Resolution: 3.12 Å
EM Method: Single-particle
Fitted PDBs: 8f2r
Q-score: 0.381
Healy MD, McNally KE, Butkovic R, Chilton M, Kato K, Sacharz J, McConville C, Moody ERR, Shaw S, Planelles-Herrero VJ, Yadav SKN, Ross J, Borucu U, Palmer CS, Chen KE, Croll TI, Hall RJ, Caruana NJ, Ghai R, Nguyen THD, Heesom KJ, Saitoh S, Berger I, Schaffitzel C, Williams TA, Stroud DA, Derivery E, Collins BM, Cullen PJ
Cell (2023) 186 pp. 2219-2237.e29 [ DOI: doi:10.1016/j.cell.2023.04.003 Pubmed: 37172566 ]
- Comm domain-containing protein 3 (22 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 2 (22 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 10 (22 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 9 (21 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 4 (21 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 5 (22 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 7 (22 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 1 (20 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 6 (8 kDa, Protein from Homo sapiens)
- Human ccc complex (Complex from Homo sapiens)
- Comm domain-containing protein 8 (20 kDa, Protein from Homo sapiens)
Resolution: 3.53 Å
EM Method: Single-particle
Fitted PDBs: 8f2u
Q-score: 0.408
Healy MD, McNally KE, Butkovic R, Chilton M, Kato K, Sacharz J, McConville C, Moody ERR, Shaw S, Planelles-Herrero VJ, Yadav SKN, Ross J, Borucu U, Palmer CS, Chen KE, Croll TI, Hall RJ, Caruana NJ, Ghai R, Nguyen THD, Heesom KJ, Saitoh S, Berger I, Schaffitzel C, Williams TA, Stroud DA, Derivery E, Collins BM, Cullen PJ
Cell (2023) 186 pp. 2219-2237.e29 [ DOI: doi:10.1016/j.cell.2023.04.003 Pubmed: 37172566 ]
- Comm domain-containing protein 3 (22 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 2 (22 kDa, Protein from Homo sapiens)
- Coiled-coil domain-containing protein 22 (70 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 6 (9 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 9 (21 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 4 (21 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 5 (28 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 7 (22 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 10 (24 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 1 (21 kDa, Protein from Homo sapiens)
- Comm domain-containing protein 8 (21 kDa, Protein from Homo sapiens)
- Coiled-coil domain-containing protein 93 (73 kDa, Protein from Homo sapiens)
- Human ccc complex (Complex from Homo sapiens)
SARS CoV Spike protein, Open conformation
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7zh5
Q-score: 0.529
Toelzer C, Gupta K, Yadav SKN, Hodgson L, Williamson MK, Buzas D, Borucu U, Powers K, Stenner R, Vasileiou K, Garzoni F, Fitzgerald D, Payre C, Gautam G, Lambeau G, Davidson AD, Verkade P, Frank M, Berger I, Schaffitzel C
Sci Adv (2022) 8 pp. eadc9179-eadc9179 [ DOI: doi:10.1126/sciadv.adc9179 Pubmed: 36417532 ]
SARS CoV-2 Spike protein, Bristol UK Deletion variant, Closed conformation, C1 symmetry
Resolution: 3.03 Å
EM Method: Single-particle
Fitted PDBs: 7odl
Q-score: 0.595
Gupta K, Toelzer C, Williamson MK, Shoemark DK, Oliveira ASF, Matthews DA, Almuqrin A, Staufer O, Yadav SKN, Borucu U, Garzoni F, Fitzgerald D, Spatz J, Mulholland AJ, Davidson AD, Schaffitzel C, Berger I
Nat Commun (2022) 13 pp. 222-222 [ Pubmed: 35017512 DOI: doi:10.1038/s41467-021-27881-6 ]
- Sars cov-2 spike protein, bristol uk deletion variant, closed conformation, c1 symmetry (Complex from Severe acute respiratory syndrome coronavirus 2)
- Linoleic acid (280 Da, Ligand)
- Spike glycoprotein (140 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Mammalian pre-termination 80S ribosome with Hybrid P/E- and A/P-site tRNA's bound by Blasticidin S.
