Cryo-EM structure of the highly atypical cytoplasmic ribosome of Euglena gracilis
Resolution: 3.15 Å
EM Method: Single-particle
Fitted PDBs: 6zj3
Q-score: 0.548
Matzov D, Taoka M, Nobe Y, Yamauchi Y, Halfon Y, Asis N, Zimermann E, Rozenberg H, Bashan A, Bhushan S, Isobe T, Gray MW, Yonath A, Shalev-Benami M
Nucleic Acids Res (2020) 48 pp. 11750-11761 [ DOI: doi:10.1093/nar/gkaa893 Pubmed: 33091122 ]
- Ribosomal protein es31 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul22 (18 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 10 (20 kDa, RNA from Euglena gracilis)
- Ribosomal protein el39 (6 kDa, Protein from Euglena gracilis)
- Ribosomal protein us13 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul6 (22 kDa, Protein from Euglena gracilis)
- Ribosomal protein el13 (25 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul18 (29 kDa, Protein from Euglena gracilis)
- Ribosomal protein el31 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein el19 (29 kDa, Protein from Euglena gracilis)
- Ribosomal protein us10 (13 kDa, Protein from Euglena gracilis)
- Ribosomal protein us12 (15 kDa, Protein from Euglena gracilis)
- Ribosomal protein el15 (24 kDa, Protein from Euglena gracilis)
- Ribosomal protein el40 (14 kDa, Protein from Euglena gracilis)
- Ribosomal protein us8 (14 kDa, Protein from Euglena gracilis)
- 18s rrna (747 kDa, RNA from Euglena gracilis)
- Ribosomal protein el33 (13 kDa, Protein from Euglena gracilis)
- 60s ribosomal protein l10 (24 kDa, Protein from Euglena gracilis)
- Ribosomal protein es26 (13 kDa, Protein from Euglena gracilis)
- Ribosomal protein el32 (16 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul29 (14 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul24 (16 kDa, Protein from Euglena gracilis)
- E-trna (24 kDa, RNA from Euglena gracilis)
- Lsu rrna chain 7 (240 kDa, RNA from Euglena gracilis)
- Ribosomal protein us4 (22 kDa, Protein from Euglena gracilis)
- Ribosomal protein es10 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein elegr2 (8 kDa, Protein from Euglena gracilis)
- Ribosomal protein el22 (18 kDa, Protein from Euglena gracilis)
- Ribosomal protein us2 (29 kDa, Protein from Euglena gracilis)
- Ribosomal protein us5 (27 kDa, Protein from Euglena gracilis)
- Ribosomal protein us17 (19 kDa, Protein from Euglena gracilis)
- 60s ribosomal protein l7a (32 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 2 (113 kDa, RNA from Euglena gracilis)
- Zinc ion (65 Da, Ligand)
- Ribosomal protein us7 (21 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul13 (24 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 3 (37 kDa, RNA from Euglena gracilis)
- Ribosomal protein el34 (14 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul3 (46 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul30 (28 kDa, Protein from Euglena gracilis)
- Ribosomal protein el30 (12 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul2 (28 kDa, Protein from Euglena gracilis)
- Ribosomal protein es19 (16 kDa, Protein from Euglena gracilis)
- Ribosomal protein es24 (16 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul15 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein el37 (13 kDa, Protein from Euglena gracilis)
- P-trna (24 kDa, RNA from Euglena gracilis)
- Lsu rrna chain 4 (225 kDa, RNA from Euglena gracilis)
- Ribosomal protein el29 (13 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 9 (52 kDa, RNA from Euglena gracilis)
- Ribosomal protein es21 (10 kDa, Protein from Euglena gracilis)
- Ribosomal protein es25 (13 kDa, Protein from Euglena gracilis)
- Ribosomal protein el20 (21 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 1 (42 kDa, RNA from Euglena gracilis)
- Ribosomal protein el27 (15 kDa, Protein from Euglena gracilis)
- Ribosomal protein el24 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein el14 (25 kDa, Protein from Euglena gracilis)
- Ribosomal protein es28 (8 kDa, Protein from Euglena gracilis)
- Ribosomal protein el43 (12 kDa, Protein from Euglena gracilis)
