SMTL ID : 8q3o.1

Bacterial transcription termination factor Rho + pppGpp

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-hexamer

Ligands

4 x 0O2: guanosine 5'-(tetrahydrogen triphosphate) 3'-(trihydrogen diphosphate)(Non-covalent)

0O2.1: 18 residues within 4Å: Chain A: T.365, R.366, K.367, E.368, E.369, W.381 Chain B: T.158, P.180, K.181, A.182, G.183, K.184, T.185, M.186, E.211, R.212, R.353, F.355 17 PLIP interactions: 16 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:P.180, B:K.181, B:A.182, B:G.183, B:K.184, B:T.185, B:T.185, B:M.186 Salt bridges: B:K.181, B:K.181, B:K.181, B:K.184, B:K.184, B:R.212, B:R.353, A:K.367 pi-Stacking: B:F.355 0O2.2: 13 residues within 4Å: Chain B: T.365, R.366, K.367, E.368, E.369 Chain C: P.180, K.181, A.182, G.183, K.184, T.185, M.186, F.355 20 PLIP interactions: 11 interactions with chain C, 9 interactions with chain B Hydrogen bonds: C:P.179, C:K.181, C:A.182, C:G.183, C:K.184, C:T.185, C:M.186, B:K.367, B:E.368, B:E.368 Salt bridges: C:K.181, C:K.184, C:K.184, B:R.366, B:R.366, B:R.366, B:R.366, B:K.367, B:K.367 pi-Stacking: C:F.355 0O2.3: 13 residues within 4Å: Chain C: T.365, R.366, K.367, E.369 Chain D: T.158, K.181, A.182, G.183, K.184, T.185, M.186, R.212, F.355 20 PLIP interactions: 5 interactions with chain C, 15 interactions with chain D Hydrogen bonds: C:K.367, C:E.368, C:E.369, D:T.158, D:K.181, D:A.182, D:G.183, D:K.184, D:T.185, D:T.185, D:T.185, D:M.186 Salt bridges: C:R.366, C:K.367, D:K.181, D:K.184, D:K.184, D:R.212 pi-Stacking: D:F.355, D:F.355 0O2.4: 17 residues within 4Å: Chain D: T.365, R.366, K.367, E.369 Chain E: P.179, K.181, A.182, G.183, K.184, T.185, M.186, E.211, R.212, E.215, D.265, F.355 Ligands: MG.5 21 PLIP interactions: 12 interactions with chain E, 9 interactions with chain D Hydrogen bonds: E:K.181, E:A.182, E:G.183, E:K.184, E:T.185, E:T.185, E:E.215, D:T.365, D:T.365, D:K.367, D:E.369 Salt bridges: E:K.181, E:K.184, E:K.184, E:R.212, D:R.366, D:R.366, D:R.366, D:R.366, D:R.366 pi-Stacking: E:F.355

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 4 residues within 4Å: Chain E: K.184, E.211, D.265 Ligands: 0O2.4 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:D.265

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, B. et al., Transcription termination factor rho polymerizes under stress. Biorxiv (2023)

Release Date

2023-09-27

Peptides

Transcription termination factor Rho: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Transcription termination factor Rho

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