SMTL ID : 6x6i.1

Crystal structure of acetyltransferase Eis from Mycobacterium tuberculosis in complex with inhibitor SGT543

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-hexamer

Ligands

6 x USG: 4-(4-benzyl-4-hydroxypiperidin-1-yl)-1-(4-fluorophenyl)butan-1-one(Non-covalent)

USG.1: 14 residues within 4Å: Chain A: W.33, D.46, I.48, A.53, W.56, R.57, V.60, L.83, M.85, S.103, F.104, E.421, F.422 Ligands: GOL.7 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.56, A:W.56, A:L.83, A:F.104, A:E.421 Salt bridges: A:D.46 USG.9: 14 residues within 4Å: Chain B: W.33, D.46, I.48, A.53, W.56, R.57, V.60, L.83, M.85, S.103, F.104, E.421, F.422 Ligands: GOL.15 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:W.56, B:W.56, B:L.83, B:F.104, B:E.421 Salt bridges: B:D.46 USG.17: 14 residues within 4Å: Chain C: W.33, D.46, I.48, A.53, W.56, R.57, V.60, L.83, M.85, S.103, F.104, E.421, F.422 Ligands: GOL.23 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:W.56, C:W.56, C:L.83, C:F.104, C:E.421 Salt bridges: C:D.46 USG.25: 14 residues within 4Å: Chain D: W.33, D.46, I.48, A.53, W.56, R.57, V.60, L.83, M.85, S.103, F.104, E.421, F.422 Ligands: GOL.31 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:W.56, D:W.56, D:L.83, D:F.104, D:E.421 Salt bridges: D:D.46 USG.33: 14 residues within 4Å: Chain E: W.33, D.46, I.48, A.53, W.56, R.57, V.60, L.83, M.85, S.103, F.104, E.421, F.422 Ligands: GOL.39 6 PLIP interactions: 6 interactions with chain E Hydrophobic interactions: E:W.56, E:W.56, E:L.83, E:F.104, E:E.421 Salt bridges: E:D.46 USG.41: 14 residues within 4Å: Chain F: W.33, D.46, I.48, A.53, W.56, R.57, V.60, L.83, M.85, S.103, F.104, E.421, F.422 Ligands: GOL.47 6 PLIP interactions: 6 interactions with chain F Hydrophobic interactions: F:W.56, F:W.56, F:L.83, F:F.104, F:E.421 Salt bridges: F:D.46

