SMTL ID : 5iv0.1

Crystal structure of Eis from Mycobacterium tuberculosis in complex with sulfonamide inhibitor 39 and coenzyme A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-hexamer

Ligands

6 x COA: COENZYME A(Non-covalent)

COA.1: 18 residues within 4Å: Chain A: S.109, F.110, V.111, V.113, R.118, R.119, R.120, G.121, L.122, L.123, R.124, H.145, E.148, I.151, Y.152, F.155 Chain C: D.286 Ligands: 6E9.2 17 PLIP interactions: 16 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:V.111, A:L.123, A:I.151, C:D.286 Hydrogen bonds: A:V.113, A:R.118, A:R.119, A:R.120, A:G.121, A:L.122, A:L.123, A:R.124, A:S.147, A:S.147 Water bridges: A:H.117, A:R.118 Salt bridges: A:R.119 COA.6: 18 residues within 4Å: Chain A: D.286 Chain B: S.109, F.110, V.111, V.113, R.118, R.119, R.120, G.121, L.122, L.123, R.124, H.145, E.148, I.151, Y.152, F.155 Ligands: 6E9.7 17 PLIP interactions: 16 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.111, B:L.123, B:I.151, A:D.286 Hydrogen bonds: B:V.113, B:R.118, B:R.119, B:R.120, B:G.121, B:L.122, B:L.123, B:R.124, B:S.147, B:S.147 Water bridges: B:H.117, B:R.118 Salt bridges: B:R.119 COA.11: 18 residues within 4Å: Chain B: D.286 Chain C: S.109, F.110, V.111, V.113, R.118, R.119, R.120, G.121, L.122, L.123, R.124, H.145, E.148, I.151, Y.152, F.155 Ligands: 6E9.12 17 PLIP interactions: 16 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:V.111, C:L.123, C:I.151, B:D.286 Hydrogen bonds: C:V.113, C:R.118, C:R.119, C:R.120, C:G.121, C:L.122, C:L.123, C:R.124, C:S.147, C:S.147 Water bridges: C:H.117, C:R.118 Salt bridges: C:R.119 COA.16: 18 residues within 4Å: Chain D: S.109, F.110, V.111, V.113, R.118, R.119, R.120, G.121, L.122, L.123, R.124, H.145, E.148, I.151, Y.152, F.155 Chain F: D.286 Ligands: 6E9.17 18 PLIP interactions: 17 interactions with chain D, 1 interactions with chain F Hydrophobic interactions: D:V.111, D:L.123, D:I.151, F:D.286 Hydrogen bonds: D:V.113, D:R.118, D:R.119, D:R.120, D:G.121, D:L.122, D:L.123, D:R.124, D:S.147, D:S.147, D:Y.152 Water bridges: D:H.117, D:R.118 Salt bridges: D:R.119 COA.21: 18 residues within 4Å: Chain D: D.286 Chain E: S.109, F.110, V.111, V.113, R.118, R.119, R.120, G.121, L.122, L.123, R.124, H.145, E.148, I.151, Y.152, F.155 Ligands: 6E9.22 18 PLIP interactions: 17 interactions with chain E, 1 interactions with chain D Hydrophobic interactions: E:V.111, E:L.123, E:I.151, D:D.286 Hydrogen bonds: E:V.113, E:R.118, E:R.119, E:R.120, E:G.121, E:L.122, E:L.123, E:R.124, E:S.147, E:S.147, E:Y.152 Water bridges: E:H.117, E:R.118 Salt bridges: E:R.119 COA.26: 18 residues within 4Å: Chain E: D.286 Chain F: S.109, F.110, V.111, V.113, R.118, R.119, R.120, G.121, L.122, L.123, R.124, H.145, E.148, I.151, Y.152, F.155 Ligands: 6E9.27 18 PLIP interactions: 17 interactions with chain F, 1 interactions with chain E Hydrophobic interactions: F:V.111, F:L.123, F:I.151, E:D.286 Hydrogen bonds: F:V.113, F:R.118, F:R.119, F:R.120, F:G.121, F:L.122, F:L.123, F:R.124, F:S.147, F:S.147, F:Y.152 Water bridges: F:H.117, F:R.118 Salt bridges: F:R.119

6 x 6E9: N-(3-methoxyphenyl)-N-methyl-2,3-dioxo-1,2,3,4-tetrahydroquinoxaline-6-sulfonamide(Non-covalent)

