Structure of tmRNA SmpB bound in A site of T. thermophilus 70S ribosome
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6q95
Q-score: 0.432
Rae CD, Gordiyenko Y, Ramakrishnan V
Science (2019) 363 pp. 740-744 [ Pubmed: 30765567 DOI: doi:10.1126/science.aav9370 ]
- 50s ribosomal protein l25 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l22 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 70s ribosome bound by tmrna-smpb in the a site (Complex from Thermus thermophilus HB27)
- 30s ribosomal protein thx (3 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Transfer-messenger rna (tmrna) (112 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l36 (4 kDa, Protein from Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039))
- 70s ribosome bound by tmrna-smpb in the a site (Complex from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s19 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l27 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s9 (14 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l1 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s8 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l4 (23 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Trna-fmet (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l10 and l11 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l19 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l30 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s11 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l34 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l2 (29 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 16s ribosomal rna (493 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s10 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l16 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s6 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s13 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 70s ribosome bound by tmrna-smpb in the a site (Complex)
- Mrna (1 kDa, RNA from Escherichia coli)
- 70s ribosome bound by tmrna-smpb in the a site (Complex from Escherichia coli)
- Trna-phe (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l29 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l6 (17 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 23s ribosomal rna (947 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l28 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l14 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s7 (17 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l20 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l31 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Nascent peptide met-ala (220 Da, Protein from Escherichia coli)
- 30s ribosomal protein s17 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s16 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l13 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l35 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s5 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l24 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s12 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l18 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s2 (27 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l17 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s14 type z (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 5s ribosomal rna (38 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s15 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l9 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l23 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l21 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l15 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s4 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l33 (5 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l5 (20 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l32 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ssra-binding protein (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s20 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s18 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
T. thermophilus hibernating 70S ribosome
Resolution: 3.28 Å
EM Method: Single-particle
Fitted PDBs: 6gzq
Q-score: 0.464
Flygaard RK, Boegholm N, Yusupov M, Jenner LB
Nat Commun (2018) 9 pp. 4179-4179 [ DOI: doi:10.1038/s41467-018-06724-x Pubmed: 30301898 ]
- 50s ribosomal protein l33 (5 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s15 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein thx (3 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s11 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l20 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l2 (29 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s7 (17 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ribosome hibernation promoting factor (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l15 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l24 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l16 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s20 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l30 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l13 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l22 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 23s ribosomal rna (947 kDa, RNA from Thermus thermophilus HB8)
- 50s ribosomal protein l36 (4 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l21 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l35 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Thermus thermophilus 70s hibernating ribosome from 100s ribosome dimer (2 MDa, Complex)
- Thermus thermophilus 70s hibernating ribosome from 100s ribosome dimer (Complex from Thermus thermophilus HB8)
- 50s ribosomal protein l25 (20 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l5 (20 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s6 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s5 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l17 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l27 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s10 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l32 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l28 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 5s ribosomal rna (39 kDa, RNA from Thermus thermophilus HB8)
- 30s ribosomal protein s2 (27 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s4 (24 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s13 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l29 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l19 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l31 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l34 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s12 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s14 type z (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ribosome hibernation promoting factor (Complex from Thermus thermophilus HB8)
- 50s ribosomal protein l4 (23 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s18 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s17 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l14 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s9 (14 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s16 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 16s ribosomal rna (489 kDa, RNA from Thermus thermophilus HB8)
- 50s ribosomal protein l6 (18 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s8 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l9 (5 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l23 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l18 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s19 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
T. thermophilus hibernating 100S ribosome (ice)
Resolution: 4.57 Å
EM Method: Single-particle
Fitted PDBs: 6gzx
Q-score: 0.282
Flygaard RK, Boegholm N, Yusupov M, Jenner LB
Nat Commun (2018) 9 pp. 4179-4179 [ Pubmed: 30301898 DOI: doi:10.1038/s41467-018-06724-x ]
- 50s ribosomal protein l30 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l31 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l25 (20 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 16s ribosomal rna (489 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l2 (29 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s5 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l15 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ribosome hibernation promoting factor (Complex from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l32 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s15 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s20 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l21 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l17 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l5 (20 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s14 type z (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l18 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 23s ribosomal rna (947 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l16 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l34 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l23 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l35 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s18 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s4 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l14 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l27 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l4 (23 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s13 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s8 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s11 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l9 (5 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s10 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Thermus thermophilus 100s hibernating ribosome (ice) (2 MDa, Complex)