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7nwg
Q-score: 0.406
Powers KT, Stevenson-Jones F, Yadav SKN, Amthor B, Bufton JC, Borucu U, Shen D, Becker JP, Lavysh D, Hentze MW, Kulozik AE, Neu-Yilik G, Schaffitzel C
Nucleic Acids Res (2021) 49 pp. 7665-7679 [ Pubmed: 34157102 DOI: doi:10.1093/nar/gkab532 ]
- L18 (21 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s27 (9 kDa, Protein from Oryctolagus cuniculus)
- A/p-site trna (23 kDa, RNA from Oryctolagus cuniculus)
- El14 (13 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l15 (24 kDa, Protein from Oryctolagus cuniculus)
- Sec61beta (1 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l14 (23 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l37 (11 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s21 (9 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s16 (17 kDa, Protein from Oryctolagus cuniculus)
- Ul22 (23 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s3a (29 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein (24 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s20 (14 kDa, Protein from Oryctolagus cuniculus)
- P/e-site trna (24 kDa, RNA from Oryctolagus cuniculus)
- 40s ribosomal protein us19 (17 kDa, Protein from Oryctolagus cuniculus)
- El29 (26 kDa, Protein from Oryctolagus cuniculus)
- S19 (16 kDa, Protein from Oryctolagus cuniculus)
- 60s acidic ribosomal protein p0 (34 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s3 (31 kDa, Protein from Oryctolagus cuniculus)
- Us11 (18 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s23 (15 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l5 (34 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l34 (14 kDa, Protein from Oryctolagus cuniculus)
- L8 (26 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el43 (12 kDa, Protein from Oryctolagus cuniculus)
- Ul4 (47 kDa, Protein from Oryctolagus cuniculus)
- Us14 (6 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s8 (24 kDa, Protein from Oryctolagus cuniculus)
- Es31 (7 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s15a (15 kDa, Protein from Oryctolagus cuniculus)
- Ul15 (17 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l36 (13 kDa, Protein from Oryctolagus cuniculus)
- El31 (12 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s10 (17 kDa, Protein from Oryctolagus cuniculus)
- Ul23 (17 kDa, Protein from Oryctolagus cuniculus)
- 5s ribosomal rna (38 kDa, RNA from Oryctolagus cuniculus)
- El32 (15 kDa, Protein from Oryctolagus cuniculus)
- Ul12 (21 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l19 (23 kDa, Protein from Oryctolagus cuniculus)
- El42 (16 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s9 (22 kDa, Protein from Oryctolagus cuniculus)
- El28 (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein us13 (17 kDa, Protein from Oryctolagus cuniculus)
- 18s ribosomal rna (586 kDa, RNA from Oryctolagus cuniculus)
- 60s ribosomal protein l6 (33 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l24-like protein (15 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es7 (21 kDa, Protein from Oryctolagus cuniculus)
- 5.8s ribosomal rna (48 kDa, RNA from Oryctolagus cuniculus)
- 60s ribosomal protein el40 (14 kDa, Protein from Oryctolagus cuniculus)
- 28s ribosomal rna (1 MDa, RNA from Oryctolagus cuniculus)
- 40s ribosomal protein s6 (30 kDa, Protein from Oryctolagus cuniculus)
- Mrna (5 kDa, RNA from Oryctolagus cuniculus)
- 60s ribosomal protein l41 (3 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein ul13 (23 kDa, Protein from Oryctolagus cuniculus)
- L22 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es25 (22 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s11 (18 kDa, Protein from Oryctolagus cuniculus)
- Ul3 (46 kDa, Protein from Oryctolagus cuniculus)
- Zinc ion (65 Da, Ligand)
- L13 (24 kDa, Protein from Oryctolagus cuniculus)
- Ul29 (14 kDa, Protein from Oryctolagus cuniculus)
- El21 (18 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s17 (16 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein rack1 (34 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein sa (32 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us15 (17 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s24 (17 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s26 (13 kDa, Protein from Oryctolagus cuniculus)
