Structure of Selenomonas sp. Cascade (SsCascade)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8w1p
Q-score: 0.463
Hirano S, Altae-Tran H, Kannan S, Macrae RK, Zhang F
Mol Cell (2024) 84 pp. 3154- [ DOI: doi:10.1016/j.molcel.2024.07.026 Pubmed: 39111310 ]
- Target strand dna (20 kDa, DNA from synthetic construct)
- Cas5 (28 kDa, Protein from Selenomonas sp.)
- Target dna-bound sscascade (Complex from Selenomonas sp.)
- Non-target strand dna (20 kDa, DNA from synthetic construct)
- Cas8 (43 kDa, Protein from Selenomonas sp.)
- Cas6 (20 kDa, Protein from Selenomonas sp.)
- Crrna (19 kDa, RNA from synthetic construct)
- Cas7 (38 kDa, Protein from Selenomonas sp.)
Cryo-EM structure of GeoCas9 in complex with sgRNA and target DNA
Resolution: 3.17 Å
EM Method: Single-particle
Fitted PDBs: 8uza
Q-score: 0.516
Eggers AR, Chen K, Soczek KM, Tuck OT, Doherty EE, Xu B, Trinidad MI, Thornton BW, Yoon PH, Doudna JA
Cell (2024) 187 pp. 3249- [ Pubmed: 38781968 DOI: doi:10.1016/j.cell.2024.04.031 ]
- Crispr-associated endonuclease cas9 (127 kDa, Protein from Geobacillus stearothermophilus)
- Ternary complex of deactivated wild type geocas9 with sgrna and target dna (203 kDa, Complex from Geobacillus stearothermophilus)
- Non-target strand dna (15 kDa, DNA from Mus musculus)
- Sgrna (107-mer) (44 kDa, RNA from Geobacillus stearothermophilus)
- Target strand dna (15 kDa, DNA from Mus musculus)
Cryo-EM structure of iGeoCas9 in complex with sgRNA and target DNA
Resolution: 2.63 Å
EM Method: Single-particle
Fitted PDBs: 8uzb
Q-score: 0.561
Eggers AR, Chen K, Soczek KM, Tuck OT, Doherty EE, Xu B, Trinidad MI, Thornton BW, Yoon PH, Doudna JA
Cell (2024) 187 pp. 3249- [ Pubmed: 38781968 DOI: doi:10.1016/j.cell.2024.04.031 ]
- Non-target strand dna (15 kDa, DNA from Mus musculus)
- Crispr-associated endonuclease cas9 (127 kDa, Protein from Geobacillus stearothermophilus)
- Target strand dna (39-mer) (15 kDa, DNA from Mus musculus)
- Ternary complex of deactivated igeocas9 with sgrna and target dna (203 kDa, Complex from Geobacillus stearothermophilus)
- Rna (107-mer) (44 kDa, RNA from Geobacillus stearothermophilus)
Resolution: 3.46 Å
EM Method: Single-particle
Fitted PDBs: 8gam
Q-score: 0.16
Hu C, Myers MT, Zhou X, Hou Z, Lozen ML, Nam KH, Zhang Y, Ke A
Mol Cell (2024) 84 pp. 463-475.e5 [ Pubmed: 38242128 DOI: doi:10.1016/j.molcel.2023.12.034 ]
- Crrna (43-mer) (13 kDa, RNA from Neisseria lactamica)
- Cas5 (23 kDa, Protein from Neisseria lactamica)
- Non target strand dna (5'-d(p*ap*tp*gp*ap*ap*cp*tp*tp*cp*ap*ap*ap*a)-3') (3 kDa, DNA from Neisseria lactamica)
- Ternary complex of cas3 with dsdna bound type i-c cascade at r-loop formation (400 kDa, Complex from Neisseria lactamica)
- Cas11 (14 kDa, Protein from Neisseria lactamica)
- Target strand dna (25-mer) (7 kDa, DNA from Neisseria lactamica)
- Cas7 (32 kDa, Protein from Neisseria lactamica)
- Phage associated protein (64 kDa, Protein from Neisseria lactamica)
Resolution: 3.26 Å
EM Method: Single-particle
Fitted PDBs: 8gan
Q-score: 0.227
