SMTL ID : 8i80.1

Crystal structure of Cph001-D189N

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

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

PEG.1: 6 residues within 4Å: Chain A: C.77, E.78, L.87, F.89, L.90, V.91 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.78, A:V.91, A:V.91 PEG.5: 7 residues within 4Å: Chain A: R.144, W.145, F.148, E.214, Q.264, L.267, S.268 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.268 Water bridges: A:R.144, A:Q.264 PEG.6: 7 residues within 4Å: Chain A: I.35, V.40, R.56, M.60, P.73, D.211, W.212 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.56, A:R.56, A:D.211, A:W.212 Water bridges: A:D.211 PEG.7: 9 residues within 4Å: Chain B: V.40, M.60, P.73, S.93, R.94, I.210, D.211, W.212 Ligands: ACT.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.95, B:D.211, B:W.212 PEG.8: 6 residues within 4Å: Chain B: G.188, N.189, E.214, E.222, Q.264, S.268 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.189, B:S.268, B:S.268

5 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 4 residues within 4Å: Chain A: R.52, R.56, W.212, D.213 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:R.56 Salt bridges: A:R.52, A:R.56 ACT.3: 2 residues within 4Å: Chain A: E.132, R.135 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.132 Salt bridges: A:R.135 ACT.4: 4 residues within 4Å: Chain A: T.24, I.35, S.37, R.94 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.37 Salt bridges: A:R.94 ACT.9: 5 residues within 4Å: Chain B: R.94, V.95, L.196, I.210 Ligands: PEG.7 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.196, B:I.210 Water bridges: B:G.97 Salt bridges: B:R.94 ACT.10: 3 residues within 4Å: Chain B: G.2, I.3, L.4 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:I.3, B:L.4 Water bridges: B:Q.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Toh, S.I. et al., Discovery and characterization of genes conferring natural resistance to the antituberculosis antibiotic capreomycin. Commun Biol (2023)

Release Date

2024-01-10

Peptides

Viomycin kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Viomycin kinase

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