SMTL ID : 6del.1

Crystal structure of Candida albicans acetohydroxyacid synthase in complex with the herbicide chlorimuron ethyl

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.12 Å

Oligo State

homo-tetramer

Ligands

4 x K: POTASSIUM ION(Non-covalent)

K.1: 4 residues within 4Å: Chain A: Q.338, D.345, Q.501, F.503 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.345, A:Q.501, A:F.503, H2O.3, H2O.17 K.8: 4 residues within 4Å: Chain B: Q.338, D.345, Q.501, F.503 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.345, B:Q.501, B:F.503, H2O.25, H2O.38 K.15: 4 residues within 4Å: Chain C: Q.338, D.345, Q.501, F.503 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.345, C:Q.501, C:F.503, H2O.46, H2O.60 K.22: 4 residues within 4Å: Chain D: Q.338, D.345, Q.501, F.503 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.345, D:Q.501, D:F.503, H2O.67, H2O.81

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: D.545, N.572, E.574 Ligands: TP9.5, G8G.6 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.545, A:E.574, H2O.4 MG.9: 5 residues within 4Å: Chain B: D.545, N.572, E.574 Ligands: TP9.12, G8G.13 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.545, B:E.574, H2O.25 MG.16: 5 residues within 4Å: Chain C: D.545, N.572, E.574 Ligands: TP9.19, G8G.20 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.545, C:E.574, H2O.47 MG.23: 5 residues within 4Å: Chain D: D.545, N.572, E.574 Ligands: TP9.26, G8G.27 3 PLIP interactions: 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.545, D:E.574, H2O.68

4 x CIE: 2-[[[[(4-CHLORO-6-METHOXY-2-PYRIMIDINYL)AMINO]CARBONYL]AMINO]SULFONYL]BENZOIC ACID ETHYL ESTER(Non-covalent)

CIE.3: 16 residues within 4Å: Chain A: M.349, D.374, R.375, M.577, W.581, A.652 Chain D: G.111, A.112, V.186, P.187, A.195, F.196, Q.197, K.246 Ligands: FAD.4, FMT.7 12 PLIP interactions: 5 interactions with chain A, 7 interactions with chain D Hydrogen bonds: A:R.375, A:R.375, D:K.246, D:K.246, D:K.246 pi-Stacking: A:W.581, A:W.581 pi-Cation interactions: A:R.375 Hydrophobic interactions: D:V.186, D:A.195, D:F.196 Salt bridges: D:K.246 CIE.10: 16 residues within 4Å: Chain B: M.349, D.374, R.375, M.577, W.581, A.652 Chain C: G.111, A.112, V.186, P.187, A.195, F.196, Q.197, K.246 Ligands: FAD.11, FMT.14 12 PLIP interactions: 7 interactions with chain C, 5 interactions with chain B Hydrophobic interactions: C:V.186, C:A.195, C:F.196 Hydrogen bonds: C:K.246, C:K.246, C:K.246, B:R.375, B:R.375 Salt bridges: C:K.246 pi-Stacking: B:W.581, B:W.581 pi-Cation interactions: B:R.375 CIE.17: 16 residues within 4Å: Chain B: G.111, A.112, V.186, P.187, A.195, F.196, Q.197, K.246 Chain C: M.349, D.374, R.375, M.577, W.581, A.652 Ligands: FAD.18, FMT.21 12 PLIP interactions: 7 interactions with chain B, 5 interactions with chain C Hydrophobic interactions: B:V.186, B:A.195, B:F.196 Hydrogen bonds: B:K.246, B:K.246, B:K.246, C:R.375, C:R.375 Salt bridges: B:K.246 pi-Stacking: C:W.581, C:W.581 pi-Cation interactions: C:R.375 CIE.24: 16 residues within 4Å: Chain A: G.111, A.112, V.186, P.187, A.195, F.196, Q.197, K.246 Chain D: M.349, D.374, R.375, M.577, W.581, A.652 Ligands: FAD.25, FMT.28 12 PLIP interactions: 7 interactions with chain A, 5 interactions with chain D Hydrophobic interactions: A:V.186, A:A.195, A:F.196 Hydrogen bonds: A:K.246, A:K.246, A:K.246, D:R.375, D:R.375 Salt bridges: A:K.246 pi-Stacking: D:W.581, D:W.581 pi-Cation interactions: D:R.375

