Nonstop ribosomal complex bound with Dom34 and Hbs1
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 5m1j
Q-score: 0.45
Hilal T, Yamamoto H, Loerke J, Burger J, Mielke T, Spahn CM
Nat Commun (2016) 7 pp. 13521-13521 [ DOI: doi:10.1038/ncomms13521 Pubmed: 27995908 ]
- 60s ribosomal protein l15-a (24 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l13-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l43-b (9 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l38 (8 kDa, Protein from Saccharomyces cerevisiae)
- 5.8s ribosomal rna (50 kDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l5 (33 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s13 (16 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l29 (6 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s6-a (25 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s21-a (9 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l37-a (9 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l11-a (19 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l9-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l17-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l3 (43 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l18-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s5 (22 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l28 (16 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l41-b (3 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l20-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s9-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l34-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae)
- 25s ribosomal rna (1 MDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l25 (13 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l27-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s2 (23 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Ubiquitin-40s ribosomal protein s31 (8 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l36-a (11 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l14-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l19-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s0-a (22 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s3 (24 kDa, Protein from Saccharomyces cerevisiae)
- Yeast phe-trna-phe (24 kDa, RNA from Saccharomyces cerevisiae)
- 40s ribosomal protein s19-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s25-a (8 kDa, Protein from Saccharomyces cerevisiae)
- Ubiquitin-60s ribosomal protein l40 (6 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s23-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l31-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s18-a (16 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l26-a (14 kDa, Protein from Saccharomyces cerevisiae)
- Nonstop ribosomal complex bound with dom34-hbs1-gmppnp (3 MDa, Complex)
- 60s ribosomal protein l23-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l35-a (13 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s15 (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l32 (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l8-a (25 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s14-a (13 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s17-b (14 kDa, Protein from Saccharomyces cerevisiae)
- Protein dom34 (43 kDa, Protein from Saccharomyces cerevisiae)
- Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l4-a (39 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l21-a (18 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s29-a (6 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s28-b (7 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l7-a (25 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l2-a (27 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s10-a (11 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae)
- N-acetyl-l-phenylalanine (207 Da, Ligand)
- 40s ribosomal protein s20 (12 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s30-a (6 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s1-a (24 kDa, Protein from Saccharomyces cerevisiae)
- 5s ribosomal rna (38 kDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l10 (25 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l30 (10 kDa, Protein from Saccharomyces cerevisiae)
- Nonstop mrna (6 kDa, RNA from synthetic construct)
