Structural basis of translation inhibition by a valine tRNA-derived fragment
Resolution: 4.62 Å
EM Method: Single-particle
Fitted PDBs: 8wkp
Q-score: 0.242
Wu Y, Ni MT, Wang YH, Wang C, Hou H, Zhang X, Zhou J
Life Sci Alliance (2024) 7 [ DOI: doi:10.26508/lsa.202302488 Pubmed: 38599770 ]
- 30s ribosomal protein s8e (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s5 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Unknown ligand (103 Da, Ligand)
- 30s ribosomal protein s11 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s7 (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s28e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s27ae (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (1328-mer) (486 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Sulfolobus acidocaldarius ribosome (Complex from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s6e (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3ae (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (25-mer) (8 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l7ae (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s12 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s2 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s24e (10 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s17 (12 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s10 (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19e (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s27e (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s17e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4e (27 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4 (19 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s9 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s15 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s13 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
Structural basis of translation inhibition by a valine tRNA-derived fragment
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8wq2
Q-score: 0.219
Wu Y, Ni MT, Wang YH, Wang C, Hou H, Zhang X, Zhou J
Life Sci Alliance (2024) 7 [ DOI: doi:10.26508/lsa.202302488 Pubmed: 38599770 ]
- 30s ribosomal protein s8e (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s5 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (26-mer) (8 kDa, RNA from Haloferax volcanii)
- Unknown ligand (103 Da, Ligand)
- 30s ribosomal protein s11 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s7 (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s28e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s27ae (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (1328-mer) (486 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Sulfolobus acidocaldarius ribosome (Complex from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s6e (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3ae (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l7ae (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s12 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s2 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s24e (10 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s17 (12 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s10 (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19e (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s27e (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s17e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4e (27 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4 (19 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s9 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s15 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s13 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
Structural basis of translation inhibition by a valine tRNA-derived fragment
Resolution: 4.53 Å
EM Method: Single-particle
Fitted PDBs: 8wq4
Q-score: 0.189
Wu Y, Ni MT, Wang YH, Wang C, Hou H, Zhang X, Zhou J
Life Sci Alliance (2024) 7 [ DOI: doi:10.26508/lsa.202302488 Pubmed: 38599770 ]
- 30s ribosomal protein s8e (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s5 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (26-mer) (8 kDa, RNA from Haloferax volcanii)
- Unknown ligand (103 Da, Ligand)
- 30s ribosomal protein s11 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s7 (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s28e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s27ae (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (1328-mer) (486 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Sulfolobus acidocaldarius ribosome (Complex from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s6e (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3ae (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l7ae (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s12 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s2 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s24e (10 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s17 (12 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s10 (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19e (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s27e (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s17e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4e (27 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4 (19 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s9 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s15 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s13 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
Escherichia coli paused disome complex (Rotated disome interface class 1)
Resolution: 4.46 Å
EM Method: Single-particle
Fitted PDBs: 8rcs
Q-score: 0.218
Flugel T, Schacherl M, Unbehaun A, Schroeer B, Dabrowski M, Burger J, Mielke T, Sprink T, Diebolder CA, Guillen Schlippe YV, Spahn CMT
Nat Commun (2024) 15 pp. 1756-1756 [ Pubmed: 38409277 DOI: doi:10.1038/s41467-024-46092-3 ]
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
- 1,4-diaminobutane (88 Da, Ligand)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
- Trna-phe (p/e-site) (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 16s ribosomal rna (499 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s1 (61 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- Messenger rna (19 kDa, RNA from Escherichia coli)
- Trna-val (a/p-site) (24 kDa, RNA from Escherichia coli)
- Spermidine (145 Da, Ligand)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- Nascent chain (1 kDa, Protein from Escherichia coli)
- Trna-ala (a/p-site) (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
- Trna-trp (p/e-site) (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul1 (24 kDa, Protein from Escherichia coli)
- Escherichia coli paused disome complex (2 MDa, Complex from Escherichia coli)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
Structure of the 30S-IF3 complex from Escherichia coli
Resolution: 4.6 Å
EM Method: Single-particle
Fitted PDBs: 8jsg
Q-score: 0.265
Proteins (2025) 93 pp. 279-286 [ DOI: doi:10.1002/prot.26655 Pubmed: 38148682 ]
- Small ribosomal subunit protein us13 (12 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us7 (16 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- Initiation factor 3 (Cellular component from Escherichia coli)
- Small ribosomal subunit protein bs18 (8 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us3 (23 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us5 (16 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs6, non-modified isoform (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us19 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs21 (6 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us2 (25 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli)
- 16s ribosomal rna (499 kDa, RNA from Escherichia coli)
- Complex of the small ribosomal subunit (30s) and translation initiation factor 3 (if3) in escherichia coli (850 kDa, Complex from Escherichia coli)
- 30s subunit of ribosome (Cellular component)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
- Translation initiation factor if-3 (20 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
Structure of the 30S-body-IF3 complex from Escherichia coli
Resolution: 4.4 Å
EM Method: Single-particle
Fitted PDBs: 8jsh
Q-score: 0.294
Proteins (2025) 93 pp. 279-286 [ DOI: doi:10.1002/prot.26655 Pubmed: 38148682 ]
- Initiation factor 3 (Cellular component from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 16s ribosomal rna (498 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- Complex of the small ribosomal subunit (30s) body and translation initiation factor 3 (if3) in escherichia coli (Complex from Escherichia coli)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
- Translation initiation factor if-3 (20 kDa, Protein from Escherichia coli)
- Body of the 30s subunit of ribosome (Cellular component)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
Rnase R bound to a 30S degradation intermediate (state II)
Resolution: 4.73 Å
EM Method: Single-particle
Fitted PDBs: 8cdv
Q-score: 0.272
Dimitrova-Paternoga L, Kasvandik S, Beckert B, Granneman S, Tenson T, Wilson DN, Paternoga H
