SpCas9 with sgRNA and target DNA
Resolution: 3.12 Å
EM Method: Single-particle
Fitted PDBs: 8g1i
Q-score: 0.392
To Be Published
- Crispr-associated endonuclease cas9 complex with sgrna and target dna (Complex from Streptococcus pyogenes)
- Crispr-associated endonuclease cas9/csn1 (160 kDa, Protein from Streptococcus pyogenes)
- Dna e2_nts (12 kDa, DNA from Renilla reniformis)
- Sgrna (31 kDa, RNA from Streptococcus pyogenes)
- Dna e2_ts (12 kDa, DNA from Renilla reniformis)
Cryo-EM structure of CasLambda (Cas12l) bound to crRNA and DNA
Resolution: 2.99 Å
EM Method: Single-particle
Fitted PDBs: 8dc2
Q-score: 0.491
Al-Shayeb B, Skopintsev P, Soczek KM, Stahl EC, Li Z, Groover E, Smock D, Eggers AR, Pausch P, Cress BF, Huang CJ, Staskawicz B, Savage DF, Jacobsen SE, Banfield JF, Doudna JA
Cell (2022) 185 pp. 4574-4586.e16 [ Pubmed: 36423580 DOI: doi:10.1016/j.cell.2022.10.020 ]
- Dna ts (14 kDa, DNA from uncultured virus)
- Caslambda-crrna-dsdna ternary structure (Complex from uncultured virus)
- Dna nts (14 kDa, DNA from uncultured virus)
- Rna (51-mer) (16 kDa, RNA from uncultured virus)
- Caslambda (87 kDa, Protein from uncultured virus)
PlmCasX-sgRNAv1-dsDNA ternary complex at ts loading state
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7waz
Q-score: 0.246
Tsuchida CA, Zhang S, Doost MS, Zhao Y, Wang J, O'Brien E, Fang H, Li CP, Li D, Hai ZY, Chuck J, Brotzmann J, Vartoumian A, Burstein D, Chen XW, Nogales E, Doudna JA, Liu JG
Mol Cell (2022) 82 pp. 1199-1209.e6 [ DOI: doi:10.1016/j.molcel.2022.02.002 Pubmed: 35219382 ]
- Nts-dna (12 kDa, DNA from Planctomycetes bacterium)
- Rna (Complex)
- Dna (Complex from Planctomycetes bacterium)
- Ts-dna (12 kDa, DNA from Planctomycetes bacterium)
- Dplmcasx (112 kDa, Protein from Planctomycetes bacterium)
- Plmcasx-sgrnav1-dsdna ternary complex at nts loading state (Complex from Planctomycetes bacterium)
- Plmcasx (Complex from Planctomycetes bacterium)
- Rna (115-mer) (39 kDa, RNA from Planctomycetes bacterium)
PlmCasX-sgRNAv1-dsDNA ternary complex at nts loading state with flexible H2 domain
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7wb0
Q-score: 0.374
Tsuchida CA, Zhang S, Doost MS, Zhao Y, Wang J, O'Brien E, Fang H, Li CP, Li D, Hai ZY, Chuck J, Brotzmann J, Vartoumian A, Burstein D, Chen XW, Nogales E, Doudna JA, Liu JG
Mol Cell (2022) 82 pp. 1199-1209.e6 [ DOI: doi:10.1016/j.molcel.2022.02.002 Pubmed: 35219382 ]
- Nts-dna (12 kDa, DNA from Planctomycetes bacterium)
- Dna (Complex from Planctomycetes bacterium)
- Rna (115-mer) (39 kDa, RNA from Planctomycetes bacterium)
- Plmcasx (Complex)
- Ts-dna (12 kDa, DNA from Planctomycetes bacterium)
- Dplmcasx (112 kDa, Protein from Planctomycetes bacterium)
- Plmcasx-sgrnav1-dsdna ternary complex at nts loading state (Complex from Planctomycetes bacterium)
- Rna (Complex from Planctomycetes bacterium)
PlmCasX-sgRNAv2-dsDNA ternary complex at nts loading state
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7wb1
Q-score: 0.369
Tsuchida CA, Zhang S, Doost MS, Zhao Y, Wang J, O'Brien E, Fang H, Li CP, Li D, Hai ZY, Chuck J, Brotzmann J, Vartoumian A, Burstein D, Chen XW, Nogales E, Doudna JA, Liu JG
Mol Cell (2022) 82 pp. 1199-1209.e6 [ DOI: doi:10.1016/j.molcel.2022.02.002 Pubmed: 35219382 ]
- Nts-dna (12 kDa, DNA from Planctomycetes bacterium)
- Dsdna (Complex from Planctomycetes)
- Rna (121-mer) (38 kDa, RNA from Planctomycetes bacterium)
- Plmcasx (Complex)
- Ts-dna (12 kDa, DNA from Planctomycetes bacterium)
- Dplmcasx (112 kDa, Protein from Planctomycetes bacterium)
- Sgrnav2 (Complex from Planctomycetes)
- Plmcasx-sgrnav2-dsdna ternary complex at nts loading state (Complex from Planctomycetes)
Cryo-EM structure of CasPhi-2 (Cas12j) bound to crRNA and DNA
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 7lys
Q-score: 0.517
Pausch P, Soczek KM, Herbst DA, Tsuchida CA, Al-Shayeb B, Banfield JF, Nogales E, Doudna JA
Nat Struct Mol Biol (2021) 28 pp. 652-661 [ Pubmed: 34381246 DOI: doi:10.1038/s41594-021-00632-3 ]
- Crrna (14 kDa, RNA from Phage #D)
- Ts-dna (12 kDa, DNA from Phage #D)
- Nts-dna (11 kDa, DNA from Phage #D)
- Casphi-2 (86 kDa, Protein from Biggievirus Mos11)
- Cryo-em map of casphi bound to crrna and dna (124 kDa, Complex from Biggievirus Mos11)
Cryo-EM structure of CasPhi-2 (Cas12j) bound to crRNA and Phosphorothioate-DNA
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7lyt
Q-score: 0.524
Pausch P, Soczek KM, Herbst DA, Tsuchida CA, Al-Shayeb B, Banfield JF, Nogales E, Doudna JA
Nat Struct Mol Biol (2021) 28 pp. 652-661 [ Pubmed: 34381246 DOI: doi:10.1038/s41594-021-00632-3 ]
- Zinc ion (65 Da, Ligand)
- Nts-dna* (13 kDa, DNA from Biggievirus Mos11)
- Ts-dna (13 kDa, DNA from Biggievirus Mos11)
- Cryo-em map of casphi bound to crrna and phosphorothioate-dna in the presence of the nuclease magnesium cofactor (128 kDa, Complex from Biggievirus Mos11)
- Crrna (14 kDa, RNA from Biggievirus Mos11)
- Magnesium ion (24 Da, Ligand)
- Casphi (86 kDa, Protein from Biggievirus Mos11)