:G.17, C:R.18, C:L.19, C:G.20, C:L.42, C:D.43, C:Q.46, C:Q.46, C:A.79, C:T.81, C:T.81, C:E.101, C:K.102 Salt bridges: C:R.18 pi-Cation interactions: C:K.102 NAD.6: 27 residues within 4Å: Chain D: I.14, G.15, L.16, G.17, R.18, L.19, G.20, C.40, A.41, L.42, D.43, Q.46, V.78, A.79, P.80, T.81, F.83, H.84, M.87, E.101, K.102, P.103, G.129, M.131, H.189, F.290, F.298 17 PLIP interactions: 17 interactions with chain D Hydrophobic interactions: D:L.19, D:F.290, D:F.290 Hydrogen bonds: D:L.16, D:R.18, D:L.19, D:G.20, D:L.42, D:D.43, D:Q.46, D:Q.46, D:A.79, D:T.81, D:E.101 Water bridges: D:G.17 Salt bridges: D:R.18 pi-Cation interactions: D:K.102

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

CL.2: 1 residues within 4Å: Chain B: R.133 Ligand excluded by PLIP

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

EDO.5: 4 residues within 4Å: Chain C: R.133, R.195, W.196, D.321 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:R.133, C:R.195, C:D.321 Water bridges: C:T.318 EDO.7: 4 residues within 4Å: Chain D: R.133, R.195, W.196, D.321 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:R.133, D:R.133, D:R.195, D:D.321 EDO.8: 5 residues within 4Å: Chain C: H.268, V.282, R.284 Chain D: V.282, R.284 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:H.268

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of myo-inositol 2-dehydrogenase (NP_786804.1) from Lactobacillus plantarum at 2.40 A resolution. To be published

Release Date

2008-03-11

Peptides

Myo-inositol 2-dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Myo-inositol 2-dehydrogenase