Cryo-EM structure of the human SSU processome, state pre-A1
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7mq8
Q-score: 0.417
Singh S, Vanden Broeck A, Miller L, Chaker-Margot M, Klinge S
Science (2021) 373 pp. eabj5338-eabj5338 [ DOI: doi:10.1126/science.abj5338 Pubmed: 34516797 ]
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 18 homolog (62 kDa, Protein from Homo sapiens)
- U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- Nucleolar protein 56 (66 kDa, Protein from Homo sapiens)
- Protein aatf (63 kDa, Protein from Homo sapiens)
- Bystin (33 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
- Small subunit processome component 20 homolog (318 kDa, Protein from Homo sapiens)
- Nucleolar protein 6 (127 kDa, Protein from Homo sapiens)
- Unassigned peptides (23 kDa, Protein from Homo sapiens)
- Ddb1- and cul4-associated factor 13 (51 kDa, Protein from Homo sapiens)
- Periodic tryptophan protein 2 homolog (102 kDa, Protein from Homo sapiens)
- Probable u3 small nucleolar rna-associated protein 11 (30 kDa, Protein from Homo sapiens)
- Rrna 2'-o-methyltransferase fibrillarin (33 kDa, Protein from Homo sapiens)
- Heat repeat-containing protein 1 (242 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- Rrna-processing protein fcf1 homolog (23 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 3 (106 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 36 (105 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- Ribosomal rna small subunit methyltransferase nep1 (26 kDa, Protein from Homo sapiens)
- Deoxynucleotidyltransferase terminal-interacting protein 2 (84 kDa, Protein from Homo sapiens)
- Neuroguidin (35 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Wd repeat-containing protein 43 (74 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 4 homolog (76 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- 5'ets rrna (1 MDa, RNA from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- Ribosome biogenesis protein bms1 homolog (145 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- Krr1 small subunit processome component homolog (43 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 15 homolog (58 kDa, Protein from Homo sapiens)
- U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Homo sapiens)
- U3 snorna (70 kDa, RNA from Homo sapiens)
- Nucleolar protein 7 (29 kDa, Protein from Homo sapiens)
- 18s rrna (602 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- Rna-binding protein pno1 (27 kDa, Protein from Homo sapiens)
- S-adenosyl-l-homocysteine (384 Da, Ligand)
- 40s ribosomal protein s18 (12 kDa, Protein from Homo sapiens)
- Nucleolar protein 14 (68 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 75 (94 kDa, Protein from Homo sapiens)
- Unassigned peptide (3 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- Nucleolar protein 58 (59 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Rrp12-like protein (73 kDa, Protein from Homo sapiens)
- 5'ets rrna (4 kDa, RNA from Homo sapiens)
- Nucleolar protein 11 (73 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 6 homolog (70 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Nucleolar complex protein 4 homolog (50 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Homo sapiens)
- Uncharacterized protein c1orf131 (32 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-interacting protein 2 (51 kDa, Protein from Homo sapiens)
- Human ssu processome (5 MDa, Complex from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- Transducin beta-like protein 3 (89 kDa, Protein from Homo sapiens)
- Something about silencing protein 10 (54 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- U3 small nucleolar ribonucleoprotein protein mpp10 (78 kDa, Protein from Homo sapiens)
- Nucleolar protein 10 (80 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 14 homolog a (88 kDa, Protein from Homo sapiens)
- Ribosomal rna-processing protein 7 homolog a (32 kDa, Protein from Homo sapiens)
- Rna cytidine acetyltransferase (115 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 46 (68 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
Cryo-EM structure of the human SSU processome, state pre-A1*
Resolution: 3.87 Å
EM Method: Single-particle
Fitted PDBs: 7mq9
Q-score: 0.357
Singh S, Vanden Broeck A, Miller L, Chaker-Margot M, Klinge S
Science (2021) 373 pp. eabj5338-eabj5338 [ Pubmed: 34516797 DOI: doi:10.1126/science.abj5338 ]
- Nucleolar protein 56 (66 kDa, Protein from Homo sapiens)
- U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Homo sapiens)