- 30s ribosomal protein s12 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l28 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l36 (4 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l24 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s7 (17 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l6 (18 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s6 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s16 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l22 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s17 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s19 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l13 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s9 (14 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l29 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l33 (5 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ribosome hibernation promoting factor (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s2 (27 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ribosome hibernation promoting factor (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ribosome (Complex from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l19 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein thx (3 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 5s ribosomal rna (39 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l20 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
T. thermophilus hibernating 100S ribosome (amc)
Resolution: 4.13 Å
EM Method: Single-particle
Fitted PDBs: 6gzz
Q-score: 0.317
Flygaard RK, Boegholm N, Yusupov M, Jenner LB
Nat Commun (2018) 9 pp. 4179-4179 [ Pubmed: 30301898 DOI: doi:10.1038/s41467-018-06724-x ]
- 30s ribosomal protein s19 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l22 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein thx (3 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l35 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 16s ribosomal rna (489 kDa, RNA from Thermus thermophilus HB8)
- Ribosome hibernation promoting factor (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l27 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l15 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l19 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l23 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l4 (23 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s8 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Thermus thermophilus hibernating 100s ribosome (amc) (2 MDa, Complex)
- 30s ribosomal protein s9 (14 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l30 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l34 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l2 (29 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 100s ribosome (Complex from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s10 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l28 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s6 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s11 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s13 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l18 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ribosome hibernation promoting factor (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l14 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l20 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s7 (17 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l6 (18 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ribosome hibernation promoting factor (Complex from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l29 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l16 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s16 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l9 (5 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s5 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s17 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s12 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s18 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l36 (4 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l31 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 23s ribosomal rna (947 kDa, RNA from Thermus thermophilus HB8)
- 50s ribosomal protein l17 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s14 type z (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l25 (20 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s15 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l21 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l24 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l13 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l33 (5 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s2 (27 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s4 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l5 (20 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 5s ribosomal rna (39 kDa, RNA from Thermus thermophilus HB8)
- 50s ribosomal protein l32 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s20 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
Ribosome Structure bound to ABC-F protein.
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 5zlu
Q-score: 0.441
Su W, Kumar V, Ding Y, Ero R, Serra A, Lee BST, Wong ASW, Shi J, Sze SK, Yang L, Gao YG
PNAS (2018) 115 pp. 5157-5162 [ Pubmed: 29712846 DOI: doi:10.1073/pnas.1803313115 ]
- 50s ribosomal protein l22 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s9 (14 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l17 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l2 (30 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l14 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s12 (14 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l6 (19 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l15 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l27 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein thx (3 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l29 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s8 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s5 (17 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s18 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l10 (18 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- 30s ribosomal protein s7 (18 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l23 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l30 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s14 type z (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l36 (4 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s4 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s13 (14 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s19 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Rna (25-mer) (8 kDa, RNA from Thermus thermophilus HB8)
- 16s ribosomal rna (491 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s6 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s11 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 23s ribosomal rna (935 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l4 (23 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l1 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l18 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s3 (26 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l20 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l16 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Macrolide efflux protein (55 kDa, Protein from Pseudomonas aeruginosa)
- 50s ribosomal protein l11 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l25 (23 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s2 (29 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l19 (17 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l33 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s16 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l24 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l31 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s20 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l34 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 5s ribosomal rna (39 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l21 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l32 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Bacterial ribosome in complex with msre (2 MDa, Complex from Thermus thermophilus)
- P-site trna (24 kDa, RNA from Thermus thermophilus HB8)
- 50s ribosomal protein l5 (21 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s17 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s15 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s10 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l35 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l13 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Magnesium ion (24 Da, Ligand)
70S ribosome complex with dnaX mRNA stemloop and E-site tRNA ("in" conformation)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 5uq7
Q-score: 0.397
Zhang Y, Hong S, Ruangprasert A, Skiniotis G, Dunham CM
Structure (2018) 26 pp. 437-445.e3 [ Pubmed: 29456023 DOI: doi:10.1016/j.str.2018.01.013 ]
- 50s ribosomal protein l35 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l5 (20 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l17 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l29 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s6 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 5s rrna (38 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s17 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- P-site trna fmet (24 kDa, RNA from Escherichia coli K-12)
- 50s ribosomal protein l19 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l18 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l31 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l6 (18 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 70s-dnax complex (Complex from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l36 (4 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l4 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s7 (17 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s16 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l1 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l28 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 16s rrna (493 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s2 (26 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s15 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l20 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 23s rrna (948 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l22 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s11 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l27 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l15 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l16 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s18 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l34 (5 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l9 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s20 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Iron/sulfur cluster (351 Da, Ligand)
