Rabbit Hemorrhagic Disease Virus reinitiation stimulating TURBS RNA bound to rabbit ribosome
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9c8k
Q-score: 0.256
Sherlock ME, Langeberg CJ, Segar KE, Kieft JS
Cell Rep (2025) 44 pp. 115236-115236 [ DOI: doi:10.1016/j.celrep.2025.115236 Pubmed: 39893634 ]
- Magnesium ion (24 Da, Ligand)
- Es7 (22 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein es19 (16 kDa, Protein from Oryctolagus cuniculus)
- Us4 (22 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein us19 (17 kDa, Protein from Oryctolagus cuniculus)
- Zinc ion (65 Da, Ligand)
- Es1 (30 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein es30 (6 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein es17 (15 kDa, Protein from Oryctolagus cuniculus)
- Es27 (9 kDa, Protein from Oryctolagus cuniculus)
- Us12 (15 kDa, Protein from Oryctolagus cuniculus)
- S10_plectin domain-containing protein (18 kDa, Protein from Oryctolagus cuniculus)
- Us8 (14 kDa, Protein from Oryctolagus cuniculus)
- Es8 (24 kDa, Protein from Oryctolagus cuniculus)
- Es31 (18 kDa, Protein from Oryctolagus cuniculus)
- Es12 (14 kDa, Protein from Oryctolagus cuniculus)
- Es25 (13 kDa, Protein from Oryctolagus cuniculus)
- Receptor for activated c kinase 1 (rack1) (35 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein us5 (31 kDa, Protein from Oryctolagus cuniculus)
- Rabbit hemorrhagic disease virus reinitiation stimulating turbs rna bound to rabbit ribosome (Complex from Oryctolagus cuniculus)
- 40s ribosomal protein es4 (29 kDa, Protein from Oryctolagus cuniculus)
- Us14 (6 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein us2 (32 kDa, Protein from Oryctolagus cuniculus)
- Es28 (7 kDa, Protein from Oryctolagus cuniculus)
- Us9 (16 kDa, Protein from Oryctolagus cuniculus)
- Us10 (13 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein es24 (15 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein us11 (16 kDa, Protein from Oryctolagus cuniculus)
- Us15 (17 kDa, Protein from Oryctolagus cuniculus)
- Us13 (17 kDa, Protein from Oryctolagus cuniculus)
- Us7 (22 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein us3 (26 kDa, Protein from Oryctolagus cuniculus)
- Es21 (9 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s26 (13 kDa, Protein from Oryctolagus cuniculus)
- Us17 (18 kDa, Protein from Oryctolagus cuniculus)
- Es6 (28 kDa, Protein from Oryctolagus cuniculus)
- Rhdv reinitiation stimulating element rna (29 kDa, RNA from Rabbit hemorrhagic disease virus)
- 18s ribosomal rna (602 kDa, RNA from Oryctolagus cuniculus)
Tetrahymena Ribozyme scaffolded Zika Virus xrRNA
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8tjq
Q-score: 0.395
Nucleic Acids Res (2023) 51 pp. e100-e100 [ Pubmed: 37791881 DOI: doi:10.1093/nar/gkad784 ]
- Tetrahymena ribozyme scaffolded zika virus xrrna (Complex from Tetrahymena)
- Rna (440-mer) (142 kDa, RNA from Zika virus)
- Magnesium ion (24 Da, Ligand)
Tetrahymena Ribozyme scaffolded TABV xrRNA
Resolution: 3.46 Å
EM Method: Single-particle
Fitted PDBs: 8tju
Q-score: 0.362
Nucleic Acids Res (2023) 51 pp. e100-e100 [ DOI: doi:10.1093/nar/gkad784 Pubmed: 37791881 ]
- Magnesium ion (24 Da, Ligand)
- Tetrahymena ribozyme scaffolded tabv xrrna (Complex from Tetrahymena)
- Dna/rna (416-mer) (134 kDa, Macromolecule from Tamana bat virus)
Tetrahymena Ribozyme scaffolded Fluoride riboswitch
Resolution: 2.99 Å
EM Method: Single-particle
Fitted PDBs: 8tjv
Q-score: 0.456
Nucleic Acids Res (2023) 51 pp. e100-e100 [ DOI: doi:10.1093/nar/gkad784 Pubmed: 37791881 ]
- Potassium ion (39 Da, Ligand)
- Tetrahymena ribozyme scaffolded fluoride riboswitch (Complex from Tetrahymena)
- Magnesium ion (24 Da, Ligand)
- Rna (417-mer) (134 kDa, RNA from Thermotoga petrophila)
- Fluoride ion (18 Da, Ligand)
Tetrahymena Ribozyme cryo-EM scaffold
Resolution: 2.44 Å
EM Method: Single-particle
Fitted PDBs: 8tjx
Q-score: 0.541
Nucleic Acids Res (2023) 51 pp. e100-e100 [ DOI: doi:10.1093/nar/gkad784 Pubmed: 37791881 ]
- Tetrahymena ribozyme cryo-em scaffold (Complex from Tetrahymena)
- Magnesium ion (24 Da, Ligand)