- Rna-binding protein pno1 (27 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 36 (105 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 46 (68 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s4 x isoform (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- Nucleolar complex protein 4 homolog (50 kDa, Protein from Homo sapiens)
- Ddb1- and cul4-associated factor 13 (51 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-interacting protein 2 (51 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 4 homolog (76 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- Uncharacterized protein c1orf131 (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- Human ssu processome (5 MDa, Complex from Homo sapiens)
- U3 small nucleolar rna-associated protein 18 homolog (62 kDa, Protein from Homo sapiens)
- 5'ets rrna (1 MDa, RNA from Homo sapiens)
- Rrp12-like protein (73 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 6 homolog (70 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- Probable u3 small nucleolar rna-associated protein 11 (30 kDa, Protein from Homo sapiens)
- Periodic tryptophan protein 2 homolog (102 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- Protein aatf (63 kDa, Protein from Homo sapiens)
- Krr1 small subunit processome component homolog (43 kDa, Protein from Homo sapiens)
- 5' ets rrna (7 kDa, RNA from Homo sapiens)
- Ribosome biogenesis protein bms1 homolog (146 kDa, Protein from Homo sapiens)
- Deoxynucleotidyltransferase terminal-interacting protein 2 (84 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Heat repeat-containing protein 1 (242 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 15 homolog (58 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 3 (106 kDa, Protein from Homo sapiens)
- Nucleolar protein 7 (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 18s rrna (603 kDa, RNA from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Homo sapiens)
- Rna cytidine acetyltransferase (115 kDa, Protein from Homo sapiens)
- Transducin beta-like protein 3 (89 kDa, Protein from Homo sapiens)
- Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Homo sapiens)
- Nucleolar protein 11 (75 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 14 homolog a (88 kDa, Protein from Homo sapiens)
- Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
- Rrna 2'-o-methyltransferase fibrillarin (33 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- Nucleolar protein 14 (68 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- Unassigned peptides (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 75 (94 kDa, Protein from Homo sapiens)
- Rrna-processing protein fcf1 homolog (23 kDa, Protein from Homo sapiens)
- Ribosomal rna small subunit methyltransferase nep1 (26 kDa, Protein from Homo sapiens)
- U3 small nucleolar ribonucleoprotein protein mpp10 (78 kDa, Protein from Homo sapiens)
- S-adenosyl-l-homocysteine (384 Da, Ligand)
- Something about silencing protein 10 (54 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- U3 snorna (70 kDa, RNA from Homo sapiens)
- Nucleolar protein 10 (80 kDa, Protein from Homo sapiens)
- Nucleolar protein 58 (59 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Bystin (33 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- Nucleolar protein 6 (127 kDa, Protein from Homo sapiens)
- Small subunit processome component 20 homolog (318 kDa, Protein from Homo sapiens)
- Ribosomal rna-processing protein 7 homolog a (32 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 43 (74 kDa, Protein from Homo sapiens)
Cryo-EM structure of the human SSU processome, state post-A1
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7mqa
Q-score: 0.526
Singh S, Vanden Broeck A, Miller L, Chaker-Margot M, Klinge S
Science (2021) 373 pp. eabj5338-eabj5338 [ DOI: doi:10.1126/science.abj5338 Pubmed: 34516797 ]
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 18 homolog (62 kDa, Protein from Homo sapiens)
- U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- Nucleolar protein 56 (66 kDa, Protein from Homo sapiens)
- Ribosome biogenesis protein bms1 homolog (146 kDa, Protein from Homo sapiens)
- Ribosomal rna small subunit methyltransferase nep1 (26 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (12 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-interacting protein 2 (51 kDa, Protein from Homo sapiens)
- Deoxynucleotidyltransferase terminal-interacting protein 2 (84 kDa, Protein from Homo sapiens)
- Nucleolar complex protein 4 homolog (50 kDa, Protein from Homo sapiens)
- Nucleolar protein 14 (68 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 75 (94 kDa, Protein from Homo sapiens)
- S-adenosyl-l-homocysteine (384 Da, Ligand)
- Bystin (33 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- Human ssu processome (5 MDa, Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 43 (74 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 4 homolog (76 kDa, Protein from Homo sapiens)
