- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-6-1-2-1-1-1-mer
- Ligands
- 5 x ADP: ADENOSINE-5'-DIPHOSPHATE(Covalent)(Non-covalent)
ADP.1: 12 residues within 4Å:- Chain A: R.366, K.367, E.369
- Chain B: K.181, A.182, G.183, K.184, T.185, M.186, F.355
- Ligands: MG.2, BEF.3
9 PLIP interactions:3 interactions with chain A, 6 interactions with chain B- Hydrogen bonds: A:R.366, A:K.367, A:E.369, B:K.181, B:A.182, B:K.184, B:T.185, B:T.185
- pi-Stacking: B:F.355
ADP.4: 12 residues within 4Å:- Chain B: R.366, E.369
- Chain C: T.158, K.181, A.182, G.183, K.184, T.185, M.186, F.355
- Ligands: MG.5, BEF.6
11 PLIP interactions:8 interactions with chain C, 3 interactions with chain B- Hydrogen bonds: C:T.158, C:T.158, C:K.181, C:A.182, C:G.183, C:K.184, C:T.185, B:R.366, B:E.369
- pi-Stacking: C:F.355
- Salt bridges: B:K.367
ADP.7: 12 residues within 4Å:- Chain C: R.366, K.367, E.369
- Chain D: K.181, A.182, G.183, K.184, T.185, M.186, F.355
- Ligands: MG.8, BEF.9
10 PLIP interactions:3 interactions with chain C, 7 interactions with chain D- Hydrogen bonds: C:R.366, C:K.367, C:E.369, D:K.181, D:A.182, D:G.183, D:K.184, D:T.185
- Water bridges: D:R.212
- Salt bridges: D:K.184
ADP.10: 11 residues within 4Å:- Chain D: R.366, E.369
- Chain E: K.181, A.182, G.183, K.184, T.185, M.186, F.355
- Ligands: MG.11, BEF.12
6 PLIP interactions:1 interactions with chain D, 5 interactions with chain E- Hydrogen bonds: D:E.369, E:K.181, E:A.182, E:K.184, E:T.185
- pi-Stacking: E:F.355
ADP.13: 11 residues within 4Å:- Chain E: R.366, E.369
- Chain F: K.181, A.182, G.183, K.184, T.185, M.186, F.355
- Ligands: MG.14, BEF.15
6 PLIP interactions:5 interactions with chain F, 1 interactions with chain E- Hydrogen bonds: F:K.181, F:A.182, F:K.184, F:T.185, E:E.369
- pi-Stacking: F:F.355
- 6 x MG: MAGNESIUM ION(Non-covalent)
MG.2: 4 residues within 4Å:- Chain B: K.184, T.185
- Ligands: ADP.1, BEF.3
4 PLIP interactions:1 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:T.185, H2O.1, H2O.1, H2O.1
MG.5: 3 residues within 4Å:- Chain C: T.185
- Ligands: ADP.4, BEF.6
4 PLIP interactions:1 interactions with chain C, 3 Ligand-Water interactions- Metal complexes: C:T.185, H2O.1, H2O.1, H2O.1
MG.8: 4 residues within 4Å:- Chain D: K.184, T.185
- Ligands: ADP.7, BEF.9
