Structure of a yeast ABCE1-bound 43S pre-initiation complex
Resolution: 5.3 Å
EM Method: Single-particle
Fitted PDBs: 6zce
Q-score: 0.231
Kratzat H, Mackens-Kiani T, Ameismeier M, Potocnjak M, Cheng J, Dacheux E, Namane A, Berninghausen O, Herzog F, Fromont-Racine M, Becker T, Beckmann R
EMBO J (2021) 40 pp. e105179-e105179 [ Pubmed: 33289941 DOI: doi:10.15252/embj.2020105179 ]
- 40s ribosomal protein s0-a (28 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s17-a (15 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s4-a (29 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s23-a (16 kDa, Protein from Baker's yeast)
- Zinc ion (65 Da, Ligand)
- Abce1-bound 43s initiation complex (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Eukaryotic translation initiation factor 3 subunit i (38 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s12 (15 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s3 (26 kDa, Protein from Baker's yeast)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Translation initiation factor rli1 (68 kDa, Protein from Baker's yeast)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s5 (25 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s15 (15 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s7-a (21 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s6-a (27 kDa, Protein from Baker's yeast)
- Eukaryotic translation initiation factor 3 subunit j (29 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s2 (27 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s9-a (22 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s18-a (17 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s19-a (15 kDa, Protein from Baker's yeast)
- Eukaryotic translation initiation factor 3 subunit c (93 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s26-a (13 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s11-a (17 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s13 (17 kDa, Protein from Baker's yeast)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- 18s ribosomal rna (1719-mer) (579 kDa, RNA from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Iron/sulfur cluster (351 Da, Ligand)
- 40s ribosomal protein s22-a (14 kDa, Protein from Baker's yeast)
- Eukaryotic translation initiation factor 3 subunit g (30 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s8-a (22 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s14-a (14 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s1-a (28 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s16-a (15 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s20 (13 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s25-a (12 kDa, Protein from Baker's yeast)
- Rna recognition motif (unknown) (5 kDa, Protein from Saccharomyces cerevisiae S288C)
- 40s ribosomal protein s27-a (8 kDa, Protein from Baker's yeast)
- Eukaryotic translation initiation factor eif-1 (12 kDa, Protein from Baker's yeast)
- Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Baker's yeast)
- Eukaryotic translation initiation factor 3 subunit a (110 kDa, Protein from Baker's yeast)
- Ubiquitin-40s ribosomal protein s31 (17 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s24-a (15 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s28-b (7 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s29-a (6 kDa, Protein from Baker's yeast)
- Eukaryotic translation initiation factor 3 subunit b (88 kDa, Protein from Baker's yeast)
- Eukaryotic translation initiation factor 1a (17 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s30-a (7 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s10-a (12 kDa, Protein from Baker's yeast)
- 40s ribosomal protein s21-a (9 kDa, Protein from Baker's yeast)
Resolution: 5.3 Å
EM Method: Single-particle
Fitted PDBs: 6i7o
Q-score: 0.212
Ikeuchi K, Tesina P, Matsuo Y, Sugiyama T, Cheng J, Saeki Y, Tanaka K, Becker T, Beckmann R, Inada T
EMBO J (2019) 38 [ Pubmed: 30609991 DOI: doi:10.15252/embj.2018100276 ]
- 18s ribosomal rna (579 kDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l21-a (18 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l10 (25 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l4-a (39 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l7-a (25 kDa, Protein from Saccharomyces cerevisiae)
- P-site trna (24 kDa, RNA from Saccharomyces cerevisiae)
- 40s ribosomal protein s3 (24 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s17-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s6-a (24 kDa, Protein from Saccharomyces cerevisiae)
- E-site trna (24 kDa, RNA from Saccharomyces cerevisiae)
- 40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l31-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s10-a (11 kDa, Protein from Saccharomyces cerevisiae)
- Cryo-em structure of a native stalled di-ribosome (disome) complex from s. cerevisiae (Complex from Saccharomyces cerevisiae)
- 40s ribosomal protein s2 (23 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s30-a (6 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s15 (13 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l14-a (15 kDa, Protein from Saccharomyces cerevisiae)
- A/p hybrid trna (24 kDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l27-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l8-a (25 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l5 (33 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l23-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l34-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 25s ribosomal rna (1 MDa, RNA from Saccharomyces cerevisiae)
- 40s ribosomal protein s21-a (9 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s1-a (24 kDa, Protein from Saccharomyces cerevisiae)
- Ubiquitin-60s ribosomal protein l40 (6 kDa, Protein from Saccharomyces cerevisiae)
- 5.8s ribosomal rna (50 kDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l3 (43 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l16-a (22 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l26-a (13 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s11-a (16 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l15-a (24 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l2-a (27 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s12 (13 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l32 (14 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s5 (22 kDa, Protein from Saccharomyces cerevisiae)
- 5s ribosomal rna (38 kDa, RNA from Saccharomyces cerevisiae)
