SMTL ID : 6vus.1

Crystal structure of Eis from Mycobacterium tuberculosis in complex with inhibitor SGT379

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

homo-hexamer

Ligands

12 x RNV: 2-[(4-amino-5,6,7,8-tetrahydro[1]benzothieno[2,3-d]pyrimidin-2-yl)sulfanyl]-N-[2-(diethylamino)ethyl]acetamide(Non-covalent)

RNV.1: 11 residues within 4Å: Chain A: F.44, D.46, A.53, W.56, V.60, L.83, M.85, S.103, F.104, E.421, F.422 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.44, A:W.56, A:V.60, A:L.83, A:L.83, A:F.104, A:F.104 Hydrogen bonds: A:S.103, A:F.422, A:F.422 Salt bridges: A:D.46 pi-Stacking: A:W.56, A:W.56 RNV.2: 13 residues within 4Å: Chain A: W.202, E.260, L.261, R.262, A.263, H.269, I.287, I.288, T.289, H.290, D.293, P.294, Q.417 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.261, A:T.289 Salt bridges: A:D.293 RNV.5: 11 residues within 4Å: Chain B: F.44, D.46, A.53, W.56, V.60, L.83, M.85, S.103, F.104, E.421, F.422 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:F.44, B:W.56, B:V.60, B:L.83, B:L.83, B:F.104, B:F.104 Hydrogen bonds: B:S.103, B:F.422, B:F.422 Salt bridges: B:D.46 pi-Stacking: B:W.56, B:W.56 RNV.6: 13 residues within 4Å: Chain B: W.202, E.260, L.261, R.262, A.263, H.269, I.287, I.288, T.289, H.290, D.293, P.294, Q.417 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.261, B:T.289 Salt bridges: B:D.293 RNV.9: 11 residues within 4Å: Chain C: F.44, D.46, A.53, W.56, V.60, L.83, M.85, S.103, F.104, E.421, F.422 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:F.44, C:W.56, C:V.60, C:L.83, C:L.83, C:F.104, C:F.104 Hydrogen bonds: C:S.103, C:F.422, C:F.422 Salt bridges: C:D.46 pi-Stacking: C:W.56, C:W.56 RNV.10: 13 residues within 4Å: Chain C: W.202, E.260, L.261, R.262, A.263, H.269, I.287, I.288, T.289, H.290, D.293, P.294, Q.417 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:L.261, C:T.289 Salt bridges: C:D.293 RNV.13: 11 residues within 4Å: Chain D: F.44, D.46, A.53, W.56, V.60, L.83, M.85, S.103, F.104, E.421, F.422 14 PLIP interactions: 14 interactions with chain D Hydrophobic interactions: D:F.44, D:W.56, D:V.60, D:L.83, D:L.83, D:F.104, D:F.104 Hydrogen bonds: D:S.103, D:F.422, D:F.422, D:F.422 Salt bridges: D:D.46 pi-Stacking: D:W.56, D:W.56 RNV.14: 13 residues within 4Å: Chain D: W.202, E.260, L.261, R.262, A.263, H.269, I.287, I.288, T.289, H.290, D.293, P.294, Q.417 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:L.261 Salt bridges: D:D.293 RNV.17: 11 residues within 4Å: Chain E: F.44, D.46, A.53, W.56, V.60, L.83, M.85, S.103, F.104, E.421, F.422 14 PLIP interactions: 14 interactions with chain E Hydrophobic interactions: E:F.44, E:W.56, E:V.60, E:L.83, E:L.83, E:F.104, E:F.104 Hydrogen bonds: E:S.103, E:F.422, E:F.422, E:F.422 Salt bridges: E:D.46 pi-Stacking: E:W.56, E:W.56 RNV.18: 13 residues within 4Å: Chain E: W.202, E.260, L.261, R.262, A.263, H.269, I.287, I.288, T.289, H.290, D.293, P.294, Q.417 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:L.261 Salt bridges: E:D.293 RNV.21: 11 residues within 4Å: Chain F: F.44, D.46, A.53, W.56, V.60, L.83, M.85, S.103, F.104, E.421, F.422 14 PLIP interactions: 14 interactions with chain F Hydrophobic interactions: F:F.44, F:W.56, F:V.60, F:L.83, F:L.83, F:F.104, F:F.104 Hydrogen bonds: F:S.103, F:F.422, F:F.422, F:F.422 Salt bridges: F:D.46 pi-Stacking: F:W.56, F:W.56 RNV.22: 13 residues within 4Å: Chain F: W.202, E.260, L.261, R.262, A.263, H.269, I.287, I.288, T.289, H.290, D.293, P.294, Q.417 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:L.261 Salt bridges: F:D.293

12 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: V.107, R.113, R.114, G.115, L.116, L.117, R.118 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.114, A:G.115, A:L.116, A:L.117, A:R.118 GOL.4: 5 residues within 4Å: Chain A: P.61, T.62, D.63, Y.84, S.131 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.63, A:Y.84, A:Y.84, A:S.131 Water bridges: A:Y.133 GOL.7: 7 residues within 4Å: Chain B: V.107, R.113, R.114, G.115, L.116, L.117, R.118 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.114, B:G.115, B:L.116, B:L.117, B:R.118 GOL.8: 5 residues within 4Å: Chain B: P.61, T.62, D.63, Y.84, S.131 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.63, B:Y.84, B:Y.84, B:S.131 Water bridges: B:Y.133 GOL.11: 7 residues within 4Å: Chain C: V.107, R.113, R.114, G.115, L.116, L.117, R.118 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.114, C:G.115, C:L.116, C:L.117, C:R.118 GOL.12: 5 residues within 4Å: Chain C: P.61, T.62, D.63, Y.84, S.131 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:D.63, C:Y.84, C:Y.84, C:S.131 Water bridges: C:Y.133 GOL.15: 7 residues within 4Å: Chain D: V.107, R.113, R.114, G.115, L.116, L.117, R.118 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:R.114, D:G.115, D:L.116, D:L.117, D:R.118 GOL.16: 5 residues within 4Å: Chain D: P.61, T.62, D.63, Y.84, S.131 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:D.63, D:Y.84, D:S.131 GOL.19: 7 residues within 4Å: Chain E: V.107, R.113, R.114, G.115, L.116, L.117, R.118 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:R.114, E:G.115, E:L.116, E:L.117, E:R.118 GOL.20: 5 residues within 4Å: Chain E: P.61, T.62, D.63, Y.84, S.131 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:D.63, E:Y.84, E:S.131 GOL.23: 7 residues within 4Å: Chain F: V.107, R.113, R.114, G.115, L.116, L.117, R.118 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:R.114, F:G.115, F:L.116, F:L.117, F:R.118 GOL.24: 5 residues within 4Å: Chain F: P.61, T.62, D.63, Y.84, S.131 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:D.63, F:Y.84, F:S.131

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Punetha, A. et al., Structure-Guided Optimization of Inhibitors of Acetyltransferase Eis fromMycobacterium tuberculosis. Acs Chem.Biol. (2020)

Release Date

2020-06-03

Peptides

N-acetyltransferase Eis: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

N-acetyltransferase Eis

Related Entries With Identical Sequence