SMTL ID : 5hxp.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

3 x IPR: ISOPENTYL PYROPHOSPHATE(Non-covalent)

IPR.1: 9 residues within 4Å: Chain A: I.14, D.16, F.58, S.61, N.64, R.179, R.185, S.187 Chain B: Y.196 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:I.14, A:F.58, A:F.58 Hydrogen bonds: A:S.61, A:N.64, A:S.187 Water bridges: A:R.179, A:R.179, A:R.185, A:R.185 Salt bridges: A:R.179 IPR.5: 14 residues within 4Å: Chain A: R.227 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.2, IPR.6 18 PLIP interactions: 15 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:Y.33, B:L.36, B:L.75 Hydrogen bonds: B:D.16, B:G.17, B:N.18, B:N.18, B:R.19, B:R.20, B:Y.33 Water bridges: B:R.19, A:R.227, A:R.227 Salt bridges: B:R.19, B:R.19, B:R.20, B:R.67, A:R.227 IPR.6: 18 residues within 4Å: Chain A: Y.196, R.227, F.228, G.229 Chain B: I.14, M.15, D.16, F.58, A.59, F.60, S.61, N.64, R.67, R.179, R.185, S.187 Ligands: MG.2, IPR.5 20 PLIP interactions: 7 interactions with chain A, 13 interactions with chain B Hydrogen bonds: A:R.227, A:F.228, A:G.229, B:N.64, B:S.187 Water bridges: A:R.227, A:R.227, A:R.227, B:R.19, B:R.67, B:R.179, B:R.185 Salt bridges: A:R.227, B:R.67, B:R.179, B:R.179, B:R.185 Hydrophobic interactions: B:I.14, B:F.58, B:F.58

1 x MG: MAGNESIUM ION(Non-covalent)

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

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

O4B.3: 6 residues within 4Å: Chain A: E.156, I.158 Chain B: Y.135, L.138, Q.139, K.142 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.142 O4B.4: 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 aZ,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
C

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

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