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

FAD.4: 37 residues within 4Å: Chain A: M.174, D.175, R.236, G.302, A.303, G.304, N.307, T.329, L.330, Q.331, M.346, L.347, G.348, M.349, H.350, G.351, G.369, A.370, R.371, D.373, R.375, V.376, E.402, I.403, S.404, N.407, G.420, D.421, V.422, V.492, Q.496, M.497, S.514, G.515, G.516 Chain D: F.196 Ligands: CIE.3 31 PLIP interactions: 28 interactions with chain A, 3 interactions with chain D Hydrophobic interactions: A:L.330, A:V.492, D:F.196, D:F.196 Hydrogen bonds: A:R.236, A:A.303, A:G.304, A:N.307, A:T.329, A:T.329, A:L.330, A:Q.331, A:L.347, A:H.350, A:G.351, A:R.371, A:I.403, A:N.407, A:D.421, A:V.422, A:G.515 Water bridges: A:D.175, A:R.236, A:R.236, A:G.369, A:R.371, A:F.372, A:T.423 Salt bridges: A:R.236, A:R.371 pi-Stacking: D:F.196 FAD.11: 37 residues within 4Å: Chain B: M.174, D.175, R.236, G.302, A.303, G.304, N.307, T.329, L.330, Q.331, M.346, L.347, G.348, M.349, H.350, G.351, G.369, A.370, R.371, D.373, R.375, V.376, E.402, I.403, S.404, N.407, G.420, D.421, V.422, V.492, Q.496, M.497, S.514, G.515, G.516 Chain C: F.196 Ligands: CIE.10 31 PLIP interactions: 28 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:L.330, B:V.492, C:F.196, C:F.196 Hydrogen bonds: B:R.236, B:A.303, B:G.304, B:N.307, B:T.329, B:T.329, B:L.330, B:Q.331, B:L.347, B:H.350, B:G.351, B:R.371, B:I.403, B:N.407, B:D.421, B:V.422, B:G.515 Water bridges: B:D.175, B:R.236, B:R.236, B:G.369, B:R.371, B:F.372, B:T.423 Salt bridges: B:R.236, B:R.371 pi-Stacking: C:F.196 FAD.18: 37 residues within 4Å: Chain B: F.196 Chain C: M.174, D.175, R.236, G.302, A.303, G.304, N.307, T.329, L.330, Q.331, M.346, L.347, G.348, M.349, H.350, G.351, G.369, A.370, R.371, D.373, R.375, V.376, E.402, I.403, S.404, N.407, G.420, D.421, V.422, V.492, Q.496, M.497, S.514, G.515, G.516 Ligands: CIE.17 31 PLIP interactions: 28 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:L.330, C:V.492, B:F.196, B:F.196 Hydrogen bonds: C:R.236, C:A.303, C:G.304, C:N.307, C:T.329, C:L.330, C:Q.331, C:L.347, C:H.350, C:G.351, C:R.371, C:I.403, C:N.407, C:D.421, C:D.421, C:V.422, C:G.515 Water bridges: C:R.236, C:R.236, C:G.369, C:R.371, C:R.371, C:F.372, C:T.423 Salt bridges: C:R.236, C:R.371 pi-Stacking: B:F.196 FAD.25: 37 residues within 4Å: Chain A: F.196 Chain D: M.174, D.175, R.236, G.302, A.303, G.304, N.307, T.329, L.330, Q.331, M.346, L.347, G.348, M.349, H.350, G.351, G.369, A.370, R.371, D.373, R.375, V.376, E.402, I.403, S.404, N.407, G.420, D.421, V.422, V.492, Q.496, M.497, S.514, G.515, G.516 Ligands: CIE.24 31 PLIP interactions: 28 interactions with chain D, 3 interactions with chain A Hydrophobic interactions: D:L.330, D:V.492, A:F.196, A:F.196 Hydrogen bonds: D:R.236, D:A.303, D:G.304, D:N.307, D:T.329, D:L.330, D:Q.331, D:L.347, D:H.350, D:G.351, D:R.371, D:I.403, D:N.407, D:D.421, D:D.421, D:V.422, D:G.515 Water bridges: D:R.236, D:R.236, D:G.369, D:R.371, D:R.371, D:F.372, D:T.423 Salt bridges: D:R.236, D:R.371 pi-Stacking: A:F.196

