SMTL ID : 3ulk.2 (1 other biounit)

E. coli Ketol-acid reductoisomerase in complex with NADPH and Mg2+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

4 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.1: 21 residues within 4Å: Chain A: G.44, C.45, G.46, A.47, Q.48, R.68, A.71, R.76, S.78, Y.92, L.105, T.106, P.107, D.108, Q.110, H.111, V.114, S.131, H.132, P.154, P.157 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:Q.48 Hydrogen bonds: A:C.45, A:A.47, A:Q.48, A:R.68, A:S.78, A:S.78, A:Y.92, A:D.108, A:Q.110, A:H.111 Water bridges: A:G.46, A:G.46, A:Q.48, A:S.78, A:S.78, A:H.132, A:G.158 Salt bridges: A:R.68, A:R.76 pi-Cation interactions: A:R.68 NDP.8: 21 residues within 4Å: Chain B: G.44, C.45, G.46, A.47, Q.48, R.68, A.71, R.76, S.78, Y.92, L.105, T.106, P.107, D.108, Q.110, H.111, V.114, S.131, H.132, P.154, P.157 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:Q.48 Hydrogen bonds: B:C.45, B:A.47, B:Q.48, B:R.68, B:S.78, B:S.78, B:Y.92, B:D.108, B:Q.110, B:H.111 Water bridges: B:G.46, B:G.46, B:Q.48, B:S.78, B:S.78, B:H.132, B:G.158 Salt bridges: B:R.68, B:R.76 pi-Cation interactions: B:R.68 NDP.15: 22 residues within 4Å: Chain C: G.44, C.45, G.46, A.47, Q.48, R.68, A.71, R.76, S.78, Y.92, L.105, T.106, P.107, D.108, Q.110, H.111, V.114, S.131, H.132, P.154, C.156, P.157 20 PLIP interactions: 20 interactions with chain C Hydrophobic interactions: C:Q.48 Hydrogen bonds: C:C.45, C:A.47, C:Q.48, C:R.68, C:S.78, C:S.78, C:Y.92, C:D.108, C:Q.110, C:H.111 Water bridges: C:G.46, C:Q.48, C:G.49, C:S.78, C:H.132, C:G.158 Salt bridges: C:R.68, C:R.76 pi-Cation interactions: C:R.68 NDP.23: 22 residues within 4Å: Chain D: G.44, C.45, G.46, A.47, Q.48, R.68, A.71, R.76, S.78, Y.92, L.105, T.106, P.107, D.108, Q.110, H.111, V.114, S.131, H.132, P.154, C.156, P.157 20 PLIP interactions: 20 interactions with chain D Hydrophobic interactions: D:Q.48 Hydrogen bonds: D:C.45, D:A.47, D:Q.48, D:R.68, D:S.78, D:S.78, D:Y.92, D:D.108, D:Q.110, D:H.111 Water bridges: D:G.46, D:Q.48, D:G.49, D:S.78, D:H.132, D:G.158 Salt bridges: D:R.68, D:R.76 pi-Cation interactions: D:R.68

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

SO4.2: 3 residues within 4Å: Chain A: A.2, N.3, N.6 Ligand excluded by PLIP SO4.3: 2 residues within 4Å: Chain A: R.11, Q.12 Ligand excluded by PLIP SO4.4: 3 residues within 4Å: Chain A: N.85, R.162, K.166 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: H.201, R.202 Ligand excluded by PLIP SO4.9: 3 residues within 4Å: Chain B: A.2, N.3, N.6 Ligand excluded by PLIP SO4.10: 2 residues within 4Å: Chain B: R.11, Q.12 Ligand excluded by PLIP SO4.11: 3 residues within 4Å: Chain B: N.85, R.162, K.166 Ligand excluded by PLIP SO4.12: 2 residues within 4Å: Chain B: H.201, R.202 Ligand excluded by PLIP SO4.16: 3 residues within 4Å: Chain C: A.2, N.3, N.6 Ligand excluded by PLIP SO4.17: 2 residues within 4Å: Chain C: R.11, Q.12 Ligand excluded by PLIP SO4.18: 3 residues within 4Å: Chain C: L.54, R.162, K.166 Ligand excluded by PLIP SO4.19: 2 residues within 4Å: Chain C: H.201, R.202 Ligand excluded by PLIP SO4.20: 7 residues within 4Å: Chain C: R.284, L.288, Q.291, F.435, E.438, L.439, Q.440 Ligand excluded by PLIP SO4.24: 3 residues within 4Å: Chain D: A.2, N.3, N.6 Ligand excluded by PLIP SO4.25: 2 residues within 4Å: Chain D: R.11, Q.12 Ligand excluded by PLIP SO4.26: 3 residues within 4Å: Chain D: L.54, R.162, K.166 Ligand excluded by PLIP SO4.27: 2 residues within 4Å: Chain D: H.201, R.202 Ligand excluded by PLIP SO4.28: 7 residues within 4Å: Chain D: R.284, L.288, Q.291, F.435, E.438, L.439, Q.440 Ligand excluded by PLIP

8 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 4 residues within 4Å: Chain A: D.217, E.389, E.393 Ligands: MG.7 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.217, A:E.389, H2O.11, H2O.11, H2O.11 MG.7: 2 residues within 4Å: Chain A: D.217 Ligands: MG.6 No protein-ligand interaction detected (PLIP) MG.13: 4 residues within 4Å: Chain B: D.217, E.389, E.393 Ligands: MG.14 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.217, B:E.389, H2O.25, H2O.26, H2O.26 MG.14: 2 residues within 4Å: Chain B: D.217 Ligands: MG.13 No protein-ligand interaction detected (PLIP) MG.21: 4 residues within 4Å: Chain C: D.217, E.389, E.393 Ligands: MG.22 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:D.217, C:E.389, H2O.40, H2O.40, H2O.40 MG.22: 3 residues within 4Å: Chain C: D.217, E.221 Ligands: MG.21 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:D.217, H2O.40, H2O.40, H2O.40, H2O.41 MG.29: 4 residues within 4Å: Chain D: D.217, E.389, E.393 Ligands: MG.30 5 PLIP interactions: 2 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:D.217, D:E.389, H2O.55, H2O.55, H2O.55 MG.30: 3 residues within 4Å: Chain D: D.217, E.221 Ligands: MG.29 5 PLIP interactions: 1 interactions with chain D, 4 Ligand-Water interactions Metal complexes: D:D.217, H2O.55, H2O.55, H2O.55, H2O.55

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wong, S.H. et al., Bacterial and plant ketol-acid reductoisomerases have different mechanisms of induced fit during the catalytic cycle. J.Mol.Biol. (2012)

Release Date

2012-10-17

Peptides

Ketol-acid reductoisomerase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

C
A

D
A

Ketol-acid reductoisomerase

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