SMTL ID : 7fh8.1

Friedel-Crafts alkylation enzyme CylK mutant H391A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.32 Å

Oligo State

monomer

Ligands

1 x 4PJ: 2-[(5S,10S)-11-[3,5-bis(oxidanyl)phenyl]-10-methyl-undecan-5-yl]-5-[(2S,7R)-7-fluoranyl-2-methyl-undecyl]benzene-1,3-diol(Non-covalent)

4PJ.1: 21 residues within 4Å: Chain A: Y.37, V.41, F.72, F.76, V.82, W.103, R.105, L.130, F.133, D.135, F.138, N.139, E.374, F.393, P.412, S.413, T.414, T.437, L.438, D.440, K.459 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:Y.37, A:F.72, A:F.76, A:V.82, A:W.103, A:L.130, A:F.138, A:T.414, A:K.459 Hydrogen bonds: A:N.139, A:L.438 Water bridges: A:S.413, A:S.413, A:K.459 pi-Stacking: A:F.393 pi-Cation interactions: A:K.459

5 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.2: 2 residues within 4Å: Chain A: D.562, I.563 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.562, H2O.2, H2O.5, H2O.11, H2O.21, H2O.28 MG.3: 3 residues within 4Å: Chain A: D.169, T.171, Y.218 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.169, A:T.171, A:Y.218, H2O.8, H2O.21, H2O.25 MG.4: 1 residues within 4Å: Ligands: MG.6 No protein-ligand interaction detected (PLIP) MG.5: 1 residues within 4Å: Chain A: T.469 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.469, H2O.4, H2O.24, H2O.25, H2O.28 MG.6: 3 residues within 4Å: Chain A: E.253, H.254 Ligands: MG.4 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.253, H2O.4, H2O.11, H2O.12, H2O.23

12 x CA: CALCIUM ION(Non-covalent)

CA.7: 7 residues within 4Å: Chain A: T.84, S.86, D.88, G.104, R.105, H.106, D.109 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:T.84, A:S.86, A:G.104, A:H.106, A:D.109 CA.8: 7 residues within 4Å: Chain A: R.105, H.106, G.107, D.109, G.131, D.132, D.153 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:R.105, A:G.107, A:D.109, A:G.131, A:D.132, A:D.153 CA.9: 5 residues within 4Å: Chain A: D.132, W.151, D.153, E.187, D.188 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.132, A:W.151, A:D.153, A:E.187, A:D.188, H2O.10 CA.10: 6 residues within 4Å: Chain A: Y.165, E.167, G.173, Q.176, D.219, L.220 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:Y.165, A:E.167, A:G.173, A:Q.176, A:D.219, A:L.220 CA.11: 6 residues within 4Å: Chain A: T.257, A.259, D.261, G.641, Y.643, D.644 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:T.257, A:A.259, A:D.261, A:G.641, A:Y.643, A:D.644 CA.12: 6 residues within 4Å: Chain A: G.290, R.292, D.293, S.313, G.315, E.317 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:G.290, A:R.292, A:D.293, A:S.313, A:G.315, A:E.317 CA.13: 6 residues within 4Å: Chain A: G.346, N.348, D.349, T.369, T.371, E.373 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:G.346, A:N.348, A:D.349, A:T.369, A:T.371, A:E.373 CA.14: 5 residues within 4Å: Chain A: T.414, D.415, T.435, T.437, D.439 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.414, A:D.415, A:T.435, A:T.437, A:D.439, H2O.8 CA.15: 5 residues within 4Å: Chain A: Y.473, D.474, T.494, N.496, D.498 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:Y.473, A:D.474, A:T.494, A:N.496, A:D.498, H2O.5 CA.16: 6 residues within 4Å: Chain A: G.527, Y.529, D.530, T.550, E.552, D.554 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:G.527, A:Y.529, A:D.530, A:T.550, A:E.552, A:D.554 CA.17: 6 residues within 4Å: Chain A: G.585, Y.587, D.588, T.608, D.610, D.612 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:G.585, A:Y.587, A:D.588, A:T.608, A:D.610, A:D.612 CA.18: 3 residues within 4Å: Chain A: D.502, D.559, I.561 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.502, A:D.559, A:I.561, H2O.12, H2O.19

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

CL.19: 5 residues within 4Å: Chain A: T.84, V.85, R.105, Y.473, F.499 Ligand excluded by PLIP CL.20: 2 residues within 4Å: Chain A: K.246, T.247 Ligand excluded by PLIP CL.21: 3 residues within 4Å: Chain A: T.435, G.460, S.461 Ligand excluded by PLIP CL.22: 4 residues within 4Å: Chain A: E.136, Q.137, A.147, G.148 Ligand excluded by PLIP CL.23: 4 residues within 4Å: Chain A: K.298, R.306, W.307, S.357 Ligand excluded by PLIP CL.24: 3 residues within 4Å: Chain A: L.201, S.231, L.232 Ligand excluded by PLIP CL.25: 3 residues within 4Å: Chain A: T.171, L.172, L.174 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, H.Q. et al., Structural Basis for the Friedel-Crafts Alkylation in Cylindrocyclophane Biosynthesis. ACS Catal. (2022)

Release Date

2022-02-16

Peptides

CylK: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CylK