- 40s ribosomal protein s26-b (11 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l37-a (9 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l20-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l33-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l18-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l38 (8 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l41-b (3 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s20 (11 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l28 (16 kDa, Protein from Saccharomyces cerevisiae)
- Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s29-a (6 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l6-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l36-a (11 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s18-a (16 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l9-a (21 kDa, Protein from Saccharomyces cerevisiae)
- Mrna (17 kDa, RNA from Saccharomyces cerevisiae)
- P/e hybrid trna (24 kDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l39 (6 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s9-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l42-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l24-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l30 (10 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l29 (6 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s13 (16 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s19-a (15 kDa, Protein from Saccharomyces cerevisiae)
- Ubiquitin-40s ribosomal protein s31 (8 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s23-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l25 (13 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s27-a (8 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)
- 60s ribosomal protein l13-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l11-b (19 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s25-a (7 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s0-a (22 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l43-a (9 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l35-a (13 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l17-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s14-b (13 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l19-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 60s acidic ribosomal protein p0 (33 kDa, Protein from Saccharomyces cerevisiae)
Architecture of the yeast small subunit processome
Resolution: 5.1 Å
EM Method: Single-particle
Fitted PDBs: 5tzs
Q-score: 0.222
Chaker-Margot M, Barandun J, Hunziker M, Klinge S
Science (2017) 355 [ Pubmed: 27980088 DOI: doi:10.1126/science.aal1880 ]
- Utp17 (46 kDa, Protein from Saccharomyces cerevisiae S288c)
- Nop1 (18 kDa, Protein from Saccharomyces cerevisiae S288c)
- 5' domain-associated (7 kDa, DNA from Saccharomyces cerevisiae S288c)
- Imp3 (12 kDa, Protein from Saccharomyces cerevisiae S288c)
- Utp13 (61 kDa, Protein from Saccharomyces cerevisiae S288c)
- Utpa_ctd1 (14 kDa, Protein from Saccharomyces cerevisiae S288c)
- Kre33 (54 kDa, Protein from Saccharomyces cerevisiae S288c)
- 13 kda ribonucleoprotein-associated protein (13 kDa, Protein from Saccharomyces cerevisiae S288C)
- Ribosomal rna small subunit methyltransferase nep1 (27 kDa, Protein from Saccharomyces cerevisiae S288C)
- Imp4 (13 kDa, Protein from Saccharomyces cerevisiae S288c)
- Repeat protein 2 (31 kDa, Protein from Saccharomyces cerevisiae S288c)
- 18s ribosomal rna (579 kDa, RNA from Saccharomyces cerevisiae S288C)
- Utp1 (54 kDa, Protein from Saccharomyces cerevisiae S288c)
- Utp20 (78 kDa, Protein from Saccharomyces cerevisiae S288c)
- Unassigned kh domain (14 kDa, Protein from Saccharomyces cerevisiae S288c)
- Utp18 (21 kDa, Protein from Saccharomyces cerevisiae S288c)
- Nop1 (18 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small subunit processome (4 MDa, Complex from Saccharomyces cerevisiae S288c)
- Utpa_ctd4 (8 kDa, Protein from Saccharomyces cerevisiae S288c)
- 40s ribosomal protein s6-a (27 kDa, Protein from Saccharomyces cerevisiae S288C)
- Utp6 (26 kDa, Protein from Saccharomyces cerevisiae S288c)
- 40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae S288C)
- 40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae S288C)
- Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Saccharomyces cerevisiae S288C)
- Nop56 (26 kDa, Protein from Saccharomyces cerevisiae S288c)
- Utp12 (60 kDa, Protein from Saccharomyces cerevisiae S288c)
- 40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae S288C)
- 40s ribosomal protein s5 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Nop58 (29 kDa, Protein from Saccharomyces cerevisiae S288c)
- 40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae S288C)
- Beta-propeller 5 (24 kDa, Protein from Saccharomyces cerevisiae S288c)
- 40s ribosomal protein s23-a (16 kDa, Protein from Saccharomyces cerevisiae S288C)
- Beta-propeller 1 (24 kDa, Protein from Saccharomyces cerevisiae S288c)
- U3 small nucleolar rna-associated protein 21,utp21 (83 kDa, Protein from Saccharomyces cerevisiae S288c)
- Bms1,ribosome biogenesis protein bms1,bms1,ribosome biogenesis protein bms1 (46 kDa, Protein from Saccharomyces cerevisiae S288c)
- Repeat protein 1 (49 kDa, Protein from Saccharomyces cerevisiae S288c)
- Enp2 (22 kDa, Protein from Saccharomyces cerevisiae S288c)
- Utp4 (46 kDa, Protein from Saccharomyces cerevisiae S288c)
- Kre33 (54 kDa, Protein from Saccharomyces cerevisiae S288c)
- 40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae S288C)
- Beta-propeller 2 (21 kDa, Protein from Saccharomyces cerevisiae S288c)
- 40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae S288C)
- 5' external transcribed spacer (72 kDa, RNA from Saccharomyces cerevisiae S288c)
- Utp30 (13 kDa, Protein from Saccharomyces cerevisiae S288c)
- 40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae S288C)
- Unassigned rna helices (14 kDa, DNA from Saccharomyces cerevisiae S288c)
- U3 snorna (37 kDa, RNA from Saccharomyces cerevisiae S288c)
- 40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae S288C)
- Ribosomal rna-processing protein 9 (65 kDa, Protein from Saccharomyces cerevisiae S288C)
- Utpa_ctd2 (9 kDa, Protein from Saccharomyces cerevisiae S288c)
- Utp24 (10 kDa, Protein from Saccharomyces cerevisiae S288c)
- 3' domain-associated (21 kDa, DNA from Saccharomyces cerevisiae S288c)
- Unassigned protein helices (43 kDa, Protein from Saccharomyces cerevisiae S288c)
- 40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae S288C)