SMTL ID : 6o0n.1

M.tb MenD with Inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.03 Å

Oligo State

homo-tetramer

Ligands

4 x DNA: 1,4-dihydroxy-2-naphthoic acid(Non-covalent)

DNA.1: 6 residues within 4Å: Chain A: Y.115, R.117, R.297, R.323, W.324, P.325 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:R.323 Hydrogen bonds: A:Y.115, A:R.323 Water bridges: A:Y.115, A:R.117, A:H.252 Salt bridges: A:R.117 DNA.2: 10 residues within 4Å: Chain B: N.114, Y.115, R.117, H.252, G.296, R.297, T.319, R.323, W.324, P.325 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:R.323, B:P.325 Hydrogen bonds: B:N.114, B:G.296, B:R.323, B:R.323 Salt bridges: B:R.117 pi-Cation interactions: B:R.297 DNA.3: 10 residues within 4Å: Chain B: G.135 Chain C: Y.115, R.117, H.252, G.253, R.297, T.319, R.323, W.324, P.325 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:R.297, C:R.323 Hydrogen bonds: C:Y.115, C:G.296, C:R.323 Salt bridges: C:R.117 DNA.4: 11 residues within 4Å: Chain A: G.133, G.135 Chain D: Y.115, R.117, H.252, G.253, R.297, T.319, R.323, W.324, P.325 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:Y.115, D:R.323 Hydrogen bonds: D:Y.115, D:R.323 Salt bridges: D:R.117

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bashiri, G. et al., Allosteric regulation of menaquinone (vitamin K2) biosynthesis in the human pathogenMycobacterium tuberculosis. J.Biol.Chem. (2020)

Release Date

2020-02-19

Peptides

2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase

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