- Ribosomal protein es17 (16 kDa, Protein from Euglena gracilis)
- Ribosomal protein el38 (9 kDa, Protein from Euglena gracilis)
- Ribosomal protein el41 (4 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 11 (30 kDa, RNA from Euglena gracilis)
- Lsu rrna chain 13 (27 kDa, RNA from Euglena gracilis)
- A-trna (24 kDa, RNA from Euglena gracilis)
- Ribosomal protein es1 (28 kDa, Protein from Euglena gracilis)
- Ribosomal protein elegr1 (7 kDa, Protein from Euglena gracilis)
- A-site trna (3 kDa, RNA from Euglena gracilis)
- Lsu rrna chain 5 (170 kDa, RNA from Euglena gracilis)
- Rack1 (34 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul23 (18 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 6 (75 kDa, RNA from Euglena gracilis)
- Ribosomal protein el21 (18 kDa, Protein from Euglena gracilis)
- Ribosomal protein us15 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein us11 (16 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 12 (18 kDa, RNA from Euglena gracilis)
- Ribosomal protein el18 (21 kDa, Protein from Euglena gracilis)
- Ribosomal protein es30 (7 kDa, Protein from Euglena gracilis)
- Ribosomal protein us14 (6 kDa, Protein from Euglena gracilis)
- Ribosomal protein us3 (24 kDa, Protein from Euglena gracilis)
- Ribosomal protein el42 (10 kDa, Protein from Euglena gracilis)
- Ribosomal protein es6 (31 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul5 (21 kDa, Protein from Euglena gracilis)
- Ribosomal protein es27 (9 kDa, Protein from Euglena gracilis)
- 5s rrna (38 kDa, RNA from Euglena gracilis)
- Ribosomal protein ul14 (14 kDa, Protein from Euglena gracilis)
- Ribosomal protein ul4 (41 kDa, Protein from Euglena gracilis)
- Lsu rrna chain 8 (199 kDa, RNA from Euglena gracilis)
- Water (18 Da, Ligand)
- Ribosomal protein elegr3 (7 kDa, Protein from Euglena gracilis)
- Ribosomal protein us19 (17 kDa, Protein from Euglena gracilis)
- 5.8s rrna (52 kDa, RNA from Euglena gracilis)
- Euglena gracilis 80s ribosome (Complex from Euglena gracilis)
- Ribosomal protein eseug1 (32 kDa, Protein from Euglena gracilis)
- Ribosomal protein es8 (35 kDa, Protein from Euglena gracilis)
- Ribosomal protein es12 (15 kDa, Protein from Euglena gracilis)
- Ribosomal protein es7 (22 kDa, Protein from Euglena gracilis)
- Ribosomal protein us9 (17 kDa, Protein from Euglena gracilis)
- Ribosomal protein el6 (22 kDa, Protein from Euglena gracilis)
- Ribosomal protein es4 (31 kDa, Protein from Euglena gracilis)
- Ribosomal protein el36 (12 kDa, Protein from Euglena gracilis)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6gz3
Q-score: 0.365
Flis J, Holm M, Rundlet EJ, Loerke J, Hilal T, Dabrowski M, Burger J, Mielke T, Blanchard SC, Spahn CMT, Budkevich TV
Cell Rep (2018) 25 pp. 2676-2688.e7 [ Pubmed: 30517857 DOI: doi:10.1016/j.celrep.2018.11.040 ]
- Ribosomal protein us19 (14 kDa, Protein from Rabbit)
- Ribosomal protein es17 (14 kDa, Protein from Rabbit)
- Ribosomal protein s28 (7 kDa, Protein from Rabbit)
- Ribosomal protein s11 (17 kDa, Protein from Rabbit)
- Ribosomal protein el40 (5 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l8 (27 kDa, Protein from Rabbit)
- Ribosomal protein rack 1 (34 kDa, Protein from Rabbit)
- Ribosomal protein ul10 (22 kDa, Protein from Rabbit)
- 40s ribosomal protein s7 (20 kDa, Protein from Rabbit)
- Ribosomal protein ul15 (16 kDa, Protein from Rabbit)
- Ribosomal protein ul22 (17 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es27 (9 kDa, Protein from Rabbit)
- Ribosomal protein ul6 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es21 (8 kDa, Protein from Rabbit)
- 60s ribosomal protein l27 (15 kDa, Protein from Rabbit)
- Ribosome (Complex from Oryctolagus cuniculus)
- Ribosomal protein ul30 (27 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el38 (8 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el34 (12 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l10 (predicted) (24 kDa, Protein from Rabbit)
- Ribosomal protein s27a (8 kDa, Protein from Rabbit)