- Rna (440-mer) (142 kDa, RNA from Tetrahymena)
Kinetically trapped misfolded state of the Tetrahymena ribozyme
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7uvt
Q-score: 0.314
Bonilla SL, Vicens Q, Kieft JS
Sci Adv (2022) 8 pp. eabq4144-eabq4144 [ Pubmed: 36026457 DOI: doi:10.1126/sciadv.abq4144 ]
- Apo l-21 scai tetrahymena ribozyme rna (Complex from Tetrahymena thermophila)
- Rna (386-mer) (125 kDa, RNA from Tetrahymena thermophila)
tRNA-like Structure from Brome Mosaic Virus
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 7sam
Q-score: 0.224
Bonilla SL, Sherlock ME, MacFadden A, Kieft JS
Science (2021) 374 pp. 955-960 [ Pubmed: 34793227 DOI: doi:10.1126/science.abe8526 ]
- Viral rna (55 kDa, RNA from Brome mosaic virus)
- Trna-like structure at the 3' utr of the brome mosaic virus (bmv) genome (54 kDa, Complex from Brome mosaic virus)
Resolution: 5.51 Å
EM Method: Single-particle
Fitted PDBs: 7sc6
Q-score: 0.151
Bonilla SL, Sherlock ME, MacFadden A, Kieft JS
Science (2021) 374 pp. 955-960 [ Pubmed: 34793227 DOI: doi:10.1126/science.abe8526 ]
- Trna-like structure from brome mosaic virus rna 3 (55 kDa, RNA from Brome mosaic virus)
- Rna-protein complex: tyrosyl-trna synthetase from phaseolus vulgaris bound to trna-like structure from brome mosaic virus rna 3. (Complex from Phaseolus vulgaris)
- Tyrosine--trna ligase (45 kDa, Protein from Phaseolus vulgaris)
Resolution: 6.0 Å
EM Method: Single-particle
Fitted PDBs: 7scq
Q-score: 0.109
Bonilla SL, Sherlock ME, MacFadden A, Kieft JS
Science (2021) 374 pp. 955-960 [ Pubmed: 34793227 DOI: doi:10.1126/science.abe8526 ]
- Trna-like structure from brome mosaic virus rna 3. (55 kDa, RNA from Brome mosaic virus)
- Rna-protein complex: tyrosyl-trna synthetase from phaseolus vulgaris bound to trna-like structure from brome mosaic virus rna 3. (Complex from Phaseolus vulgaris)
- Tyrosine--trna ligase (45 kDa, Protein from Phaseolus vulgaris)
Structure of bacterial 30S-IF1-IF2-IF3-mRNA-tRNA translation pre-initiation complex(state-III)
Resolution: 4.9 Å
EM Method: Single-particle
Fitted PDBs: 5lmv
Q-score: 0.164
Hussain T, Llacer JL, Wimberly BT, Kieft JS, Ramakrishnan V
Cell (2016) 167 pp. 133-144.e13 [ Pubmed: 27662086 DOI: doi:10.1016/j.cell.2016.08.074 ]
- 30s ribosomal protein s12 (14 kDa, Protein from Thermus thermophilus HB8)
- Translation initiation factor if-3 (19 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s17 (12 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s4 (24 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s15 (10 kDa, Protein from Thermus thermophilus HB8)
- Translation initiation factor if-2 (63 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein thx (3 kDa, Protein from Thermus thermophilus HB8)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s2 (29 kDa, Protein from Thermus thermophilus HB8)
- Mrna (13 kDa, RNA from Thermus thermophilus HB8)
- 30s ribosomal protein s10 (11 kDa, Protein from Thermus thermophilus HB8)
- 30s-if1-if2-if3-mrna-trna pre-initiation complex (state-iii) (912 kDa, Complex)
- Translation initiation factor if-1 (8 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s6 (11 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s13 (14 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s14 type z (7 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s5 (17 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s18 (10 kDa, Protein from Thermus thermophilus HB8)
- 16s ribosomal rna (493 kDa, RNA from Thermus thermophilus HB8)
- Trnai (24 kDa, RNA from Escherichia coli)
- N-formylmethionine (177 Da, Ligand)
- 30s ribosomal protein s20 (11 kDa, Protein from Thermus thermophilus HB8)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s7 (18 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s16 (10 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s9 (14 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s11 (13 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s19 (10 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s8 (15 kDa, Protein from Thermus thermophilus HB8)
- 30s ribosomal protein s3 (26 kDa, Protein from Thermus thermophilus HB8)