- Protein hbs1 (68 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l42-b (12 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l6-a (19 kDa, Protein from Saccharomyces cerevisiae)
- Water (18 Da, Ligand)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- 60s ribosomal protein l33-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l16-a (22 kDa, Protein from Saccharomyces cerevisiae)
- 18s ribosomal rna (579 kDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l39 (6 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l24-a (11 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s12 (13 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s26-b (11 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l22-a (11 kDa, Protein from Saccharomyces cerevisiae)
Mammalian 80S HCV-IRES complex, Classical
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 5flx
Q-score: 0.261
Yamamoto H, Collier M, Loerke J, Ismer J, Schmidt A, Hilal T, Sprink T, Yamamoto K, Mielke T, Burger J, Shaikh TR, Dabrowski M, Hildebrand PW, Scheerer P, Spahn CMT
EMBO J (2015) 34 pp. 3042-3058 [ DOI: doi:10.15252/embj.201592469 Pubmed: 26604301 ]
- 80s ribosome (4 MDa, Complex from Oryctolagus cuniculus)
- Mammalian 80s-hcv-ires complex, classical (4 MDa, Sample)
- Hcv-ires (162 kDa, RNA from Hepatitis C virus)
Mammalian 80S HCV-IRES complex, Classical / no head tilt
Yamamoto H, Collier M, Loerke J, Ismer J, Schmidt A, Hilal T, Sprink T, Yamamoto K, Mielke T, Burger J, Shaikh TR, Dabrowski M, Hildebrand PW, Scheerer P, Spahn CMT
EMBO J (2015) 34 pp. 3042-3058 [ DOI: doi:10.15252/embj.201592469 Pubmed: 26604301 ]
- Mammalian 80s hcv-ires complex, classical / no head tilt (4 MDa, Sample)
- 80s ribosome (4 MDa, Complex from Oryctolagus cuniculus)
- Trna (2 kDa, RNA from Oryctolagus cuniculus)
- Hcv-ires (162 kDa, RNA from Hepatitis C virus)
Mammalian 40S HCV-IRES complex
Yamamoto H, Collier M, Loerke J, Ismer J, Schmidt A, Hilal T, Sprink T, Yamamoto K, Mielke T, Burger J, Shaikh TR, Dabrowski M, Hildebrand PW, Scheerer P, Spahn CMT
EMBO J (2015) 34 pp. 3042-3058 [ DOI: doi:10.15252/embj.201592469 Pubmed: 26604301 ]
- 40s ribosome (1 MDa, Complex from Oryctolagus cuniculus)
- Mammalian 40s-hcv-ires complex (1 MDa, Sample)
- Hcv-ires (162 kDa, RNA from Hepatitis C virus)
Mammalian 80S HCV-IRES complex, Rolled
Yamamoto H, Collier M, Loerke J, Ismer J, Schmidt A, Hilal T, Sprink T, Yamamoto K, Mielke T, Burger J, Shaikh TR, Dabrowski M, Hildebrand PW, Scheerer P, Spahn CMT
EMBO J (2015) 34 pp. 3042-3058 [ DOI: doi:10.15252/embj.201592469 Pubmed: 26604301 ]
- 80s ribosome (4 MDa, Complex from Oryctolagus cuniculus)
- Mammalian 80s hcv-ires complex, rotated (4 MDa, Sample)
- Hcv-ires (162 kDa, RNA from Hepatitis C virus)
Mammalian 80S HCV-IRES complex, Rotated
Yamamoto H, Collier M, Loerke J, Ismer J, Schmidt A, Hilal T, Sprink T, Yamamoto K, Mielke T, Burger J, Shaikh TR, Dabrowski M, Hildebrand PW, Scheerer P, Spahn CMT
EMBO J (2015) 34 pp. 3042-3058 [ DOI: doi:10.15252/embj.201592469 Pubmed: 26604301 ]
- 80s ribosome (4 MDa, Complex from Oryctolagus cuniculus)
- Mammalian 80s hcv-ires complex, rotated (4 MDa, Sample)
- Hcv-ires (162 kDa, RNA from Hepatitis C virus)
Mammalian 80S-HCV-IRES initiation complex with eIF5B PRE-like state
Resolution: 8.9 Å
EM Method: Single-particle
Fitted PDBs: 4ujd
Q-score: 0.14
Yamamoto H, Unbehaun A, Loerke J, Behrmann E, Collier M, Burger J, Mielke T, Spahn CMT
Nat Struct Mol Biol (2014) 21 pp. 721-727 [ DOI: doi:10.1038/NSMB.2859 Pubmed: 25064512 ]
- 80s ribosome (4 MDa, Complex from Oryctolagus cuniculus)
- Mammalian translation initiation 80s hcv-ires complex with eif5b; pre-like state (4 MDa, Sample)
- Trna (2 kDa, RNA from Oryctolagus cuniculus)
- Hcv-ires (162 kDa, RNA from Hepatitis C virus)
- Eif5b (160 kDa, Protein from Oryctolagus cuniculus)
Mammalian 80S-HCV-IRES initiation complex with eIF5B POST-like state
Resolution: 9.5 Å
EM Method: Single-particle
Fitted PDBs: 4ujc
Q-score: 0.14
Yamamoto H, Unbehaun A, Loerke J, Behrmann E, Collier M, Burger J, Mielke T, Spahn CMT
Nat Struct Mol Biol (2014) 21 pp. 721-727 [ DOI: doi:10.1038/NSMB.2859 Pubmed: 25064512 ]
- 80s ribosome (4 MDa, Complex from Oryctolagus cuniculus)
- Mammalian translation initiation 80s hcv-ires complex with eif5b; post-like state (4 MDa, Sample)
- Trna (2 kDa, RNA from Oryctolagus cuniculus)
- Hcv-ires (162 kDa, RNA from Hepatitis C virus)
- Eif5b (160 kDa, Protein from Oryctolagus cuniculus)