- Ribosomal protein el42 (12 kDa, Protein from Rabbit)
- Ribosomal protein es4 (28 kDa, Protein from Rabbit)
- Zinc ion (65 Da, Ligand)
- Ribosomal protein s9 (predicted) (21 kDa, Protein from Rabbit)
- Ribosomal protein el43 (10 kDa, Protein from Rabbit)
- Ribosomal protein l15 (24 kDa, Protein from Rabbit)
- 28s ribosomal rna (1 MDa, RNA from Rabbit)
- 40s ribosomal protein s12 (13 kDa, Protein from Rabbit)
- Ribosomal protein ul4 (41 kDa, Protein from Rabbit)
- Ribosomal protein el8 (26 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s23 (15 kDa, Protein from Rabbit)
- Ribosomal protein el24 (14 kDa, Protein from Rabbit)
- Ribosomal protein us9 (15 kDa, Protein from Rabbit)
- Ribosomal protein es25 (9 kDa, Protein from Rabbit)
- Ribosomal protein es26 (11 kDa, Protein from Rabbit)
- Ribosomal protein el21 (18 kDa, Protein from Rabbit)
- Ribosomal protein l23 (13 kDa, Protein from Rabbit)
- Ribosomal protein el39 (6 kDa, Protein from Rabbit)
- Ribosomal protein us11 (14 kDa, Protein from Rabbit)
- 5.8s ribosomal rna (50 kDa, RNA from Rabbit)
- Ribosomal protein el13 (23 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l12 (16 kDa, Protein from Rabbit)
- Ribosomal protein el20 (20 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es24 (14 kDa, Protein from Rabbit)
- Ribosomal protein us13 (16 kDa, Protein from Rabbit)
- 18s ribosomal rna (551 kDa, RNA from Rabbit)
- Ap/p-site trna (24 kDa, RNA from Rabbit)
- Ribosomal protein (24 kDa, Protein from Rabbit)
- 40s ribosomal protein s6 (26 kDa, Protein from Rabbit)
- Ribosomal protein el14 (16 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us3 (24 kDa, Protein from Rabbit)
- Ribosomal protein us14 (6 kDa, Protein from Rabbit)
- Trna (Complex from Saccharomyces cerevisiae)
- Ribosomal protein el29 (7 kDa, Protein from Rabbit)
- Ribosomal protein ul29 (14 kDa, Protein from Oryctolagus cuniculus)
- Eukaryotic elongation factor 2 (eef2) (95 kDa, Protein from Rabbit)
- Ribosomal protein el18 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es8 (24 kDa, Protein from Rabbit)
- Ribosomal protein l37 (9 kDa, Protein from Rabbit)
- Ribosomal protein el6 (22 kDa, Protein from Rabbit)
- Ribosomal protein es30 (6 kDa, Protein from Rabbit)
- Ribosomal protein ul3 (45 kDa, Protein from Rabbit)
- Ribosomal protein us5 (24 kDa, Protein from Rabbit)
- Ribosomal protein el32 (15 kDa, Protein from Rabbit)
- Ribosomal protein el19 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el30 (11 kDa, Protein from Rabbit)
- Mrna (3 kDa, RNA from Enterobacteria phage SP6)
- Ribosomal protein el36 (11 kDa, Protein from Rabbit)
- 40s ribosomal protein s3a (24 kDa, Protein from Rabbit)
- Pe/e-site-trna (24 kDa, RNA from Saccharomyces cerevisiae)
- Ribosomal protein es10 (11 kDa, Protein from Rabbit)
- Ribosomal protein us10 (11 kDa, Protein from Rabbit)
- Ribosomal protein l26 (15 kDa, Protein from Rabbit)
- Ribosomal protein ul13 (22 kDa, Protein from Oryctolagus cuniculus)
- Mrna (Complex from Enterobacteria phage SP6)
- Ribosomal protein el33 (12 kDa, Protein from Rabbit)
- Ribosomal protein us15 (17 kDa, Protein from Rabbit)
- Translocation intermediate ti-post-1 (4 MDa, Complex)
- Ribosomal protein es19 (15 kDa, Protein from Rabbit)
- Ribosomal protein l11 (19 kDa, Protein from Rabbit)
- Ribosomal protein s5 (21 kDa, Protein from Rabbit)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Ribosomal protein el28 (13 kDa, Protein from Rabbit)
- Ribosomal protein ul18 (34 kDa, Protein from Rabbit)
- Ribosomal protein s15a (14 kDa, Protein from Rabbit)
- Ribosomal protein us2 (24 kDa, Protein from Rabbit)
- Ribosomal protein el31 (12 kDa, Protein from Rabbit)
- Magnesium ion (24 Da, Ligand)
- Ribosomal protein ul23 (13 kDa, Protein from Rabbit)
- Ribosomal protein el22 (11 kDa, Protein from Oryctolagus cuniculus)
- 5s ribosomal rna (38 kDa, RNA from Rabbit)
- Ribosomal protein el41 (3 kDa, Protein from Oryctolagus cuniculus)
Structure of a prehandover mammalian ribosomal SRP and SRP receptor targeting complex
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6frk