4 x TP9: (3Z)-4-{[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]AMINO}-3-MERCAPTOPENT-3-EN-1-YL TRIHYDROGEN DIPHOSPHATE(Non-covalent)

TP9.5: 28 residues within 4Å: Chain A: V.492, G.493, Q.494, H.495, G.518, M.520, G.544, D.545, A.546, S.547, M.550, N.572, E.574, Q.575, G.576, M.577, V.578 Chain D: Y.108, A.109, G.110, E.134, T.157, P.160, N.164, Q.197 Ligands: MG.2, G8G.6, FMT.7 19 PLIP interactions: 16 interactions with chain A, 3 interactions with chain D Hydrophobic interactions: A:M.520, A:Q.575, A:V.578, D:Y.108, D:P.160 Hydrogen bonds: A:Q.494, A:H.495, A:G.518, A:M.520, A:A.546, A:S.547, A:N.572, A:G.576, A:M.577, D:Q.197 Water bridges: A:D.545, A:D.545 Salt bridges: A:H.495, A:H.495 TP9.12: 28 residues within 4Å: Chain B: V.492, G.493, Q.494, H.495, G.518, M.520, G.544, D.545, A.546, S.547, M.550, N.572, E.574, Q.575, G.576, M.577, V.578 Chain C: Y.108, A.109, G.110, E.134, T.157, P.160, N.164, Q.197 Ligands: MG.9, G8G.13, FMT.14 19 PLIP interactions: 16 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:M.520, B:Q.575, B:V.578, C:Y.108, C:P.160 Hydrogen bonds: B:Q.494, B:H.495, B:G.518, B:M.520, B:A.546, B:S.547, B:N.572, B:G.576, B:M.577, C:Q.197 Water bridges: B:D.545, B:D.545 Salt bridges: B:H.495, B:H.495 TP9.19: 28 residues within 4Å: Chain B: Y.108, A.109, G.110, E.134, T.157, P.160, N.164, Q.197 Chain C: V.492, G.493, Q.494, H.495, G.518, M.520, G.544, D.545, A.546, S.547, M.550, N.572, E.574, Q.575, G.576, M.577, V.578 Ligands: MG.16, G8G.20, FMT.21 19 PLIP interactions: 16 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:M.520, C:Q.575, C:V.578, B:Y.108, B:P.160 Hydrogen bonds: C:Q.494, C:H.495, C:G.518, C:M.520, C:A.546, C:S.547, C:N.572, C:G.576, C:M.577, B:Q.197 Water bridges: C:D.545, C:D.545 Salt bridges: C:H.495, C:H.495 TP9.26: 28 residues within 4Å: Chain A: Y.108, A.109, G.110, E.134, T.157, P.160, N.164, Q.197 Chain D: V.492, G.493, Q.494, H.495, G.518, M.520, G.544, D.545, A.546, S.547, M.550, N.572, E.574, Q.575, G.576, M.577, V.578 Ligands: MG.23, G8G.27, FMT.28 19 PLIP interactions: 3 interactions with chain A, 16 interactions with chain D Hydrophobic interactions: A:Y.108, A:P.160, D:M.520, D:Q.575, D:V.578 Hydrogen bonds: A:Q.197, D:Q.494, D:H.495, D:G.518, D:M.520, D:A.546, D:S.547, D:N.572, D:G.576, D:M.577 Water bridges: D:D.545, D:D.545 Salt bridges: D:H.495, D:H.495

4 x G8G: (3Z)-4-{[(4-amino-2-methylpyrimidin-5-yl)methyl](formyl)amino}-3-sulfanylpent-3-en-1-yl trihydrogen diphosphate(Non-covalent)

