SMTL ID : 1t9a.1 (1 other biounit)

Crystal structure of yeast acetohydroxyacid synthase in complex with a sulfonylurea herbicide, tribenuron methyl

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.59 Å

Oligo State

homo-dimer

Ligands

2 x K: POTASSIUM ION(Non-covalent)

K.1: 5 residues within 4Å: Chain A: Q.333, D.340, A.495, Q.496, W.498 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.340, A:Q.496, A:W.498, H2O.21 K.7: 5 residues within 4Å: Chain B: Q.333, D.340, A.495, Q.496, W.498 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.340, B:Q.496, B:W.498, H2O.24

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: D.540, N.567, E.569, G.571 Ligands: P23.6 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.540, A:E.569, H2O.6 MG.8: 4 residues within 4Å: Chain B: D.540, N.567, E.569 Ligands: P23.9 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.540, B:E.569, H2O.22

2 x 1TB: METHYL 2-[4-METHOXY-6-METHYL-1,3,5-TRAZIN-2-YL(METHYL)CARBAMOYLSULFAMOYL]BENZOATE(Non-covalent)

1TB.3: 15 residues within 4Å: Chain A: M.344, D.369, R.370, M.572, V.573, W.576 Chain B: G.106, A.107, V.181, P.182, A.190, F.191, Q.192, K.241 Ligands: FAD.5 12 PLIP interactions: 4 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:V.181, B:A.190, A:V.573, A:W.576 Hydrogen bonds: B:K.241, B:K.241, A:R.370, A:R.370 Water bridges: A:G.647 pi-Stacking: A:W.576, A:W.576 pi-Cation interactions: A:R.370 1TB.10: 16 residues within 4Å: Chain A: G.106, A.107, S.153, V.181, P.182, A.190, F.191, Q.192, K.241 Chain B: M.344, D.369, R.370, M.572, V.573, W.576 Ligands: FAD.12 13 PLIP interactions: 7 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:V.573, A:V.181, A:A.190 Hydrogen bonds: B:R.370, B:R.370, A:K.241, A:K.241 Water bridges: B:G.647, A:G.106 pi-Stacking: B:W.576, B:W.576 pi-Cation interactions: B:R.370 Salt bridges: A:K.241

1 x YF3: 2-{[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]AMINO}PROPANE-1-THIOL(Non-covalent)

YF3.4: 16 residues within 4Å: Chain A: Y.103, P.104, G.105, E.129, T.152, P.155, N.159, Q.192 Chain B: V.487, G.513, T.514, M.515, M.545, Q.570, V.573 Ligands: P23.9 8 PLIP interactions: 4 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:P.155, B:V.487, B:T.514 Hydrogen bonds: A:Q.192, B:G.513, B:M.515 Water bridges: A:G.106, A:Q.192

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

FAD.5: 38 residues within 4Å: Chain A: D.170, R.231, G.297, A.298, G.299, N.302, T.324, L.325, Q.326, M.341, L.342, G.343, M.344, H.345, G.346, G.364, A.365, R.366, D.368, R.370, V.371, F.396, E.397, V.398, N.402, G.415, D.416, A.417, V.487, Q.491, M.492, S.509, G.510, G.511, G.513, M.572 Chain B: F.191 Ligands: 1TB.3 31 PLIP interactions: 30 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.487, B:F.191 Hydrogen bonds: A:A.169, A:R.231, A:A.298, A:G.299, A:T.324, A:T.324, A:L.325, A:L.342, A:H.345, A:A.365, A:R.366, A:V.398, A:N.402, A:D.416, A:A.417, A:G.510 Water bridges: A:D.170, A:D.170, A:D.170, A:R.231, A:R.231, A:G.364, A:R.366, A:D.368, A:D.368, A:R.370, A:T.418 Salt bridges: A:R.231, A:R.366 FAD.12: 37 residues within 4Å: Chain A: F.191 Chain B: D.170, R.231, G.297, A.298, G.299, N.302, T.324, L.325, Q.326, M.341, L.342, G.343, M.344, H.345, G.346, G.364, A.365, R.366, D.368, R.370, V.371, F.396, E.397, V.398, N.402, G.415, D.416, A.417, V.487, Q.491, M.492, S.509, G.510, G.511, G.513 Ligands: 1TB.10 30 PLIP interactions: 29 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.487, A:F.191 Hydrogen bonds: B:R.231, B:A.298, B:G.299, B:T.324, B:T.324, B:L.325, B:L.342, B:H.345, B:A.365, B:R.366, B:V.398, B:N.402, B:D.416, B:D.416, B:A.417, B:G.510 Water bridges: B:R.231, B:R.231, B:Q.326, B:G.364, B:R.366, B:R.366, B:F.367, B:D.368, B:D.368, B:T.418 Salt bridges: B:R.231, B:R.366

2 x P23: PROPYL TRIHYDROGEN DIPHOSPHATE(Non-covalent)

P23.6: 16 residues within 4Å: Chain A: V.487, G.488, Q.489, H.490, M.515, G.539, D.540, A.541, S.542, N.567, E.569, Q.570, G.571, M.572 Ligands: MG.2, YF4.11 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:M.572 Hydrogen bonds: A:Q.489, A:H.490, A:A.541, A:S.542, A:N.567, A:G.571, A:M.572 Water bridges: A:D.540, A:D.540 Salt bridges: A:H.490, A:H.490 P23.9: 16 residues within 4Å: Chain B: V.487, G.488, Q.489, H.490, M.515, G.539, D.540, A.541, S.542, N.567, E.569, Q.570, G.571, M.572 Ligands: YF3.4, MG.8 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:M.572 Hydrogen bonds: B:Q.489, B:H.490, B:A.541, B:S.542, B:G.571, B:M.572 Water bridges: B:D.540, B:D.540 Salt bridges: B:H.490, B:H.490

1 x YF4: 5-{[ETHYL(METHYL)AMINO]METHYL}-2-METHYL-5,6-DIHYDROPYRIMIDIN-4-AMINE(Non-covalent)

YF4.11: 14 residues within 4Å: Chain A: V.487, G.513, M.515, M.545, V.573 Chain B: Y.103, P.104, G.105, E.129, T.152, P.155, N.159, Q.192 Ligands: P23.6 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:T.152, B:P.155, A:V.487 Water bridges: B:Q.192 Hydrogen bonds: A:G.513, A:M.515

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McCourt, J.A. et al., Elucidating the specificity of binding of sulfonylurea herbicides to acetohydroxyacid synthase. Biochemistry (2005)

Release Date

2004-12-21

Peptides

Acetolactate synthase, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Acetolactate synthase, mitochondrial

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