6E9.2: 13 residues within 4Å: Chain A: F.50, D.52, F.53, I.54, A.59, W.62, R.63, M.91, S.109, F.110, S.147, F.428 Ligands: COA.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.50, A:I.54, A:W.62 Hydrogen bonds: A:D.52, A:I.54 pi-Stacking: A:F.50, A:F.50 6E9.7: 13 residues within 4Å: Chain B: F.50, D.52, F.53, I.54, A.59, W.62, R.63, M.91, S.109, F.110, S.147, F.428 Ligands: COA.6 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:F.50, B:I.54, B:W.62 Hydrogen bonds: B:D.52, B:I.54 pi-Stacking: B:F.50, B:F.50 6E9.12: 13 residues within 4Å: Chain C: F.50, D.52, F.53, I.54, A.59, W.62, R.63, M.91, S.109, F.110, S.147, F.428 Ligands: COA.11 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:F.50, C:I.54, C:W.62 Hydrogen bonds: C:D.52, C:I.54 pi-Stacking: C:F.50, C:F.50 6E9.17: 13 residues within 4Å: Chain D: F.50, D.52, F.53, I.54, A.59, W.62, R.63, M.91, S.109, F.110, S.147, F.428 Ligands: COA.16 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:F.50, D:I.54, D:W.62 Hydrogen bonds: D:D.52, D:I.54 pi-Stacking: D:F.50, D:F.50 6E9.22: 13 residues within 4Å: Chain E: F.50, D.52, F.53, I.54, A.59, W.62, R.63, M.91, S.109, F.110, S.147, F.428 Ligands: COA.21 7 PLIP interactions: 7 interactions with chain E Hydrophobic interactions: E:F.50, E:I.54, E:W.62 Hydrogen bonds: E:D.52, E:I.54 pi-Stacking: E:F.50, E:F.50 6E9.27: 13 residues within 4Å: Chain F: F.50, D.52, F.53, I.54, A.59, W.62, R.63, M.91, S.109, F.110, S.147, F.428 Ligands: COA.26 7 PLIP interactions: 7 interactions with chain F Hydrophobic interactions: F:F.50, F:I.54, F:W.62 Hydrogen bonds: F:D.52, F:I.54 pi-Stacking: F:F.50, F:F.50

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

CL.3: 8 residues within 4Å: Chain A: R.94, L.95, T.96, V.102, R.209, G.215, L.216, L.217 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain A: T.295, H.296, Q.423, T.424 Ligand excluded by PLIP CL.5: 1 residues within 4Å: Chain A: D.419 Ligand excluded by PLIP CL.8: 8 residues within 4Å: Chain B: R.94, L.95, T.96, V.102, R.209, G.215, L.216, L.217 Ligand excluded by PLIP CL.9: 4 residues within 4Å: Chain B: T.295, H.296, Q.423, T.424 Ligand excluded by PLIP CL.10: 1 residues within 4Å: Chain B: D.419 Ligand excluded by PLIP CL.13: 8 residues within 4Å: Chain C: R.94, L.95, T.96, V.102, R.209, G.215, L.216, L.217 Ligand excluded by PLIP CL.14: 4 residues within 4Å: Chain C: T.295, H.296, Q.423, T.424 Ligand excluded by PLIP CL.15: 1 residues within 4Å: Chain C: D.419 Ligand excluded by PLIP CL.18: 8 residues within 4Å: Chain D: R.94, L.95, T.96, V.102, R.209, G.215, L.216, L.217 Ligand excluded by PLIP CL.19: 4 residues within 4Å: Chain D: T.295, H.296, Q.423, T.424 Ligand excluded by PLIP CL.20: 1 residues within 4Å: Chain D: D.419 Ligand excluded by PLIP CL.23: 8 residues within 4Å: Chain E: R.94, L.95, T.96, V.102, R.209, G.215, L.216, L.217 Ligand excluded by PLIP CL.24: 4 residues within 4Å: Chain E: T.295, H.296, Q.423, T.424 Ligand excluded by PLIP CL.25: 1 residues within 4Å: Chain E: D.419 Ligand excluded by PLIP CL.28: 8 residues within 4Å: Chain F: R.94, L.95, T.96, V.102, R.209, G.215, L.216, L.217 Ligand excluded by PLIP CL.29: 4 residues within 4Å: Chain F: T.295, H.296, Q.423, T.424 Ligand excluded by PLIP CL.30: 1 residues within 4Å: Chain F: D.419 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garzan, A. et al., Sulfonamide-Based Inhibitors of Aminoglycoside Acetyltransferase Eis Abolish Resistance to Kanamycin in Mycobacterium tuberculosis. J. Med. Chem. (2016)

Release Date

2017-01-11

Peptides

Enhanced intracellular survival protein: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Enhanced intracellular survival protein

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