- 50s ribosomal protein l25 (21 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l24 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s5 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s19 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein thx (2 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l33 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l23 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s12 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s14 type z (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- E-site trna phe (24 kDa, RNA from Escherichia coli K-12)
- 50s ribosomal protein l21 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s13 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s4 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Messenger rna (17 kDa, RNA from synthetic construct)
- 50s ribosomal protein l14 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s9 (14 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l32 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s10 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l13 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s8 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l2 (30 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l30 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
70S ribosome complex with dnaX mRNA stem-loop and E-site tRNA ("out" conformation)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 5uq8
Q-score: 0.446
Zhang Y, Hong S, Ruangprasert A, Skiniotis G, Dunham CM
Structure (2018) 26 pp. 437-445.e3 [ Pubmed: 29456023 DOI: doi:10.1016/j.str.2018.01.013 ]
- 50s ribosomal protein l34 (5 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 16s rrna (493 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s8 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s15 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l36 (4 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- P-site trna fmet (24 kDa, RNA from Escherichia coli K-12)
- Iron/sulfur cluster (351 Da, Ligand)
- 23s rrna (948 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l23 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l32 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s10 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l9 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l21 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l14 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l1 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s14 type z (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s18 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s7 (17 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Messenger rna (17 kDa, RNA from synthetic construct)
- 50s ribosomal protein l15 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l27 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l22 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s5 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l16 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s13 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l33 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s9 (14 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s19 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s4 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s20 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l2 (30 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s16 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein thx (2 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l30 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s11 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l19 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s6 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l4 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l28 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l31 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l5 (20 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l13 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 5s rrna (38 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l25 (21 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l35 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s17 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l20 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l24 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l18 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l17 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s2 (26 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- E-site trna phe (24 kDa, RNA from Escherichia coli K-12)
- 70s-dnax complex (Complex from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s12 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l29 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l6 (18 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
Elongation factor G-ribosome complex captures in the absence of inhibitors.
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 5ot7
Q-score: 0.344
Mace K, Giudice E, Chat S, Gillet R
Nucleic Acids Res (2018) 46 pp. 3211-3217 [ Pubmed: 29408956 DOI: doi:10.1093/nar/gky081 ]
- Elongation factor g (76 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l34 (5 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l29 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l30 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s15 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l36 (4 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s17 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s20 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s10 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Mrna (Complex from Escherichia coli)
- 23s ribosomal rna (943 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s2 (27 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ribosomal protein ul10 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l15 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l31 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l32 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l33 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l9 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l21 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ef-g bound to 70s ribosome (Complex)
- 50s ribosomal protein l6 (19 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l14 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s14 type z (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Trna phe (Complex from Escherichia coli)
- 30s ribosomal protein s7 (17 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s18 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s11 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l24 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l16 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 5s ribosomal rna (38 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ribosomal protein ul11 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s4 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l2 (30 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Zinc ion (65 Da, Ligand)
- 70s ribosome (Complex from Thermus thermophilus HB8)
- 50s ribosomal protein l4 (23 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 16s ribosomal rna (489 kDa, RNA from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s8 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Ribosomal protein bl12 (6 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s5 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Elongation factor g (Complex from Thermus thermophilus)
- 30s ribosomal protein s3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s12 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l28 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l18 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l35 (7 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l1 (24 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s16 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l13 (15 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s6 (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l5 (20 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l22 (12 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l27 (8 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Mrna (4 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l19 (16 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s9 (14 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 30s ribosomal protein s19 (9 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l3 (22 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l17 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l23 (10 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Trna-phe (24 kDa, RNA from Escherichia coli)
- 30s ribosomal protein thx (3 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l25 (20 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- 50s ribosomal protein l20 (13 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
Structure of ArfA and TtRF2 bound to the 70S ribosome (pre-accommodated state)
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 5mdy
Q-score: 0.462
James NR, Brown A, Gordiyenko Y, Ramakrishnan V
Science (2016) 354 pp. 1437-1440 [ Pubmed: 27934701 DOI: doi:10.1126/science.aai9127 ]
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli K-12)
- Structure of arfa and ttrf2 bound to the 70s ribosome (pre-accommodated state) (2 MDa, Complex)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli K-12)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli K-12)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli K-12)
- Water (18 Da, Ligand)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli K-12)
- Alternative ribosome-rescue factor a (7 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli K-12)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli K-12)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli K-12)
- N-formylmethionine (177 Da, Ligand)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli K-12)
- Fmet-nh-trna(fmet) (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l10 (17 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli K-12)
- 16s ribosomal rna (497 kDa, RNA from Escherichia coli K-12)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli K-12)
- Peptide chain release factor 2 (42 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Mrna (5 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli K-12)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli K-12)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli K-12)