4 PLIP interactions:1 interactions with chain D, 3 Ligand-Water interactions- Metal complexes: D:T.185, H2O.1, H2O.1, H2O.1
MG.11: 3 residues within 4Å:- Chain E: T.185
- Ligands: ADP.10, BEF.12
4 PLIP interactions:1 interactions with chain E, 3 Ligand-Water interactions- Metal complexes: E:T.185, H2O.1, H2O.1, H2O.1
MG.14: 3 residues within 4Å:- Chain F: T.185
- Ligands: ADP.13, BEF.15
4 PLIP interactions:1 interactions with chain F, 3 Ligand-Water interactions- Metal complexes: F:T.185, H2O.1, H2O.1, H2O.1
MG.16: 3 residues within 4Å:- Chain L: D.460, D.462, D.464
5 PLIP interactions:5 interactions with chain L- Metal complexes: L:D.460, L:D.460, L:D.462, L:D.462, L:D.464
- 5 x BEF: BERYLLIUM TRIFLUORIDE ION(Non-covalent)
BEF.3: 8 residues within 4Å:- Chain A: R.366
- Chain B: P.180, K.181, K.184, T.185, R.212
- Ligands: ADP.1, MG.2
No protein-ligand interaction detected (PLIP)BEF.6: 8 residues within 4Å:- Chain B: R.366
- Chain C: P.180, K.181, A.182, K.184, T.185
- Ligands: ADP.4, MG.5
No protein-ligand interaction detected (PLIP)BEF.9: 6 residues within 4Å:- Chain C: R.366
- Chain D: P.180, K.181, K.184
- Ligands: ADP.7, MG.8
No protein-ligand interaction detected (PLIP)BEF.12: 7 residues within 4Å:- Chain D: R.366
- Chain E: P.180, K.181, A.182, K.184
- Ligands: ADP.10, MG.11
No protein-ligand interaction detected (PLIP)BEF.15: 9 residues within 4Å:- Chain E: R.366
- Chain F: P.179, P.180, K.181, A.182, K.184, T.185
- Ligands: ADP.13, MG.14
No protein-ligand interaction detected (PLIP)- 2 x ZN: ZINC ION(Non-covalent)
ZN.17: 4 residues within 4Å:- Chain L: C.70, C.72, C.85, C.88
4 PLIP interactions:4 interactions with chain L- Metal complexes: L:C.70, L:C.72, L:C.85, L:C.88
ZN.18: 4 residues within 4Å:- Chain L: C.814, C.888, C.895, C.898
4 PLIP interactions:4 interactions with chain L- Metal complexes: L:C.814, L:C.888, L:C.895, L:C.898
- 2 x DT: THYMIDINE-5'-MONOPHOSPHATE(Non-covalent)(Covalent)
DT.19: 4 residues within 4Å:- Chain L: T.48, K.50
- Ligands: DA.20, DT.21
4 PLIP interactions:4 interactions with chain L- Hydrophobic interactions: L:K.50, L:K.87
- Hydrogen bonds: L:K.50, L:E.86
DT.21: 7 residues within 4Å:- Chain B: G.107, E.108, R.109
- Chain L: N.45, T.48
- Chain M: G.37
- Ligands: DT.19
Protein-ligand interaction information (PLIP) not available- 1 x DA: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE(Non-covalent)
