SMTL ID : 1gr0.1

myo-inositol 1-phosphate synthase from Mycobacterium tuberculosis in complex with NAD and zinc.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 31 residues within 4Å: Chain A: V.21, G.22, V.23, G.24, N.25, C.26, F.68, D.69, V.70, K.74, P.107, T.108, G.111, I.112, Y.116, Y.145, L.146, P.147, V.148, Y.157, A.171, L.172, D.197, I.198, S.200, M.234, D.235, D.310, S.311, S.314 Ligands: ZN.2 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:I.198 Hydrogen bonds: A:V.23, A:N.25, A:N.25, A:C.26, A:K.74, A:P.107, A:Y.116, A:Y.116, A:L.146, A:Y.157, A:D.235, A:D.310 Water bridges: A:G.24, A:A.27, A:Y.116, A:V.148, A:V.148, A:N.233, A:M.234, A:M.234 NAD.4: 31 residues within 4Å: Chain B: V.21, G.22, V.23, G.24, N.25, C.26, F.68, D.69, V.70, K.74, P.107, T.108, G.111, I.112, Y.116, Y.145, L.146, P.147, V.148, Y.157, A.171, L.172, D.197, I.198, S.200, M.234, D.235, D.310, S.311, S.314 Ligands: ZN.5 23 PLIP interactions: 23 interactions with chain B Hydrophobic interactions: B:I.198 Hydrogen bonds: B:V.23, B:N.25, B:N.25, B:C.26, B:K.74, B:P.107, B:Y.116, B:L.146, B:D.235, B:D.310 Water bridges: B:G.24, B:A.27, B:Y.116, B:Y.116, B:Y.116, B:Y.116, B:V.148, B:N.233, B:M.234, B:M.234, B:D.235, B:D.310 NAD.7: 31 residues within 4Å: Chain C: V.21, G.22, V.23, G.24, N.25, C.26, F.68, D.69, V.70, K.74, P.107, T.108, G.111, I.112, Y.116, Y.145, L.146, P.147, V.148, Y.157, A.171, L.172, D.197, I.198, S.200, M.234, D.235, D.310, S.311, S.314 Ligands: ZN.8 23 PLIP interactions: 23 interactions with chain C Hydrophobic interactions: C:I.198 Hydrogen bonds: C:V.23, C:N.25, C:N.25, C:C.26, C:K.74, C:P.107, C:Y.116, C:L.146, C:D.235, C:D.310 Water bridges: C:G.24, C:A.27, C:Y.116, C:Y.116, C:Y.116, C:Y.116, C:V.148, C:N.233, C:M.234, C:M.234, C:D.235, C:D.310 NAD.10: 31 residues within 4Å: Chain D: V.21, G.22, V.23, G.24, N.25, C.26, F.68, D.69, V.70, K.74, P.107, T.108, G.111, I.112, Y.116, Y.145, L.146, P.147, V.148, Y.157, A.171, L.172, D.197, I.198, S.200, M.234, D.235, D.310, S.311, S.314 Ligands: ZN.11 21 PLIP interactions: 21 interactions with chain D Hydrophobic interactions: D:I.198 Hydrogen bonds: D:V.23, D:N.25, D:N.25, D:C.26, D:K.74, D:P.107, D:Y.116, D:Y.116, D:L.146, D:Y.157, D:D.235, D:D.310 Water bridges: D:G.24, D:A.27, D:Y.116, D:V.148, D:V.148, D:N.233, D:M.234, D:M.234

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: C.26, S.311 Ligands: NAD.1 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.311, H2O.7 ZN.5: 3 residues within 4Å: Chain B: C.26, S.311 Ligands: NAD.4 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:S.311, H2O.14 ZN.8: 3 residues within 4Å: Chain C: C.26, S.311 Ligands: NAD.7 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:S.311, H2O.20 ZN.11: 3 residues within 4Å: Chain D: C.26, S.311 Ligands: NAD.10 2 PLIP interactions: 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:S.311, H2O.27

4 x CAC: CACODYLATE ION(Non-covalent)

CAC.3: 5 residues within 4Å: Chain A: D.42, T.43, S.44, M.50, H.51 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:M.50, A:H.51 Water bridges: A:V.52, A:V.52 CAC.6: 5 residues within 4Å: Chain B: D.42, T.43, S.44, M.50, H.51 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:M.50 Water bridges: B:V.52, B:V.52 CAC.9: 5 residues within 4Å: Chain C: D.42, T.43, S.44, M.50, H.51 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:M.50 Water bridges: C:V.52, C:V.52 CAC.12: 5 residues within 4Å: Chain D: D.42, T.43, S.44, M.50, H.51 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:M.50, D:H.51 Water bridges: D:V.52, D:V.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Norman, R.A. et al., Crystal Structure of Inositol 1-Phosphate Synthase from Mycobacterium Tuberculosis, a Key Enzyme in Phosphatidylinositol Synthesis. Structure (2002)

Release Date

2002-03-12

Peptides

INOSITOL-3-PHOSPHATE SYNTHASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

INOSITOL-3-PHOSPHATE SYNTHASE