SMTL ID : 6vyd.2 (1 other biounit)

Terpenoid Cyclase FgGS in Complex with Mg, Inorganic Pyrophosphate, and Benzyltriethylammonium cation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.46 Å

Oligo State

monomer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain A: D.94, E.98, R.216, R.300 Ligands: MG.2, POP.8 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.94, A:E.98, H2O.3, H2O.3 MG.2: 5 residues within 4Å: Chain A: D.94, E.98, D.168 Ligands: MG.1, POP.8 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.94, A:E.98, H2O.2, H2O.2, H2O.4 MG.3: 5 residues within 4Å: Chain A: R.165, N.209, S.213, E.217 Ligands: POP.8 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.213, A:E.217, H2O.2

1 x NA: SODIUM ION(Non-functional Binders)

NA.4: 4 residues within 4Å: Chain A: E.98, S.224, T.225, L.226 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.98, A:S.224 Water bridges: A:I.227

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 2 residues within 4Å: Chain A: R.120, R.124 Ligand excluded by PLIP CL.6: 2 residues within 4Å: Chain A: R.199, R.262 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain A: Y.211, K.245 Ligand excluded by PLIP

1 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.8: 14 residues within 4Å: Chain A: D.94, E.98, R.165, T.169, N.209, S.213, R.216, E.217, R.300, Y.301 Ligands: MG.1, MG.2, MG.3, BTM.9 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:D.94, A:N.209, A:S.213 Water bridges: A:R.165, A:R.165, A:R.216, A:R.216, A:R.300 Salt bridges: A:R.165, A:R.216, A:R.300

1 x BTM: N-benzyl-N,N-diethylethanaminium(Non-covalent)

BTM.9: 10 residues within 4Å: Chain A: F.67, F.91, T.169, V.174, L.205, N.209, Q.287, N.291, Y.301 Ligands: POP.8 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.67, A:F.91, A:F.91, A:V.174, A:L.205, A:L.205, A:N.291

13 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.10: 6 residues within 4Å: Chain A: E.175, L.186, D.191, G.195, I.198, Y.280 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.191 EDO.11: 5 residues within 4Å: Chain A: K.42, E.81, L.82, Y.85, R.124 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.42, A:K.42, A:E.81, A:R.124 Water bridges: A:L.82 EDO.12: 2 residues within 4Å: Chain A: R.115, E.119 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.115 Water bridges: A:L.116 EDO.13: 5 residues within 4Å: Chain A: F.16, D.17, T.18, H.19, G.20 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.16, A:T.18, A:G.20 Water bridges: A:T.18 EDO.14: 9 residues within 4Å: Chain A: V.153, D.154, F.155, Y.161, L.226, I.227, N.228, I.232, R.235 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.155, A:N.228, A:R.235 EDO.15: 7 residues within 4Å: Chain A: T.7, L.74, C.75, R.76, G.181, L.182, Q.279 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.7, A:G.181 Water bridges: A:Q.279 EDO.16: 7 residues within 4Å: Chain A: W.140, A.143, I.144, D.168, T.169, G.170, F.173 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.169 EDO.17: 6 residues within 4Å: Chain A: L.126, Q.127, T.128, D.129, E.130 Ligands: EDO.20 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.126, A:E.130 Water bridges: A:D.129, A:V.131 EDO.18: 3 residues within 4Å: Chain A: P.242, T.243, T.246 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.242, A:T.246 EDO.19: 4 residues within 4Å: Chain A: M.166, I.167, R.199, F.202 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.199 EDO.20: 2 residues within 4Å: Chain A: E.130 Ligands: EDO.17 No protein-ligand interaction detected (PLIP) EDO.21: 3 residues within 4Å: Chain A: Y.118, K.141, I.144 No protein-ligand interaction detected (PLIP) EDO.22: 3 residues within 4Å: Chain A: Q.268, G.271, P.272 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, H. et al., Discovery of the cryptic function of terpene cyclases as aromatic prenyltransferases. Nat Commun (2020)

Release Date

2020-07-08

Peptides

Terpenoid cyclase FgGS: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Terpenoid cyclase FgGS

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