- L9 (21 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l27 (15 kDa, Protein from Oryctolagus cuniculus)
- L38 (8 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s12 (13 kDa, Protein from Oryctolagus cuniculus)
- Blasticidin s (422 Da, Ligand)
- Ribosomal protein l26 (15 kDa, Protein from Oryctolagus cuniculus)
- El30 (12 kDa, Protein from Oryctolagus cuniculus)
- El39 (6 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l18a (20 kDa, Protein from Oryctolagus cuniculus)
- Ul30 (29 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s28 (7 kDa, Protein from Oryctolagus cuniculus)
- S4 (29 kDa, Protein from Oryctolagus cuniculus)
- El33 (12 kDa, Protein from Oryctolagus cuniculus)
- Mammalian pre-termination 80s ribosome with hybrid-p/e and -a/p site trnas bound by blasticidin s. (3 MDa, Complex from Oryctolagus cuniculus)
- 40s ribosomal protein s30 (14 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s2 (27 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s5 (23 kDa, Protein from Oryctolagus cuniculus)
- Magnesium ion (24 Da, Ligand)
- L7a (27 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l11 (20 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l10 (24 kDa, Protein from Oryctolagus cuniculus)
Mammalian pre-termination 80S ribosome with Empty-A site bound by Blasticidin S
Resolution: 3.13 Å
EM Method: Single-particle
Fitted PDBs: 7nwi
Q-score: 0.5
Powers KT, Stevenson-Jones F, Yadav SKN, Amthor B, Bufton JC, Borucu U, Shen D, Becker JP, Lavysh D, Hentze MW, Kulozik AE, Neu-Yilik G, Schaffitzel C
Nucleic Acids Res (2021) 49 pp. 7665-7679 [ DOI: doi:10.1093/nar/gkab532 Pubmed: 34157102 ]
- 60s ribosomal protein l5 (34 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l7a (27 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s8 (24 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l14 (23 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l26 (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s11 (18 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s15a (15 kDa, Protein from Oryctolagus cuniculus)
- 5.8s ribosomal rna (50 kDa, RNA from Oryctolagus cuniculus)
- 40s ribosomal protein s9 (22 kDa, Protein from Oryctolagus cuniculus)
- Blasticidin s (422 Da, Ligand)
- El14 (13 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l4 (47 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s28 (7 kDa, Protein from Oryctolagus cuniculus)
- El28 (15 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l22 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s23 (15 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l15 (24 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s27 (9 kDa, Protein from Oryctolagus cuniculus)
- L13 (24 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l19 (23 kDa, Protein from Oryctolagus cuniculus)
- El33 (12 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein es7 (21 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s12 (13 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l6 (33 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l40 (14 kDa, Protein from Oryctolagus cuniculus)
- El31 (12 kDa, Protein from Oryctolagus cuniculus)
- L9 (21 kDa, Protein from Oryctolagus cuniculus)
- L38 (8 kDa, Protein from Oryctolagus cuniculus)
- L8 (26 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s26 (13 kDa, Protein from Oryctolagus cuniculus)
- Sec61beta (1 kDa, Protein from Oryctolagus cuniculus)
- L13a (23 kDa, Protein from Oryctolagus cuniculus)
- Zinc ion (65 Da, Ligand)
- Ribosomal protein us14 (6 kDa, Protein from Oryctolagus cuniculus)
- S10_plectin domain-containing protein (11 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l41 (3 kDa, Protein from Oryctolagus cuniculus)
- El32 (15 kDa, Protein from Oryctolagus cuniculus)
- 28s ribosomal rna+blas (1 MDa, RNA from Oryctolagus cuniculus)
- 60s ribosomal protein l36 (13 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein rack1 (34 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein us19 (17 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l24-like protein (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein sa (32 kDa, Protein from Oryctolagus cuniculus)
