SMTL ID : 3nt2.2 (1 other biounit)

Crystal structure of myo-inositol dehydrogenase from Bacillus subtilis with bound cofactor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-hexamer

Ligands

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

NAD.1: 22 residues within 4Å: Chain A: I.8, G.9, T.10, G.11, A.12, I.13, D.35, V.36, N.37, T.73, S.74, W.75, G.76, A.78, H.79, E.96, K.97, P.98, G.124, M.126, H.176, Y.280 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.13 Hydrogen bonds: A:T.10, A:A.12, A:I.13, A:V.36, A:N.37, A:S.74, A:W.75, A:E.96, A:K.97, A:Y.280 Water bridges: A:G.11, A:G.14, A:S.74, A:S.74 pi-Cation interactions: A:K.97 NAD.3: 22 residues within 4Å: Chain C: I.8, G.9, T.10, G.11, A.12, I.13, D.35, V.36, N.37, T.73, S.74, W.75, G.76, A.78, H.79, E.96, K.97, P.98, G.124, M.126, H.176, Y.280 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:I.13 Hydrogen bonds: C:T.10, C:A.12, C:I.13, C:V.36, C:N.37, C:S.74, C:W.75, C:E.96, C:K.97 Water bridges: C:G.11, C:G.14, C:S.74, C:S.74 pi-Cation interactions: C:K.97 NAD.5: 22 residues within 4Å: Chain E: I.8, G.9, T.10, G.11, A.12, I.13, D.35, V.36, N.37, T.73, S.74, W.75, G.76, A.78, H.79, E.96, K.97, P.98, G.124, M.126, H.176, Y.280 16 PLIP interactions: 16 interactions with chain E Hydrophobic interactions: E:I.13 Hydrogen bonds: E:T.10, E:A.12, E:I.13, E:V.36, E:N.37, E:S.74, E:W.75, E:E.96, E:K.97, E:Y.280 Water bridges: E:G.11, E:G.14, E:S.74, E:S.74 pi-Cation interactions: E:K.97

3 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Non-covalent)

NAI.2: 21 residues within 4Å: Chain B: I.8, G.9, G.11, A.12, I.13, T.34, D.35, V.36, N.37, S.74, W.75, G.76, A.78, H.79, E.96, K.97, P.98, M.126, H.176, W.272, Y.280 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:I.13, B:W.272 Hydrogen bonds: B:A.12, B:I.13, B:V.36, B:N.37, B:S.74, B:S.74, B:W.75, B:E.96, B:Y.280 NAI.4: 21 residues within 4Å: Chain D: I.8, G.9, G.11, A.12, I.13, T.34, D.35, V.36, N.37, S.74, W.75, G.76, A.78, H.79, E.96, K.97, P.98, M.126, H.176, W.272, Y.280 11 PLIP interactions: 11 interactions with chain D Hydrophobic interactions: D:I.13, D:W.272 Hydrogen bonds: D:A.12, D:I.13, D:V.36, D:N.37, D:S.74, D:S.74, D:W.75, D:E.96, D:Y.280 NAI.6: 21 residues within 4Å: Chain F: I.8, G.9, G.11, A.12, I.13, T.34, D.35, V.36, N.37, S.74, W.75, G.76, A.78, H.79, E.96, K.97, P.98, M.126, H.176, W.272, Y.280 10 PLIP interactions: 10 interactions with chain F Hydrophobic interactions: F:I.13, F:W.272 Hydrogen bonds: F:A.12, F:I.13, F:V.36, F:N.37, F:S.74, F:S.74, F:W.75, F:E.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

van Straaten, K.E. et al., Structural investigation of myo-inositol dehydrogenase from Bacillus subtilis: implications for catalytic mechanism and inositol dehydrogenase subfamily classification. Biochem.J. (2010)

Release Date

2010-09-15

Peptides

Inositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

Inositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase

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