SMTL ID : 2vg1.1

Rv1086 E,E-farnesyl diphosphate complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 5 residues within 4Å: Chain A: G.13, N.14, R.15, R.16, Y.30 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:G.13, A:N.14, A:R.15, A:R.16 Water bridges: A:R.15, A:R.15, A:R.15, A:Y.30 Salt bridges: A:R.15, A:R.16 PO4.4: 5 residues within 4Å: Chain B: D.12, G.13, N.14, R.15, R.16 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:D.12, B:G.13, B:N.14, B:R.15, B:R.16 Salt bridges: B:R.15, B:R.16

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: E.135, D.138, A.139, N.169, L.170, Y.171 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.135, A:L.170, A:Y.171 Water bridges: A:A.142 GOL.3: 10 residues within 4Å: Chain A: C.11, N.14, Y.30, G.33, A.34, I.37, L.56, I.75, I.76, W.210 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.14, A:G.33, A:L.56 GOL.5: 7 residues within 4Å: Chain B: E.135, D.138, A.139, A.142, N.169, L.170, Y.171 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.135, B:Y.171 Water bridges: B:N.169, B:L.170, B:L.170 GOL.6: 4 residues within 4Å: Chain B: W.43, R.214, H.215, V.216 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.215, B:V.216 Water bridges: B:W.43 GOL.7: 4 residues within 4Å: Chain A: R.134 Chain B: T.162, V.163, E.164 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:T.162, B:V.163, B:E.164, A:R.134, A:R.134 GOL.8: 6 residues within 4Å: Chain A: V.163, Y.200 Chain B: G.131, G.132, R.133, R.134 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:G.132, B:R.133, B:R.134, B:R.134, B:R.134, A:Y.200

1 x FPP: FARNESYL DIPHOSPHATE(Non-covalent)

FPP.9: 19 residues within 4Å: Chain A: Y.200 Chain B: L.10, C.11, D.12, N.14, Y.30, G.33, A.34, I.37, Y.55, L.56, S.58, E.60, N.61, R.64, I.75, R.183, R.189, S.191 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:L.10, B:Y.30, B:A.34, B:I.37, B:Y.55, B:Y.55, B:I.75 Hydrogen bonds: B:S.58, B:S.58, B:E.60, B:E.60, B:N.61, B:R.183, B:S.191, B:S.191 Salt bridges: B:R.183, B:R.189

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, W. et al., The structural basis of chain length control in Rv1086. J. Mol. Biol. (2008)

Release Date

2007-11-13

Peptides

SHORT-CHAIN Z-ISOPRENYL DIPHOSPHATE SYNTHETASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

SHORT-CHAIN Z-ISOPRENYL DIPHOSPHATE SYNTHETASE