Late translocation intermediate with EF-G partially dissociated (Structure V)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7ss9
Q-score: 0.308
Carbone CE, Loveland AB, Gamper Jr HB, Hou YM, Demo G, Korostelev AA
Nat Commun (2021) 12 pp. 7236-7236 [ DOI: doi:10.1038/s41467-021-27415-0 Pubmed: 34903725 ]
- 30s ribosomal protein s2 (25 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l23 (10 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l1 (24 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s13 (12 kDa, Protein from Escherichia coli K-12)
- 23s rrna (941 kDa, RNA from Escherichia coli K-12)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l15 (14 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l33 (5 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli K-12)
- 5s rrna (38 kDa, RNA from Escherichia coli K-12)
- Trna pro (24 kDa, RNA from Escherichia coli K-12)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s19 (9 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s5 (16 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s7 (16 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l17 (13 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli K-12)
- Elongation factor g (76 kDa, Protein from Escherichia coli 113303)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s3 (23 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l27 (8 kDa, Protein from Escherichia coli K-12)
- Late translocation intermediate with ef-g partially dissociated (structure v) (2 MDa, Complex from Escherichia coli K-12)
- Mrna (12 kDa, RNA from Escherichia coli K-12)
- 16s rrna (498 kDa, RNA from Escherichia coli K-12)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l28 (8 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli K-12)
- Trna fmet (24 kDa, RNA from Escherichia coli K-12)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s6 (11 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s21 (7 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s18 (7 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s11 (12 kDa, Protein from Escherichia coli K-12)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7thj
Q-score: 0.423
Gaubitz C, Liu X, Pajak J, Stone NP, Hayes JA, Demo G, Kelch BA
eLife (2022) 11 [ Pubmed: 35179493 DOI: doi:10.7554/eLife.74175 ]
- Rfc5 (Protein from Saccharomyces cerevisiae)
- Pcna (Protein from Saccharomyces cerevisiae)
- Replication factor c (rfc), the eukaryotic clamp loader (336 kDa, Complex from Saccharomyces cerevisiae)
- Rfc1 (Protein from Saccharomyces cerevisiae)
- Rfc3 (RNA from Saccharomyces cerevisiae)
- Rfc4 (Protein from Saccharomyces cerevisiae)
- Rfc2 (Protein from Saccharomyces cerevisiae)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7tic
Q-score: 0.395
Gaubitz C, Liu X, Pajak J, Stone NP, Hayes JA, Demo G, Kelch PhD BA
eLife (2022) 11 [ Pubmed: 35179493 DOI: doi:10.7554/eLife.74175 ]
- Rfc5 (Protein from Saccharomyces cerevisiae)
- Pcna (Protein from Saccharomyces cerevisiae)
- Replication factor c (rfc), the eukaryotic clamp loader (336 kDa, Complex from Saccharomyces cerevisiae)
- Rfc1 (Protein from Saccharomyces cerevisiae)
- Rfc3 (Protein from Saccharomyces cerevisiae)
- Rfc4 (Protein from Saccharomyces cerevisiae)
- Rfc2 (Protein from Saccharomyces cerevisiae)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7thv
Q-score: 0.406
Gaubitz C, Liu X, Pajak J, Stone NP, Hayes JA, Demo G, Kelch PhD BA
eLife (2022) 11 [ Pubmed: 35179493 DOI: doi:10.7554/eLife.74175 ]
- Pcna (Protein from Saccharomyces cerevisiae)
- Replication factor c (rfc), the eukaryotic clamp loader (336 kDa, Complex from Saccharomyces cerevisiae)
- Rfc1 (Protein from Saccharomyces cerevisiae)
- Rfc5 (RNA from Saccharomyces cerevisiae)
- Rfc3 (Protein from Saccharomyces cerevisiae)
- Rfc4 (Protein from Saccharomyces cerevisiae)
- Rfc2 (Protein from Saccharomyces cerevisiae)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7tku
Q-score: 0.405
Gaubitz C, Liu X, Pajak J, Stone NP, Hayes JA, Demo G, Kelch PhD BA
eLife (2022) 11 [ Pubmed: 35179493 DOI: doi:10.7554/eLife.74175 ]
- Rfc5 (Protein from Saccharomyces cerevisiae)
- Pcna (Protein from Saccharomyces cerevisiae)
- Rfc1 (Protein from Saccharomyces cerevisiae)
- Rfc3 (Protein from Saccharomyces cerevisiae)
- Rfc4 (Protein from Saccharomyces cerevisiae)
- Rfc2 (Protein from Saccharomyces cerevisiae)
- Structure of the yeast clamp loader (replication factor c rfc) bound to the open sliding clamp (proliferating cell nuclear antigen pcna) (336 kDa, Complex from Saccharomyces cerevisiae)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7tib
Q-score: 0.452
Gaubitz C, Liu X, Pajak J, Stone NP, Hayes JA, Demo G, Kelch PhD BA
eLife (2022) 11 [ Pubmed: 35179493 DOI: doi:10.7554/eLife.74175 ]
- Template (DNA from Saccharomyces cerevisiae)
- Replication factor c (rfc) bound to the open sliding clamp proliferating cell nuclear antigen (pcna) (336 kDa, Complex from Saccharomyces cerevisiae)
- Rfc5 (Protein from Saccharomyces cerevisiae)
- Pcna (Protein from Saccharomyces cerevisiae)
- Rfc1 (Protein from Saccharomyces cerevisiae)
- Primer (DNA from Saccharomyces cerevisiae)
- Rfc3 (Protein from Saccharomyces cerevisiae)
- Rfc4 (Protein from Saccharomyces cerevisiae)
- Rfc2 (Protein from Saccharomyces cerevisiae)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7tid
Q-score: 0.463
Gaubitz C, Liu X, Pajak J, Stone NP, Hayes JA, Demo G, Kelch PhD BA
eLife (2022) 11 [ Pubmed: 35179493 DOI: doi:10.7554/eLife.74175 ]
- Template (DNA from Saccharomyces cerevisiae)
- Replication factor c (rfc) bound to the open sliding clamp proliferating cell nuclear antigen (pcna) (336 kDa, Complex from Saccharomyces cerevisiae)
- Rfc5 (Protein from Saccharomyces cerevisiae)
- Pcna (Protein from Saccharomyces cerevisiae)
- Rfc1 (Protein from Saccharomyces cerevisiae)
- Primer (DNA from Saccharomyces cerevisiae)
- Rfc3 (Protein from Saccharomyces cerevisiae)
- Rfc4 (Protein from Saccharomyces cerevisiae)
- Rfc2 (Protein from Saccharomyces cerevisiae)
Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure III-C)
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 6wda
Q-score: 0.332
Loveland AB, Demo G, Korostelev AA
Nature (2020) 584 pp. 640-645 [ Pubmed: 32612237 DOI: doi:10.1038/s41586-020-2447-x ]
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l17 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l28 (8 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s5 (16 kDa, Protein from Escherichia coli)
- Elongation factor tu (44 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s18 (7 kDa, Protein from Escherichia coli)
- Map iii-c (Complex from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
- 16s ribosomal rna (498 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s7 (16 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s13 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l1 (23 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (8 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s3 (23 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s2 (25 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s11 (12 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l10 (14 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s19 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s21 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- Mrna (5 kDa, RNA from Escherichia coli)
- N-formylmethionine (177 Da, Ligand)
- Trnafmet (24 kDa, RNA from Escherichia coli)
- Trnaphe (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- Phenylalanine (165 Da, Ligand)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)