- S14 (18 kDa, Protein from Oryctolagus cuniculus)
- Ul3 (46 kDa, Protein from Oryctolagus cuniculus)
- S19 (15 kDa, Protein from Oryctolagus cuniculus)
- Rps16 protein (17 kDa, Protein from Oryctolagus cuniculus)
- Low quality protein: 60s ribosomal protein l36a (16 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s25 (13 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s3a (29 kDa, Protein from Oryctolagus cuniculus)
- El30 (12 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el39 (6 kDa, Protein from Oryctolagus cuniculus)
- Ul30 (29 kDa, Protein from Oryctolagus cuniculus)
- S4 (29 kDa, Protein from Oryctolagus cuniculus)
- S27a (7 kDa, Protein from Oryctolagus cuniculus)
- El21 (18 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l37 (11 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el43 (10 kDa, Protein from Oryctolagus cuniculus)
- 5s ribosomal rna (38 kDa, RNA from Oryctolagus cuniculus)
- Ribosomal_l18e/l15p domain-containing protein (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s5 (23 kDa, Protein from Oryctolagus cuniculus)
- Ul23 (17 kDa, Protein from Oryctolagus cuniculus)
- L18a (20 kDa, Protein from Oryctolagus cuniculus)
- L17 (17 kDa, Protein from Oryctolagus cuniculus)
- S17 (14 kDa, Protein from Oryctolagus cuniculus)
- Ul15 (17 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us15 (17 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l10 (24 kDa, Protein from Oryctolagus cuniculus)
- L12 (17 kDa, Protein from Oryctolagus cuniculus)
- 18s ribosomal rna (573 kDa, RNA from Oryctolagus cuniculus)
- Ribosomal_s10 domain-containing protein (11 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l29 (26 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s24 (17 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l27 (15 kDa, Protein from Oryctolagus cuniculus)
- S21 (9 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s30 (14 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l34 (14 kDa, Protein from Oryctolagus cuniculus)
- 60s acidic ribosomal protein p0 (34 kDa, Protein from Oryctolagus cuniculus)
- Ul29 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l11 (20 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s3 (31 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us13 (16 kDa, Protein from Oryctolagus cuniculus)
- Mrna (3 kDa, RNA from Oryctolagus cuniculus)
- 40s ribosomal protein s2 (27 kDa, Protein from Oryctolagus cuniculus)
- P-site trna (24 kDa, RNA from Oryctolagus cuniculus)
- 40s ribosomal protein s6 (30 kDa, Protein from Oryctolagus cuniculus)
- Magnesium ion (24 Da, Ligand)
- Mammalian pre-termination 80s ribosome with empty-a site bound by blasticidin s (3 MDa, Complex from Oryctolagus cuniculus)
SARS CoV-2 Spike protein, Closed conformation, C1 symmetry
Resolution: 3.03 Å
EM Method: Single-particle
Fitted PDBs: 6zb4
Q-score: 0.587
Toelzer C, Gupta K, Yadav SKN, Borucu U, Davidson AD, Kavanagh Williamson M, Shoemark DK, Garzoni F, Staufer O, Milligan R, Capin J, Mulholland AJ, Spatz J, Fitzgerald D, Berger I, Schaffitzel C
Science (2020) 370 pp. 725-730 [ Pubmed: 32958580 DOI: doi:10.1126/science.abd3255 ]
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars cov-2 spike protein, closed conformation, c1 symmetry (540 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Linoleic acid (280 Da, Ligand)
SARS CoV-2 Spike protein, Open conformation
Toelzer C, Gupta K, Yadav SKN, Borucu U, Davidson AD, Kavanagh Williamson M, Shoemark DK, Garzoni F, Staufer O, Milligan R, Capin J, Mulholland AJ, Spatz J, Fitzgerald D, Berger I, Schaffitzel C
Science (2020) 370 pp. 725-730 [ Pubmed: 32958580 DOI: doi:10.1126/science.abd3255 ]
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6hcr
Q-score: 0.518
Vragniau C, Bufton JC, Garzoni F, Stermann E, Rabi F, Terrat C, Guidetti M, Josserand V, Williams M, Woods CJ, Viedma G, Bates P, Verrier B, Chaperot L, Schaffitzel C, Berger I, Fender P
Sci Adv (2019) 5 pp. eaaw2853-eaaw2853 [ Pubmed: 31620562 DOI: doi:10.1126/sciadv.aaw2853 ]