Nature (2024) 626 pp. 1133-1140 [ DOI: doi:10.1038/s41586-024-07027-6 Pubmed: 38326618 ]
- 30s ribosomal protein s10 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s11 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s6 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 16s rrna (503 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- Rna substrate (3 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal subunit in complex with 3' exonuclease rnase r (Complex from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s7 (17 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s12 (15 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s20 (9 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s4 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s19 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s16 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s9 (14 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s17 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s13 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s18 (8 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Ribonuclease r (88 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s15 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s5 (17 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s8 (14 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Rnase R bound to a 30S degradation intermediate (State I - head-turning)
Resolution: 4.15 Å
EM Method: Single-particle
Fitted PDBs: 8ced
Q-score: 0.265
Dimitrova-Paternoga L, Kasvandik S, Beckert B, Granneman S, Tenson T, Wilson DN, Paternoga H
Nature (2024) 626 pp. 1133-1140 [ DOI: doi:10.1038/s41586-024-07027-6 Pubmed: 38326618 ]
- 30s ribosomal protein s10 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s11 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s3 (24 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s6 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Rnase r (88 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 16s rrna (503 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal subunit in complex with 3' exonuclease rnase r (Complex from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s7 (17 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s12 (15 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s20 (9 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s14 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s4 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s19 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s2 (28 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s16 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s9 (14 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s17 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s13 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s18 (8 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s15 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Rna substrate (2 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s5 (17 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s8 (14 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Cryo-EM Structures and Translocation Mechanism of Crenarchaeota Ribosome
Resolution: 4.62 Å
EM Method: Single-particle
Fitted PDBs: 8hl4
Q-score: 0.279
Wang YH, Dai H, Zhang L, Wu Y, Wang J, Wang C, Xu CH, Hou H, Yang B, Zhu Y, Zhang X, Zhou J
Nucleic Acids Res (2023) 51 pp. 8909-8924 [ DOI: doi:10.1093/nar/gkad661 Pubmed: 37604686 ]
- 50s ribosomal protein l22 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l40e (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Phe-phe-phe-phe-phe-phe (901 Da, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l19e (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s8e (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l37e (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Duf2280 domain-containing protein (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s5 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l34e (8 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l15e (20 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l47a (9 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l32e (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Unknown ligand (103 Da, Ligand)
- 50s ribosomal protein l4 (27 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l44e (10 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s11 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l13 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l18 (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s7 (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l39e (5 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l6 (20 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s28e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Mrna (5'-r(p*up*up*up*up*up*up*up*up*u)-3') (2 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l21e (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l14 (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l2 (24 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s27ae (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Conserved protein (8 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s6e (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3ae (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s9 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Elongation factor 2 (81 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Trna (76-mer) (24 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- 50s ribosomal protein l18ae (8 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l30 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l7ae (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l31e (8 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l30e (10 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l37ae (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l3 (38 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Sulfolobus acidocaldarius ribosome small sbunit (Complex from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l14e (9 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l1 (24 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s12 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l24 (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s2 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l5 (19 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s24e (10 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 16s rrna (1493-mer) (487 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s17 (12 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l24e (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s10 (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19e (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s27e (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s17e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4e (27 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l29 (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 23s rrna (3000-mer) (980 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l23 (9 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4 (19 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l10e (18 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l15 (16 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s15 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l18e (12 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s13 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 5s rrna (122-mer) (39 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
The complex of the immature 30S ribosomal subunit with RimP from S. aureus (composite map)
Resolution: 4.23 Å
EM Method: Single-particle
Fitted PDBs: 8bh7
Q-score: 0.203
Structure (2023) [ ]
- Ribosome maturation factor rimp (17 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s15 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s2 (29 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 16s ribosomal rna (500 kDa, RNA from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s12 (15 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s7 (17 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s18 (9 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s3 (24 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s14 type z (7 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s4 (23 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s13 (13 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s8 (14 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s5 (17 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s11 (13 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s10 (11 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s17 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s9 (14 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s16 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s20 (9 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- Immature 30s ribosomal subunit with rimp (Complex from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s6 (11 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s19 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)