30 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: I.288, T.418, A.419, F.420, E.421 Ligand excluded by PLIP GOL.4: 6 residues within 4Å: Chain A: W.33, R.57, V.60, P.61, T.62, A.65 Ligand excluded by PLIP GOL.5: 8 residues within 4Å: Chain A: P.92, G.93, R.328, G.329, Y.330, A.331, A.411, D.413 Ligand excluded by PLIP GOL.6: 8 residues within 4Å: Chain A: F.44, S.103, F.104, V.105, H.139, S.141, Y.146 Ligands: GOL.7 Ligand excluded by PLIP GOL.7: 7 residues within 4Å: Chain A: F.44, D.46, F.47, S.103, F.104 Ligands: USG.1, GOL.6 Ligand excluded by PLIP GOL.10: 5 residues within 4Å: Chain B: I.288, T.418, A.419, F.420, E.421 Ligand excluded by PLIP GOL.12: 6 residues within 4Å: Chain B: W.33, R.57, V.60, P.61, T.62, A.65 Ligand excluded by PLIP GOL.13: 8 residues within 4Å: Chain B: P.92, G.93, R.328, G.329, Y.330, A.331, A.411, D.413 Ligand excluded by PLIP GOL.14: 8 residues within 4Å: Chain B: F.44, S.103, F.104, V.105, H.139, S.141, Y.146 Ligands: GOL.15 Ligand excluded by PLIP GOL.15: 7 residues within 4Å: Chain B: F.44, D.46, F.47, S.103, F.104 Ligands: USG.9, GOL.14 Ligand excluded by PLIP GOL.18: 5 residues within 4Å: Chain C: I.288, T.418, A.419, F.420, E.421 Ligand excluded by PLIP GOL.20: 6 residues within 4Å: Chain C: W.33, R.57, V.60, P.61, T.62, A.65 Ligand excluded by PLIP GOL.21: 8 residues within 4Å: Chain C: P.92, G.93, R.328, G.329, Y.330, A.331, A.411, D.413 Ligand excluded by PLIP GOL.22: 8 residues within 4Å: Chain C: F.44, S.103, F.104, V.105, H.139, S.141, Y.146 Ligands: GOL.23 Ligand excluded by PLIP GOL.23: 7 residues within 4Å: Chain C: F.44, D.46, F.47, S.103, F.104 Ligands: USG.17, GOL.22 Ligand excluded by PLIP GOL.26: 5 residues within 4Å: Chain D: I.288, T.418, A.419, F.420, E.421 Ligand excluded by PLIP GOL.28: 6 residues within 4Å: Chain D: W.33, R.57, V.60, P.61, T.62, A.65 Ligand excluded by PLIP GOL.29: 8 residues within 4Å: Chain D: P.92, G.93, R.328, G.329, Y.330, A.331, A.411, D.413 Ligand excluded by PLIP GOL.30: 8 residues within 4Å: Chain D: F.44, S.103, F.104, V.105, H.139, S.141, Y.146 Ligands: GOL.31 Ligand excluded by PLIP GOL.31: 7 residues within 4Å: Chain D: F.44, D.46, F.47, S.103, F.104 Ligands: USG.25, GOL.30 Ligand excluded by PLIP GOL.34: 5 residues within 4Å: Chain E: I.288, T.418, A.419, F.420, E.421 Ligand excluded by PLIP GOL.36: 6 residues within 4Å: Chain E: W.33, R.57, V.60, P.61, T.62, A.65 Ligand excluded by PLIP GOL.37: 8 residues within 4Å: Chain E: P.92, G.93, R.328, G.329, Y.330, A.331, A.411, D.413 Ligand excluded by PLIP GOL.38: 8 residues within 4Å: Chain E: F.44, S.103, F.104, V.105, H.139, S.141, Y.146 Ligands: GOL.39 Ligand excluded by PLIP GOL.39: 7 residues within 4Å: Chain E: F.44, D.46, F.47, S.103, F.104 Ligands: USG.33, GOL.38 Ligand excluded by PLIP GOL.42: 5 residues within 4Å: Chain F: I.288, T.418, A.419, F.420, E.421 Ligand excluded by PLIP GOL.44: 6 residues within 4Å: Chain F: W.33, R.57, V.60, P.61, T.62, A.65 Ligand excluded by PLIP GOL.45: 8 residues within 4Å: Chain F: P.92, G.93, R.328, G.329, Y.330, A.331, A.411, D.413 Ligand excluded by PLIP GOL.46: 8 residues within 4Å: Chain F: F.44, S.103, F.104, V.105, H.139, S.141, Y.146 Ligands: GOL.47 Ligand excluded by PLIP GOL.47: 7 residues within 4Å: Chain F: F.44, D.46, F.47, S.103, F.104 Ligands: USG.41, GOL.46 Ligand excluded by PLIP

6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 7 residues within 4Å: Chain A: L.261, H.269, T.289, H.290, D.293, P.294, Q.417 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.289 PEG.11: 7 residues within 4Å: Chain B: L.261, H.269, T.289, H.290, D.293, P.294, Q.417 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.289 PEG.19: 7 residues within 4Å: Chain C: L.261, H.269, T.289, H.290, D.293, P.294, Q.417 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:T.289 PEG.27: 7 residues within 4Å: Chain D: L.261, H.269, T.289, H.290, D.293, P.294, Q.417 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:D.293 PEG.35: 7 residues within 4Å: Chain E: L.261, H.269, T.289, H.290, D.293, P.294, Q.417 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:D.293 PEG.43: 7 residues within 4Å: Chain F: L.261, H.269, T.289, H.290, D.293, P.294, Q.417 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:D.293

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

CL.8: 4 residues within 4Å: Chain A: T.289, H.290, Q.417, T.418 Ligand excluded by PLIP CL.16: 4 residues within 4Å: Chain B: T.289, H.290, Q.417, T.418 Ligand excluded by PLIP CL.24: 4 residues within 4Å: Chain C: T.289, H.290, Q.417, T.418 Ligand excluded by PLIP CL.32: 4 residues within 4Å: Chain D: T.289, H.290, Q.417, T.418 Ligand excluded by PLIP CL.40: 4 residues within 4Å: Chain E: T.289, H.290, Q.417, T.418 Ligand excluded by PLIP CL.48: 4 residues within 4Å: Chain F: T.289, H.290, Q.417, T.418 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Punetha, A. et al., Structure-based design of haloperidol analogues as inhibitors of acetyltransferase Eis from Mycobacterium tuberculosis to overcome kanamycin resistance. Rsc Med Chem (2021)

Release Date

2021-06-02

Peptides

N-acetyltransferase Eis: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
AAA

C
AAA

D
AAA

E
AAA

F
AAA

N-acetyltransferase Eis

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