DA.20: 4 residues within 4Å:- Chain L: K.50, E.86, K.87
- Ligands: DT.19
13 PLIP interactions:9 interactions with chain A, 4 interactions with chain L- Hydrophobic interactions: A:Y.80
- Hydrogen bonds: A:E.56, A:D.60, A:Y.80, A:S.82, A:S.82, A:S.84, A:Q.85, A:R.88, L:E.86
- Salt bridges: L:R.77, L:R.77
- pi-Stacking: L:H.80
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Said, N. et al., Steps toward translocation-independent RNA polymerase inactivation by terminator ATPase rho. Science (2021)
- Release Date
- 2020-11-04
- Peptides
- Transcription termination factor Rho: ABCDEF
Transcription termination/antitermination protein NusA: G
DNA-directed RNA polymerase subunit alpha: HI
DNA-directed RNA polymerase subunit omega: J
DNA-directed RNA polymerase subunit beta: K
DNA-directed RNA polymerase subunit beta': L - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
fB
aC
bD
cE
dF
eG
AH
UI
VJ
WK
XL
Y
SMTL ID : 6z9t.1
Transcription termination intermediate complex 5
Transcription termination factor Rho
Toggle Identical (ABCDEF)Transcription termination/antitermination protein NusA
DNA-directed RNA polymerase subunit alpha
DNA-directed RNA polymerase subunit omega
DNA-directed RNA polymerase subunit beta
DNA-directed RNA polymerase subunit beta'
Related Entries With Identical Sequence
1pv4.1 | 1pvo.1 | 1xpo.1 | 1xpo.2 | 1xpo.3 | 1xpo.4 | 1xpo.5 | 1xpo.6 | 1xpr.1 | 1xpr.2 | 1xpr.3 | 1xpr.4 | 1xpr.5 | 1xpr.6 | 1xpu.1 | 1xpu.2 | 1xpu.3 | 1xpu.4 | 1xpu.5 | 1xpu.6 | 3iyd.1 | 3lu0.1 | 4jk1.1 | 4jk1.2 | 4jk2.1 | 4jk2.2 | 4jkr.1 | 4jkr.2 | 4kmu.1 | 4kmu.2 more...less...4kn4.1 | 4kn4.2 | 4kn7.1 | 4kn7.2 | 4ljz.1 | 4ljz.2 | 4lk0.1 | 4lk0.2 | 4lk1.1 | 4lk1.2 | 4llg.1 | 4llg.2 | 4mex.1 | 4mex.2 | 4mey.1 | 4mey.2 | 4s20.1 | 4s20.2 | 4xsx.1 | 4xsx.2 | 4xsy.1 | 4xsy.2 | 4xsz.1 | 4xsz.2 | 4yfk.1 | 4yfk.2 | 4yfn.1 | 4yfn.2 | 4yfx.1 | 4yfx.2 | 4yg2.1 | 4yg2.2 | 4yln.1 | 4yln.2 | 4yln.3 | 4ylo.1 | 4ylo.2 | 4ylo.3 | 4ylp.1 | 4ylp.2 | 4ylp.3 | 4zh2.1 | 4zh2.2 | 4zh3.1 | 4zh3.2 | 4zh4.1 | 4zh4.2 | 5ezk.1 | 5ipl.1 | 5ipm.1 | 5ipn.1 | 5ms0.1 | 5my1.1 | 5nsr.1 | 5nss.1 | 5nwt.1 | 5tbz.1 | 5tbz.2 | 5uac.1 | 5uac.2 | 5uah.1 | 5uah.2 | 5uaj.1 | 5uaj.2 | 5ual.1 | 5ual.2 | 5uaq.1 | 5uaq.2 | 5ui8.1 | 5vsw.1 | 5vsw.2 | 5vt0.1 | 5w1s.1 | 