SMTL ID : 2zfz.1 (2 other biounits)

Crystal structure of the C-terminal domain hexamer of ArgR from Mycobacterium tuberculosis in complex with arginine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-hexamer

Ligands

6 x ARG: ARGININE(Non-covalent)

ARG.1: 15 residues within 4Å: Chain A: H.34, A.37, S.38, D.41, T.51, I.52, A.53 Chain C: G.54, D.55, D.56, T.57 Chain F: P.30, G.31, D.55 Ligands: ARG.5 21 PLIP interactions: 3 Ligand-Ligand interactions, 10 interactions with chain A, 6 interactions with chain C, 2 interactions with chain F Hydrogen bonds: R.5, A:H.34, A:D.41, A:T.51, A:A.53, A:A.53, C:D.55, C:D.56, C:T.57, C:T.57 Water bridges: R.1, R.5, A:D.41, A:R.42, A:T.51, C:D.55, F:D.55 Hydrophobic interactions: A:A.37 Salt bridges: A:H.34, C:D.55, F:D.55 ARG.3: 14 residues within 4Å: Chain A: G.54, D.55, D.56, T.57 Chain B: H.34, A.37, S.38, D.41, T.51, I.52, A.53 Chain E: P.30, G.31, D.55 20 PLIP interactions: 7 interactions with chain A, 10 interactions with chain B, 2 Ligand-Ligand interactions, 1 interactions with chain E Hydrogen bonds: A:D.55, A:D.56, A:T.57, A:T.57, B:H.34, B:D.41, B:T.51, B:A.53, B:A.53, R.8 Water bridges: A:D.55, A:D.56, B:S.38, B:D.41, B:T.51, R.3 Salt bridges: A:D.55, B:H.34, E:D.55 Hydrophobic interactions: B:A.37 ARG.4: 15 residues within 4Å: Chain B: R.27, G.54, D.55, D.56, T.57 Chain C: H.34, A.37, S.38, D.41, T.51, I.52, A.53 Chain D: P.30, G.31, D.55 21 PLIP interactions: 9 interactions with chain C, 3 Ligand-Ligand interactions, 8 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: C:A.37 Hydrogen bonds: C:H.34, C:D.41, C:A.53, C:A.53, R.6, B:R.27, B:D.55, B:D.56, B:D.56, B:T.57, B:T.57 Water bridges: C:S.38, C:D.41, C:T.51, R.4, R.4, B:D.55 Salt bridges: C:H.34, B:D.55, D:D.55 ARG.5: 15 residues within 4Å: Chain C: P.30, G.31, D.55 Chain D: H.34, A.37, S.38, D.41, T.51, I.52, A.53 Chain F: G.54, D.55, D.56, T.57 Ligands: ARG.1 20 PLIP interactions: 8 interactions with chain D, 4 Ligand-Ligand interactions, 7 interactions with chain F, 1 interactions with chain C Hydrophobic interactions: D:A.37 Hydrogen bonds: D:H.34, D:D.41, D:A.53, D:A.53, R.1, F:D.55, F:D.56, F:T.57, F:T.57 Water bridges: D:S.38, D:T.51, R.1, R.5, R.5, F:R.27, F:D.55 Salt bridges: D:H.34, F:D.55, C:D.55 ARG.6: 14 residues within 4Å: Chain B: P.30, G.31, D.55 Chain D: G.54, D.55, D.56, T.57 Chain E: H.34, A.37, S.38, D.41, T.51, I.52, A.53 21 PLIP interactions: 2 Ligand-Ligand interactions, 7 interactions with chain D, 11 interactions with chain E, 1 interactions with chain B Hydrogen bonds: R.4, D:D.55, D:D.56, D:D.56, D:T.57, D:T.57, E:H.34, E:D.41, E:A.53, E:A.53 Water bridges: R.6, D:D.55, E:S.38, E:R.42, E:R.42, E:R.42, E:T.51 Salt bridges: D:D.55, E:H.34, B:D.55 Hydrophobic interactions: E:A.37 ARG.8: 14 residues within 4Å: Chain A: P.30, G.31, D.55 Chain E: G.54, D.55, D.56, T.57 Chain F: H.34, A.37, S.38, D.41, T.51, I.52, A.53 19 PLIP interactions: 1 interactions with chain A, 7 interactions with chain E, 3 Ligand-Ligand interactions, 8 interactions with chain F Salt bridges: A:D.55, E:D.55, F:H.34 Hydrogen bonds: E:D.55, E:D.56, E:T.57, E:T.57, R.3, F:H.34, F:D.41, F:T.51, F:A.53, F:A.53 Water bridges: E:D.55, E:D.56, R.8, R.8, F:T.51 Hydrophobic interactions: F:A.37

2 x GAI: GUANIDINE(Non-covalent)(Non-functional Binders)

GAI.2: 3 residues within 4Å: Chain A: G.73, E.76, N.77 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.77 Water bridges: A:N.77 GAI.7: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain E Water bridges: E:E.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cherney, L.T. et al., Structure of the C-terminal domain of the arginine repressor protein from Mycobacterium tuberculosis. Acta Crystallogr.,Sect.D (2008)

Release Date

2008-02-12

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

Related Entries With Identical Sequence