SMTL ID : 7u25.1

Crystal structure of arabidopsis thaliana acetohydroxyacid synthase W574L mutant in complex with bispyribac-sodium

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.19 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: D.453, N.480, H.482, G.484 Ligands: TZD.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.453, A:H.482 MG.7: 5 residues within 4Å: Chain B: D.453, N.480, H.482, G.484 Ligands: TZD.10 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.453, B:H.482

2 x 6QL: 2,6-bis[(4,6-dimethoxypyrimidin-2-yl)oxy]benzoic acid(Non-covalent)

6QL.2: 17 residues within 4Å: Chain A: M.266, H.267, R.292, M.485, L.489, S.568, G.569 Chain B: G.36, A.37, P.112, R.114, M.115, F.121, K.171, Q.175 Ligands: FAD.3, TZD.4 9 PLIP interactions: 5 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:P.112 Hydrogen bonds: B:R.114, B:K.171, A:R.292, A:R.292, A:S.568 Salt bridges: B:K.171, A:R.292 pi-Stacking: B:F.121 6QL.8: 17 residues within 4Å: Chain A: G.36, A.37, P.112, R.114, M.115, F.121, K.171, Q.175 Chain B: M.266, H.267, R.292, M.485, L.489, S.568, G.569 Ligands: FAD.9, TZD.10 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:P.112 Hydrogen bonds: A:R.114, A:K.171, B:R.292, B:R.292, B:S.568 Salt bridges: A:K.171, B:R.292 pi-Stacking: A:F.121

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.3: 34 residues within 4Å: Chain A: L.99, R.161, G.222, G.223, G.224, T.246, L.247, M.248, L.264, G.265, M.266, H.267, G.286, V.287, R.288, D.290, R.292, V.293, D.310, I.311, D.312, E.315, G.328, D.329, V.330, V.400, Q.404, M.405, S.422, G.423, G.424, G.426 Chain B: F.121 Ligands: 6QL.2 20 PLIP interactions: 19 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.247, A:V.400, B:F.121 Hydrogen bonds: A:L.99, A:R.161, A:G.223, A:T.246, A:L.247, A:L.264, A:M.266, A:H.267, A:V.287, A:R.288, A:D.290, A:I.311, A:D.329, A:D.329, A:V.330, A:G.423 Salt bridges: A:R.288 FAD.9: 34 residues within 4Å: Chain A: F.121 Chain B: L.99, R.161, G.222, G.223, G.224, T.246, L.247, M.248, L.264, G.265, M.266, H.267, G.286, V.287, R.288, D.290, R.292, V.293, D.310, I.311, D.312, E.315, G.328, D.329, V.330, V.400, Q.404, M.405, S.422, G.423, G.424, G.426 Ligands: 6QL.8 19 PLIP interactions: 18 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.247, B:V.400, A:F.121 Hydrogen bonds: B:L.99, B:R.161, B:G.223, B:T.246, B:T.246, B:L.247, B:L.264, B:M.266, B:H.267, B:V.287, B:R.288, B:I.311, B:D.329, B:V.330, B:G.423 Salt bridges: B:R.288

2 x TZD: 2-{3-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-4-METHYL-2-OXO-2,3-DIHYDRO-1,3-THIAZOL-5-YL}ETHYL TRIHYDROGEN DIPHOSPHATE(Non-covalent)

TZD.4: 27 residues within 4Å: Chain A: V.400, G.401, Q.402, H.403, G.426, M.428, G.452, D.453, G.454, S.455, M.458, N.480, H.482, L.483, G.484, M.485, V.486 Chain B: Y.33, P.34, G.35, E.59, T.82, P.85, N.89, Q.122 Ligands: MG.1, 6QL.2 18 PLIP interactions: 15 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:M.428, A:L.483, A:L.483, A:V.486, B:Y.33, B:P.85 Hydrogen bonds: A:Q.402, A:H.403, A:G.426, A:M.428, A:G.454, A:S.455, A:N.480, A:G.484, A:M.485, B:Q.122 Salt bridges: A:H.403, A:H.403 TZD.10: 27 residues within 4Å: Chain A: Y.33, P.34, G.35, E.59, T.82, P.85, N.89, Q.122 Chain B: V.400, G.401, Q.402, H.403, G.426, M.428, G.452, D.453, G.454, S.455, M.458, N.480, H.482, L.483, G.484, M.485, V.486 Ligands: MG.7, 6QL.8 18 PLIP interactions: 15 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:M.428, B:L.483, B:L.483, B:V.486, A:Y.33, A:P.85 Hydrogen bonds: B:Q.402, B:H.403, B:G.426, B:M.428, B:G.454, B:S.455, B:N.480, B:G.484, B:M.485, A:Q.122 Salt bridges: B:H.403, B:H.403

2 x NHE: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID(Non-covalent)

NHE.5: 8 residues within 4Å: Chain A: K.135, H.136, L.156, R.187, L.188, P.189, G.190, Y.191 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.156, A:L.156, A:Y.191 Hydrogen bonds: A:G.190, A:Y.191 NHE.11: 8 residues within 4Å: Chain B: K.135, H.136, L.156, R.187, L.188, P.189, G.190, Y.191 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.156, B:L.156, B:Y.191 Hydrogen bonds: B:G.190, B:Y.191

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.6: 5 residues within 4Å: Chain A: R.71, M.248, W.419, L.420, S.421 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.419, A:S.421 Salt bridges: A:R.71 SO4.12: 5 residues within 4Å: Chain B: R.71, M.248, W.419, L.420, S.421 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:W.419, B:S.421 Salt bridges: B:R.71

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lonhienne, T. et al., Structural basis of resistance to herbicides that target acetohydroxyacid synthase. Nat Commun (2022)

Release Date

2022-06-01

Peptides

Acetolactate synthase, chloroplastic: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Acetolactate synthase, chloroplastic