CryoEM structure of E.coli RNA polymerase paused elongation complex bound to NusA
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6flq
Q-score: -0.011
Guo X, Myasnikov AG, Chen J, Crucifix C, Papai G, Takacs M, Schultz P, Weixlbaumer A
Mol Cell (2018) 69 pp. 816-827.e4 [ Pubmed: 29499136 DOI: doi:10.1016/j.molcel.2018.02.008 ]
- Nucleic acids (Complex)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
- Magnesium ion (24 Da, Ligand)
- Rna (5'-r(*cp*cp*up*gp*ap*up*cp*ap*gp*gp*cp*gp*ap*up*gp*up*gp*up*gp*cp*u)-3') (6 kDa, RNA from synthetic construct)
- Cryo-em structure of e. coli rna polymerase paused elongation complex bound to nusa (Complex)
- Transcription termination/antitermination protein nusa (54 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Rna polymerase, nusa (Complex from Escherichia coli K-12)
- Dna (39-mer) (11 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Zinc ion (65 Da, Ligand)
- Dna (31-mer) (9 kDa, DNA from synthetic construct)
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 6flp
Q-score: 0.334
Guo X, Myasnikov AG, Chen J, Crucifix C, Papai G, Takacs M, Schultz P, Weixlbaumer A
Mol Cell (2018) 69 pp. 816-827.e4 [ Pubmed: 29499136 DOI: doi:10.1016/j.molcel.2018.02.008 ]
- Rna (5'-r(p*gp*ap*up*gp*up*gp*up*gp*cp*u)-3') (3 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
- Magnesium ion (24 Da, Ligand)
- Nucleic acids (Complex from synthetic construct)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Cryo-em structure of e. coli rna polymerase paused elongation complex without rna hairpin bound to nusa (Complex)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli (strain K12))
- Dna (39-mer) (11 kDa, DNA from synthetic construct)
- Rna polymerase and nusa (Complex from Escherichia coli K-12)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Zinc ion (65 Da, Ligand)
- Dna (30-mer) (9 kDa, DNA from synthetic construct)
Resolution: 5.8 Å
EM Method: Single-particle
Fitted PDBs: 5k0y
Q-score: 0.141
Simonetti A, Brito Querido J, Myasnikov AG, Mancera-Martinez E, Renaud A, Kuhn L, Hashem Y
Mol Cell (2016) 63 pp. 206-217 [ Pubmed: 27373335 DOI: doi:10.1016/j.molcel.2016.05.033 ]
- Ribosomal protein es1 (24 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s6 (27 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us12 (15 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es10 (11 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s24 (15 kDa, Protein from Oryctolagus cuniculus)
- Eukaryotic translation initiation factor 3 subunit i (37 kDa, Protein from Oryctolagus cuniculus)
- Eukaryotic translation initiation factor 2 subunit 1 (30 kDa, Protein from Oryctolagus cuniculus)
- Eukaryotic initiation factor 2 gamma subunit (eif2-gamma) (45 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s4 (29 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us19 (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s8 (23 kDa, Protein from Oryctolagus cuniculus)
- Mrna (9 kDa, RNA from Oryctolagus cuniculus)
- Ribosomal protein es19 (15 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es25 (8 kDa, Protein from Oryctolagus cuniculus)
- 18s ribosomal rna (572 kDa, RNA from Oryctolagus cuniculus)
- Ribosomal protein us2 (23 kDa, Protein from Oryctolagus cuniculus)
- Eukaryotic initiation factor 2 subunit beta (eif2-beta) (2 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s21 (8 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us14 (6 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s27 (9 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us5 (24 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es26 (11 kDa, Protein from Oryctolagus cuniculus)
- Eukaryotic translation initiation factor 3 subunit g (4 kDa, Protein from Homo sapiens)
- Ribosomal protein us17 (18 kDa, Protein from Oryctolagus cuniculus)
- Eukaryotic translation initiation factor 3 subunit g (8 kDa, Protein from Homo sapiens)
- Ribosomal protein us7 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us11 (14 kDa, Protein from Oryctolagus cuniculus)
- M48s late-stage initiation complex, purified from rabbit reticulocytes lysates, displaying eif2 ternary complex and eif3 i and g subunits relocated to the intersubunit face (2 MDa, Complex)
- Ribosomal protein us9 (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s12 (13 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein rack1 (34 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us8 (14 kDa, Protein from Oryctolagus cuniculus)
- Trna (24 kDa, RNA from Oryctolagus cuniculus)
- Ribosomal protein es17 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us10 (11 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s9 (predicted) (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es30 (6 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es28 (7 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us15 (17 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us3 (25 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es31 (8 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es7 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us13 (16 kDa, Protein from Oryctolagus cuniculus)
Structured mRNAs regulate translation initiation by binding to the platform of the ribosome.
Marzi S, Myasnikov AG, Serganov A, Ehresmann C, Romby P, Yusupov M, Klaholz BP
Cell (2007) 130 pp. 1019-1031 [ DOI: doi:10.1016/j.cell.2007.07.008 Pubmed: 17889647 ]
- 70s pre-initiation complex entrapped by s15-rpsomrna (2 MDa, Sample)
- 70s (Complex from Escherichia coli)
- Ribosomal protein s15 (Protein from Escherichia coli)
- Rpso messanger rna (RNA from Escherichia coli)