SMTL ID : 5hxt.1

Crystal Structure of Z,Z-Farnesyl Diphosphate Synthase (D71M, E75A and H103Y Mutants) Complexed with IPP and DMSPP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.16, R.67 Ligands: DST.2, IPR.3 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.16, H2O.2, H2O.4 MG.4: 4 residues within 4Å: Chain B: D.16, R.67 Ligands: DST.5, IPR.6 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.16

2 x DST: DIMETHYLALLYL S-THIOLODIPHOSPHATE(Non-covalent)

DST.2: 12 residues within 4Å: Chain A: M.15, D.16, G.17, N.18, R.19, R.20, Y.33, A.59, N.64, R.67 Ligands: MG.1, IPR.3 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:G.17, A:N.18, A:R.19, A:R.20, A:Y.33, A:R.67, A:R.67 Water bridges: A:R.19, A:R.179 DST.5: 13 residues within 4Å: Chain B: M.15, D.16, G.17, N.18, R.19, R.20, Y.33, L.36, A.59, R.67, L.75 Ligands: MG.4, IPR.6 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:L.36, B:L.75 Hydrogen bonds: B:G.17, B:N.18, B:R.19, B:R.20, B:R.67, B:R.67 Salt bridges: B:R.19, B:R.20

2 x IPR: ISOPENTYL PYROPHOSPHATE(Non-covalent)

IPR.3: 13 residues within 4Å: Chain A: I.14, M.15, D.16, F.58, F.60, S.61, N.64, R.67, R.179, R.185, S.187 Ligands: MG.1, DST.2 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.14, A:F.58 Hydrogen bonds: A:N.64, A:R.179, A:S.187 Water bridges: A:R.67, A:R.67, A:R.67, A:R.67, A:R.67, A:R.185, A:R.185 Salt bridges: A:R.67, A:R.179, A:R.185 IPR.6: 13 residues within 4Å: Chain B: I.14, M.15, D.16, F.58, S.61, N.64, R.67, R.179, D.183, R.185, S.187 Ligands: MG.4, DST.5 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.58 Hydrogen bonds: B:S.61, B:N.64, B:D.183, B:R.185, B:S.187 Salt bridges: B:R.67, B:R.179 Water bridges: A:R.226

1 x O4B: 1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE(Non-covalent)

O4B.7: 3 residues within 4Å: Chain B: M.104, Q.107, K.108 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chan, Y.T. et al., Crystal Structure and Potential Head-to-Middle Condensation Function of a Z,Z-Farnesyl Diphosphate Synthase. Acs Omega (2017)

Release Date

2017-04-05

Peptides

(2Z,6Z)-farnesyl diphosphate synthase, chloroplastic: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

(2Z,6Z)-farnesyl diphosphate synthase, chloroplastic

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