- Transducin beta-like protein 3 (89 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- 5'ets rrna (1 MDa, RNA from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- Rna-binding protein pno1 (27 kDa, Protein from Homo sapiens)
- Something about silencing protein 10 (54 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- Small subunit processome component 20 homolog (318 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- U3 small nucleolar ribonucleoprotein protein mpp10 (78 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 14 homolog a (88 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- Nucleolar protein 6 (127 kDa, Protein from Homo sapiens)
- Ribosomal rna-processing protein 7 homolog a (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- Nucleolar protein 58 (59 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- Ddb1- and cul4-associated factor 13 (51 kDa, Protein from Homo sapiens)
- Periodic tryptophan protein 2 homolog (102 kDa, Protein from Homo sapiens)
- Exosome component 10 (100 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- U3 small nucleolar rna-associated protein 15 homolog (58 kDa, Protein from Homo sapiens)
- Active regulator of sirt1 (15 kDa, Protein from Homo sapiens)
- U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Homo sapiens)
- Probable u3 small nucleolar rna-associated protein 11 (30 kDa, Protein from Homo sapiens)
- U3 snorna (70 kDa, RNA from Homo sapiens)
- Wd repeat-containing protein 46 (68 kDa, Protein from Homo sapiens)
- Rrna 2'-o-methyltransferase fibrillarin (33 kDa, Protein from Homo sapiens)
- 18s rrna (604 kDa, RNA from Homo sapiens)
- Rrp12-like protein (73 kDa, Protein from Homo sapiens)
- Nucleolar protein 7 (29 kDa, Protein from Homo sapiens)
- Heat repeat-containing protein 1 (242 kDa, Protein from Homo sapiens)
- Unassigned peptides (19 kDa, Protein from Homo sapiens)
- Nucleolar protein 11 (73 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- Rrna-processing protein fcf1 homolog (23 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- Probable dimethyladenosine transferase (35 kDa, Protein from Homo sapiens)
- U3 small nucleolar rna-associated protein 6 homolog (70 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 3 (106 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 36 (105 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Probable atp-dependent rna helicase dhx37 (129 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
Conformational switches control early maturation of the eukaryotic small ribosomal subunit
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 6nd4
Q-score: 0.26
Hunziker M, Barandun J, Buzovetsky O, Steckler C, Molina H, Klinge S
eLife (2019) 8 [ DOI: doi:10.7554/eLife.45185 Pubmed: 31206356 ]
- Utp21 (104 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Snu13 (13 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp6 (46 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp13 (68 kDa, Protein from Saccharomyces cerevisiae BY4741)
- U3 snorna (46 kDa, RNA from Saccharomyces cerevisiae BY4741)
- 18s rrna 5' domain start (3 kDa, RNA from Saccharomyces cerevisiae BY4741)
- Rrp9 (65 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Unidentified fragment (2 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp24 (21 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp1 (104 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp17 (96 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp15 (57 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp12 (102 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 5'ets rrna (220 kDa, RNA from Saccharomyces cerevisiae BY4741)
- Nop1.1 (34 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Imp3 (21 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp4 (81 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp7 (62 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp5 (72 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Bud21 (24 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Nop58 (53 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp9 (19 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 5' ets particle (Complex from Saccharomyces cerevisiae BY4741)
- Nop56 (55 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp8 (49 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Sof1 (56 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp10 (200 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Mpp10 (67 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Utp18 (66 kDa, Protein from Saccharomyces cerevisiae BY4741)