5w1s.2 | 5w1t.1 | 5w1t.2 | 6alf.1 | 6alg.1 | 6alh.1 | 6asx.1 | 6b6h.1 | 6bjs.1 | 6byu.1 | 6byu.2 | 6c6s.1 | 6c6t.1 | 6c6u.1 | 6c9y.1 | 6ca0.1 | 6cux.1 | 6cux.2 | 6flp.1 | 6flq.1 | 6gfw.1 | 6gh5.1 | 6gh6.1 | 6gov.1 | 6jbq.1 | 6jnx.1 | 6k4y.1 | 6kj6.1 | 6ldi.1 | 6n57.1 | 6n58.1 | 6n60.1 | 6n61.1 | 6n62.1 | 6omf.1 | 6oul.1 | 6p18.1 | 6p19.1 | 6p1k.1 | 6pb4.1 | 6pb5.1 | 6pb6.1 | 6pmi.1 | 6pmj.1 | 6psq.1 | 6psr.1 | 6pss.1 | 6pst.1 | 6psu.1 | 6psv.1 | 6psw.1 | 6r9b.1 | 6r9g.1 | 6rh3.1 | 6ri7.1 | 6ri9.1 | 6rin.1 | 6rip.1 | 6tqn.1 | 6tqo.1 | 6utv.1 | 6utw.1 | 6utx.1 | 6uty.1 | 6utz.1 | 6uu0.1 | 6uu1.1 | 6uu2.1 | 6uu3.1 | 6uu4.1 | 6uu5.1 | 6uu6.1 | 6uu7.1 | 6uu8.1 | 6uu9.1 | 6uua.1 | 6uub.1 | 6uuc.1 | 6vjs.1 | 6vjs.2 | 6vyx.6 | 6vyx.8 | 6vyx.9 | 6vyx.11 | 6vz3.6 | 6wa8.1 | 6wmu.1 | 6x26.1 | 6x2f.1 | 6x2n.1 | 6x43.1 | 6x4w.1 | 6x4y.1 | 6x50.1 | 6xas.1 | 6xav.1 | 6xh7.1 | 6xh8.1 | 6xl5.1 | 6xl9.1 | 6xlj.1 | 6xll.1 | 6xlm.1 | 6xln.1 | 6z9p.1 | 6z9q.1 | 6z9r.1 | 6z9s.1 | 6ztj.53 | 6ztj.54 | 6ztj.55 | 6ztj.57 | 6ztl.1 | 6ztm.1 | 6ztn.49 | 6ztn.50 | 6ztn.51 | 6ztn.53 | 6zto.1 | 6ztp.1 | 6zu1.1 | 7adb.1 | 7adc.1 | 7add.1 | 7ade.1 | 7bef.1 | 7beg.1 | 7c17.1 | 7c97.1 | 7chw.1 | 7d7c.1 | 7d7d.1 | 7dy6.1 | 7khb.1 | 7khc.1 | 7khe.1 | 7khi.1 | 7m8e.1 | 7mkd.1 | 7mke.1 | 7mki.1 | 7mkj.1 | 7mkn.1 | 7mko.1 | 7mkp.1 | 7mkq.1 | 7n4e.1 | 7py0.1 | 7py1.1 | 7py3.1 | 7py5.1 | 7py6.1 | 7py7.1 | 7py8.1 | 7pyj.1 | 7pyk.1 | 7q0j.1 | 7q0k.1 | 7qv9.1 | 7qwp.1 | 7qxi.1 | 7szj.1 | 7szk.1 | 7ubm.1 | 7ubn.1 | 7uwe.1 | 7uwh.1 | 7vwy.1 | 7vwz.1 | 7w5w.1 | 7w5x.1 | 7w5y.1 | 7x2r.1 | 7xue.1 | 7xug.1 | 7xui.1 | 7yp9.1 | 7ypa.1 | 7ypb.1 | 8aby.1 | 8abz.1 | 8ac0.1 | 8ac1.1 | 8ac2.1 | 8acp.1 | 8ad1.1 | 8e3f.1 | 8e3h.1 | 8e5k.1 | 8e5l.1 | 8e5o.1 | 8e5p.1 | 8e6w.1 | 8e6x.1 | 8e6z.1 | 8e70.1 | 8eg7.1 | 8eg8.1 | 8egb.1 | 8eh8.1 | 8eh9.1 | 8eha.1 | 8ehf.1 | 8ehi.1 | 8f1i.1 | 8f1j.1 | 8f1k.1 | 8f3c.1 | 8fix.1 | 8fiy.1 | 8ftd.1 | 8fvr.1 | 8fvw.1 | 8g00.1 | 8g1s.1 | 8igr.1 | 8igs.1 | 8jo2.1 | 8pbl.1 | 8pdy.1 | 8pen.1 | 8peu.1 | 8pew.1 | 8pfg.1 | 8pfj.1 | 8ph9.1 | 8phk.1 | 8pib.1 | 8pid.1 | 8pil.1 | 8pim.1 | 8ptg.1 | 8ptm.1 | 8ptn.1 | 8pto.1 | 8ptp.1 | 8q3n.1 | 8q3o.1 | 8sy5.1 | 8sy6.1 | 8sy7.1 | 8to1.1 | 8to6.1 | 8to8.1 | 8toe.1 | 8tom.1 | 8txo.1 | 8u3b.1 | 8w8d.1 | 8y6u.1 | 9gcs.1 | 9gct.1 | 9gur.1 | 9guw.1 | 9gux.1