Q-score: 0.363
Kobayashi K, Jomaa A, Lee JH, Chandrasekar S, Boehringer D, Shan SO, Ban N
Science (2018) 360 pp. 323-327 [ Pubmed: 29567807 DOI: doi:10.1126/science.aar7924 ]
- Ribosomal protein el34 (12 kDa, Protein from Rabbit)
- Ribosomal protein el41 (3 kDa, Protein from Rabbit)
- Ribosomal protein ul5 (19 kDa, Protein from Rabbit)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Signal recognition particle subunit srp72,signal recognition particle subunit srp72,signal recognition particle subunit srp72 (67 kDa, Protein from Dog)
- Ribosomal protein el43 (10 kDa, Protein from Rabbit)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Ribosomal protein el21 (18 kDa, Protein from Rabbit)
- Ribosomal protein el13 (24 kDa, Protein from Rabbit)
- Ribosomal protein ul13 (23 kDa, Protein from Rabbit)
- Srp (Complex from Canis lupus familiaris)
- Ribosomal protein el38 (8 kDa, Protein from Rabbit)
- Signal recognition particle subunit srp19 (12 kDa, Protein from Dog)
- Ribosome (Complex from Oryctolagus cuniculus)
- Ribosomal protein el42 (12 kDa, Protein from Rabbit)
- Signal recognition particle 14 kda protein (12 kDa, Protein from Dog)
- Ribosomal protein ul24 (15 kDa, Protein from Rabbit)
- Canis lupus familiaris rna, 7sl, cytoplasmic 1 (rn7sl1), srp rna (96 kDa, RNA from Canis lupus familiaris)
- Ribosomal protein ul18 (33 kDa, Protein from Rabbit)
- Ribosomal protein el30 (10 kDa, Protein from Rabbit)
- Ribosomal protein el6 (27 kDa, Protein from Rabbit)
- Ribosomal protein l12 (17 kDa, Protein from Rabbit)
- 5.8s ribosomal rna (50 kDa, RNA from Rabbit)
- Ribosomal protein el31 (12 kDa, Protein from Rabbit)
- Ribosomal protein ul4 (41 kDa, Protein from Rabbit)
- Ribosomal protein el20 (20 kDa, Protein from Rabbit)
- Ribosomal protein ul6 (21 kDa, Protein from Rabbit)
- Ribosomal protein ul30 (26 kDa, Protein from Rabbit)
- Ribosomal protein el14 (16 kDa, Protein from Rabbit)
- Signal sequence (Complex from Saccharomyces cerevisiae)
- Signal recognition particle subunit srp68 (65 kDa, Protein from Dog)
- Translating ribosome bound to srp and srp receptor (Complex)
- Ribosomal protein el18 (21 kDa, Protein from Rabbit)
- 60s ribosomal protein l27 (15 kDa, Protein from Rabbit)
- Ribosomal protein el32 (15 kDa, Protein from Rabbit)
- Ribosomal protein el22 (11 kDa, Protein from Rabbit)
- Ribosomal protein l8 (26 kDa, Protein from Rabbit)
- Ribosomal protein ul22 (17 kDa, Protein from Rabbit)
- Ribosomal protein el36 (11 kDa, Protein from Rabbit)
- Ribosomal protein ul23 (13 kDa, Protein from Rabbit)
- Signal sequence (1 kDa, Protein from Saccharomyces cerevisiae)
- Ribosomal protein el8 (27 kDa, Protein from Rabbit)
- Ribosomal protein ul3 (44 kDa, Protein from Rabbit)
- 5s ribosomal rna (38 kDa, RNA from Rabbit)
- Ribosomal protein l23 (13 kDa, Protein from Rabbit)
- 60s ribosomal protein l29 (8 kDa, Protein from Rabbit)
- Srp receptor beta subunit (23 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el28 (14 kDa, Protein from Rabbit)
- Ribosomal protein ul16 (24 kDa, Protein from Rabbit)
- Signal recognition particle 54 kda protein (55 kDa, Protein from Dog)
- Trna (24 kDa, RNA from Rabbit)
- Ribosomal protein ul29 (14 kDa, Protein from Rabbit)
- Ribosomal protein el39 (6 kDa, Protein from Rabbit)
- Signal recognition particle 9 kda protein (8 kDa, Protein from Dog)
- Ribosomal protein el33 (12 kDa, Protein from Rabbit)
- 28s ribosomal rna (1 MDa, RNA from Rabbit)
- Ribosomal protein l37 (10 kDa, Protein from Rabbit)
- Zinc ion (65 Da, Ligand)
- Ribosomal protein el40 (6 kDa, Protein from Rabbit)
- Ribosomal protein el24 (7 kDa, Protein from Rabbit)
- Srp receptor (Complex from Oryctolagus cuniculus)
- 60s acidic ribosomal protein p0 (22 kDa, Protein from Rabbit)
- Magnesium ion (24 Da, Ligand)
- Ribosomal protein ul15 (16 kDa, Protein from Rabbit)
- Ribosomal protein l15 (24 kDa, Protein from Rabbit)
- Srp receptor alpha subunit (72 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el19 (21 kDa, Protein from Rabbit)