G8G.6: 28 residues within 4Å: Chain A: V.492, G.493, Q.494, H.495, G.518, M.520, G.544, D.545, A.546, S.547, M.550, N.572, E.574, Q.575, G.576, M.577, V.578 Chain D: Y.108, A.109, G.110, E.134, T.157, P.160, N.164, Q.197 Ligands: MG.2, TP9.5, FMT.7 19 PLIP interactions: 16 interactions with chain A, 3 interactions with chain D Hydrophobic interactions: A:M.520, A:Q.575, A:V.578, D:Y.108, D:P.160 Hydrogen bonds: A:Q.494, A:H.495, A:G.518, A:M.520, A:D.545, A:A.546, A:S.547, A:N.572, A:G.576, A:M.577, D:Q.197 Water bridges: A:L.570 Salt bridges: A:H.495, A:H.495 G8G.13: 28 residues within 4Å: Chain B: V.492, G.493, Q.494, H.495, G.518, M.520, G.544, D.545, A.546, S.547, M.550, N.572, E.574, Q.575, G.576, M.577, V.578 Chain C: Y.108, A.109, G.110, E.134, T.157, P.160, N.164, Q.197 Ligands: MG.9, TP9.12, FMT.14 19 PLIP interactions: 16 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:M.520, B:Q.575, B:V.578, C:Y.108, C:P.160 Hydrogen bonds: B:Q.494, B:H.495, B:G.518, B:M.520, B:D.545, B:A.546, B:S.547, B:N.572, B:G.576, B:M.577, C:Q.197 Water bridges: B:L.570 Salt bridges: B:H.495, B:H.495 G8G.20: 28 residues within 4Å: Chain B: Y.108, A.109, G.110, E.134, T.157, P.160, N.164, Q.197 Chain C: V.492, G.493, Q.494, H.495, G.518, M.520, G.544, D.545, A.546, S.547, M.550, N.572, E.574, Q.575, G.576, M.577, V.578 Ligands: MG.16, TP9.19, FMT.21 19 PLIP interactions: 16 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:M.520, C:Q.575, C:V.578, B:Y.108, B:P.160 Hydrogen bonds: C:Q.494, C:H.495, C:G.518, C:M.520, C:D.545, C:A.546, C:S.547, C:N.572, C:G.576, C:M.577, B:Q.197 Water bridges: C:L.570 Salt bridges: C:H.495, C:H.495 G8G.27: 28 residues within 4Å: Chain A: Y.108, A.109, G.110, E.134, T.157, P.160, N.164, Q.197 Chain D: V.492, G.493, Q.494, H.495, G.518, M.520, G.544, D.545, A.546, S.547, M.550, N.572, E.574, Q.575, G.576, M.577, V.578 Ligands: MG.23, TP9.26, FMT.28 19 PLIP interactions: 3 interactions with chain A, 16 interactions with chain D Hydrophobic interactions: A:Y.108, A:P.160, D:M.520, D:Q.575, D:V.578 Hydrogen bonds: A:Q.197, D:Q.494, D:H.495, D:G.518, D:M.520, D:D.545, D:A.546, D:S.547, D:N.572, D:G.576, D:M.577 Water bridges: D:L.570 Salt bridges: D:H.495, D:H.495

4 x FMT: FORMIC ACID(Non-functional Binders)

FMT.7: 6 residues within 4Å: Chain D: G.110, G.111, Q.197 Ligands: CIE.3, TP9.5, G8G.6 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:G.111 Water bridges: D:A.112 FMT.14: 6 residues within 4Å: Chain C: G.110, G.111, Q.197 Ligands: CIE.10, TP9.12, G8G.13 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:G.111 Water bridges: C:A.112 FMT.21: 6 residues within 4Å: Chain B: G.110, G.111, Q.197 Ligands: CIE.17, TP9.19, G8G.20 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.111 Water bridges: B:A.112 FMT.28: 6 residues within 4Å: Chain A: G.110, G.111, Q.197 Ligands: CIE.24, TP9.26, G8G.27 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.111 Water bridges: A:A.112

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garcia, M.D. et al., Commercial AHAS-inhibiting herbicides are promising drug leads for the treatment of human fungal pathogenic infections. Proc. Natl. Acad. Sci. U.S.A. (2018)

Release Date

2018-09-26

Peptides

Acetolactate synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Acetolactate synthase

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