Topological Crossing in the Misfolded Tetrahymena Ribozyme Resolved by Cryo-EM
Misfolded Tetrahymena ribozyme conformation 1
Resolution: 3.53 Å
EM Method: Single-particle
Fitted PDBs: 7xsk
Q-score: 0.302
Li S, Palo MZ, Pintilie G, Zhang X, Su Z, Kappel K, Chiu W, Zhang K, Das R
PNAS (2022) 119 pp. e2209146119-e2209146119 [ DOI: doi:10.1073/pnas.2209146119 Pubmed: 36067294 ]
- Rna (388-mer) (125 kDa, RNA from Tetrahymena thermophila)
- Misfolded tetrahymena ribozyme conformation 1 (120 kDa, Complex from Tetrahymena thermophila)
Misfolded Tetrahymena ribozyme conformation 2
Resolution: 3.84 Å
EM Method: Single-particle
Fitted PDBs: 7xsl
Q-score: 0.279
Li S, Palo MZ, Pintilie G, Zhang X, Su Z, Kappel K, Chiu W, Zhang K, Das R
PNAS (2022) 119 pp. e2209146119-e2209146119 [ DOI: doi:10.1073/pnas.2209146119 Pubmed: 36067294 ]
- Misfolded tetrahymena ribozyme conformation 2 (120 kDa, Complex from Tetrahymena thermophila)
- Rna (388-mer) (125 kDa, RNA from Tetrahymena thermophila)
Misfolded Tetrahymena ribozyme conformation 3
Resolution: 4.01 Å
EM Method: Single-particle
Fitted PDBs: 7xsm
Q-score: 0.261
Li S, Palo MZ, Pintilie G, Zhang X, Su Z, Kappel K, Chiu W, Zhang K, Das R
PNAS (2022) 119 pp. e2209146119-e2209146119 [ DOI: doi:10.1073/pnas.2209146119 Pubmed: 36067294 ]
- Misfolded tetrahymena ribozyme conformation 3 (120 kDa, Complex from Tetrahymena thermophila)
- Rna (388-mer) (125 kDa, RNA from Tetrahymena thermophila)
Native Tetrahymena ribozyme conformation
Resolution: 3.01 Å
EM Method: Single-particle
Fitted PDBs: 7xsn
Q-score: 0.416
Li S, Palo MZ, Pintilie G, Zhang X, Su Z, Kappel K, Chiu W, Zhang K, Das R
PNAS (2022) 119 pp. e2209146119-e2209146119 [ DOI: doi:10.1073/pnas.2209146119 Pubmed: 36067294 ]
- Native tetrahymena ribozyme conformation (120 kDa, Complex from Tetrahymena thermophila)
- Rna (387-mer) (125 kDa, RNA from Tetrahymena thermophila)
Apo L-21 ScaI Tetrahymena ribozyme
Resolution: 3.14 Å
EM Method: Single-particle
Fitted PDBs: 7ez0
Q-score: 0.425
Holo L-16 ScaI Tetrahymena ribozyme
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 7ez2
Q-score: 0.485
Su Z, Zhang K, Kappel K, Li S, Palo MZ, Pintilie GD, Rangan R, Luo B, Wei Y, Das R, Chiu W
Nature (2021) 596 pp. 603-607 [ DOI: doi:10.1038/s41586-021-03803-w Pubmed: 34381213 ]
- Holo l-16 scai tetrahymena ribozyme with substrates s1 and s2, and metal ions. (Complex from Tetrahymena thermophila)
- Holo l-16 scai tetrahymena ribozyme s2 (1 kDa, RNA from Tetrahymena thermophila)
- Holo l-16 scai tetrahymena ribozyme (126 kDa, RNA from Tetrahymena thermophila)
- Magnesium ion (24 Da, Ligand)
- Holo l-16 scai tetrahymena ribozyme s1 (2 kDa, RNA from Tetrahymena thermophila)
Kappel K, Zhang K, Su Z, Watkins AM, Kladwang W, Li S, Pintilie G, Topkar VV, Rangan R, Zheludev IN, Yesselman JD, Chiu W, Das R
Nat Methods (2020) 17 pp. 699-707 [ DOI: doi:10.1038/s41592-020-0878-9 Pubmed: 32616928 ]
- Rna (130-mer) (42 kDa, RNA from synthetic construct)
- Atp-ttr-3 with amp (42 kDa, Complex from synthetic construct)
Kappel K, Zhang K, Su Z, Watkins AM, Kladwang W, Li S, Pintilie G, Topkar VV, Rangan R, Zheludev IN, Yesselman JD, Chiu W, Das R
Nat Methods (2020) 17 pp. 699-707 [ DOI: doi:10.1038/s41592-020-0878-9 Pubmed: 32616928 ]
- Rna (130-mer) (42 kDa, RNA from synthetic construct)
- Apo atp-ttr-3 (42 kDa, Complex from synthetic construct)
Apo F. nucleatum glycine riboswitch
Kappel K, Zhang K, Su Z, Watkins AM, Kladwang W, Li S, Pintilie G, Topkar VV, Rangan R, Zheludev IN, Yesselman JD, Chiu W, Das R
Nat Methods (2020) 17 pp. 699-707 [ DOI: doi:10.1038/s41592-020-0878-9 Pubmed: 32616928 ]
- Apo f. nucleatum glycine riboswitch (56 kDa, Complex from Fusobacterium nucleatum)
- Rna (171-mer) (55 kDa, RNA from Fusobacterium nucleatum)