SMTL ID : 3laj.1

The Structure of the Intermediate Complex of the Arginine Repressor from Mycobacterium tuberculosis Bound to its DNA Operator and L-arginine.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

homo-hexamer

Ligands

6 x ARG: ARGININE(Non-covalent)

ARG.1: 12 residues within 4Å: Chain A: H.125, A.128, S.129, D.132, T.142, I.143, A.144 Chain C: G.145, D.146, D.147, T.148 Chain F: D.146 18 PLIP interactions: 8 interactions with chain A, 7 interactions with chain C, 2 interactions with chain F, 1 Ligand-Ligand interactions Hydrophobic interactions: A:A.128 Hydrogen bonds: A:H.125, A:H.125, A:D.132, A:T.142, A:A.144, C:D.146, C:D.147, C:D.147, C:D.147, C:T.148, C:T.148, R.1 Water bridges: A:T.142, F:D.146 Salt bridges: A:H.125, C:D.146, F:D.146 ARG.2: 11 residues within 4Å: Chain A: G.145, D.146, D.147, T.148 Chain B: H.125, S.129, D.132, T.142, I.143, A.144 Chain E: D.146 13 PLIP interactions: 6 interactions with chain B, 6 interactions with chain A, 1 interactions with chain E, Hydrogen bonds: B:H.125, B:D.132, B:T.142, B:A.144, A:D.146, A:D.147, A:D.147, A:T.148, A:T.148 Water bridges: B:T.142 Salt bridges: B:H.125, A:D.146, E:D.146 ARG.3: 13 residues within 4Å: Chain B: G.145, D.146, D.147, T.148 Chain C: H.125, A.128, S.129, D.132, T.142, I.143, A.144 Chain D: G.122, D.146 16 PLIP interactions: 7 interactions with chain B, 7 interactions with chain C, 1 Ligand-Ligand interactions, 1 interactions with chain D Hydrogen bonds: B:D.146, B:D.147, B:D.147, B:D.147, B:T.148, B:T.148, C:H.125, C:D.132, C:T.142, C:A.144, R.3 Salt bridges: B:D.146, C:H.125, D:D.146 Hydrophobic interactions: C:A.128 Water bridges: C:T.142 ARG.4: 14 residues within 4Å: Chain C: P.121, G.122, D.146 Chain D: H.125, A.128, S.129, D.132, T.142, I.143, A.144 Chain F: G.145, D.146, D.147, T.148 11 PLIP interactions: 5 interactions with chain D, 1 interactions with chain C, 5 interactions with chain F, Hydrophobic interactions: D:A.128 Hydrogen bonds: D:H.125, D:D.132, D:A.144, F:D.146, F:D.147, F:T.148, F:T.148 Water bridges: D:T.142 Salt bridges: C:D.146, F:D.146 ARG.5: 13 residues within 4Å: Chain B: P.121, G.122, D.146 Chain D: G.145, D.146, D.147, T.148 Chain E: A.128, S.129, D.132, T.142, I.143, A.144 13 PLIP interactions: 4 interactions with chain E, 6 interactions with chain D, 1 Ligand-Ligand interactions, 2 interactions with chain B Hydrogen bonds: E:D.132, E:A.144, E:A.144, D:D.146, D:D.147, D:T.148, D:T.148 Water bridges: E:T.142, R.5, B:D.146 Salt bridges: D:D.146, D:D.147, B:D.146 ARG.6: 11 residues within 4Å: Chain A: G.122, D.146 Chain E: G.145, D.146, D.147, T.148 Chain F: S.129, D.132, T.142, I.143, A.144 12 PLIP interactions: 6 interactions with chain E, 4 interactions with chain F, 1 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: E:D.146, E:D.147, E:D.147, E:T.148, E:T.148, F:H.125, F:D.132, F:A.144, R.6 Salt bridges: E:D.146, A:D.146 Water bridges: F:T.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cherney, L.T. et al., crystal structure of the intermediate complex of the arginine repressor from Mycobacterium tuberculosis bound with its DNA operator reveals detailed mechanism of arginine repression. J.Mol.Biol. (2010)

Release Date

2010-05-05

Peptides

Arginine repressor: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Arginine repressor

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