Hu C, Myers MT, Zhou X, Hou Z, Lozen ML, Nam KH, Zhang Y, Ke A
Mol Cell (2024) 84 pp. 463-475.e5 [ Pubmed: 38242128 DOI: doi:10.1016/j.molcel.2023.12.034 ]
- Cas8 (64 kDa, Protein from Neisseria lactamica)
- Cas11 (14 kDa, Protein from Neisseria lactamica)
- Cas5 (23 kDa, Protein from Neisseria lactamica)
- Proximal non target strand dna (5'-d(p*ap*tp*gp*ap*ap*cp*tp*tp*cp*ap*ap*ap*ap*ap*ap*ap*ap*ap*a)-3') (5 kDa, DNA from Neisseria lactamica)
- Crrna (43-mer) (13 kDa, RNA from Neisseria lactamica)
- Distal non target strand dna (5'-d(p*ap*tp*tp*ap*tp*ap*tp*tp*ap*ap*tp*ap*tp*tp*ap*tp*ap*tp*tp*tp*a)-3') (6 kDa, DNA from Neisseria lactamica)
- Target strand dna (53-mer) (16 kDa, DNA from Neisseria lactamica)
- Type i-c cascade at r-loop formation (400 kDa, Complex from Neisseria lactamica)
- Cas7 (32 kDa, Protein from Neisseria lactamica)
I-F3b Cascade-TniQ full R-loop complex
Resolution: 3.52 Å
EM Method: Single-particle
Fitted PDBs: 7u5d
Q-score: 0.457
Park JU, Petassi MT, Hsieh SC, Mehrotra E, Schuler G, Budhathoki J, Truong VH, Thyme SB, Ke A, Kellogg EH, Peters JE
Mol Cell (2023) 83 pp. 1827-1838.e6 [ Pubmed: 37267904 DOI: doi:10.1016/j.molcel.2023.05.005 ]
- Cas6 (23 kDa, Protein from Aeromonas salmonicida)
- I-f3b cascade-tniq full r-loop complex (450 kDa, Complex from Aeromonas salmonicida)
- Target strand dna (35 kDa, DNA from Aeromonas salmonicida)
- Cas7 (39 kDa, Protein from Aeromonas salmonicida)
- Crrna (19 kDa, RNA from Aeromonas salmonicida)
- Cas8/5 (78 kDa, Protein from Aeromonas salmonicida)
- Non-target strand dna (35 kDa, DNA from Aeromonas salmonicida)
- Tniq (46 kDa, Protein from Aeromonas salmonicida)
I-F3b Cascade-TniQ full R-loop complex
Resolution: 4.03 Å
EM Method: Single-particle
Fitted PDBs: 7u5e
Q-score: 0.351
Park JU, Petassi MT, Hsieh SC, Mehrotra E, Schuler G, Budhathoki J, Truong VH, Thyme SB, Ke A, Kellogg EH, Peters JE
Mol Cell (2023) 83 pp. 1827-1838.e6 [ Pubmed: 37267904 DOI: doi:10.1016/j.molcel.2023.05.005 ]
- Cas6 (23 kDa, Protein from Aeromonas salmonicida)
- I-f3b cascade-tniq full r-loop complex (450 kDa, Complex from Aeromonas salmonicida)
- Target strand dna (35 kDa, DNA from Aeromonas salmonicida)
- Cas7 (39 kDa, Protein from Aeromonas salmonicida)
- Crrna (19 kDa, RNA from Aeromonas salmonicida)
- Cas8/5 (78 kDa, Protein from Aeromonas salmonicida)
- Non-target strand dna (35 kDa, DNA from Aeromonas salmonicida)
- Tniq (46 kDa, Protein from Aeromonas salmonicida)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7wwv
Q-score: 0.484
Zhang M, Peng R, Peng Q, Liu S, Li Z, Zhang Y, Song H, Yang J, Xing X, Wang P, Qi J, Gao GF
PNAS (2023) 120 pp. e2215098120-e2215098120 [ DOI: doi:10.1073/pnas.2215098120 Pubmed: 37094126 ]
- Csy2 (29 kDa, Protein from Vibrio phage ICP1 2011 A)
- Guide-rna (19 kDa, RNA from Vibrio phage ICP1 2011 A)
- Non-target strand dna (18 kDa, DNA from Vibrio phage ICP1 2011 A)
- Target dna bound icp1 csy complex (Complex from Vibrio phage ICP1 2011 A)
- Target strand dna (18 kDa, DNA from Vibrio phage ICP1 2011 A)
- Csy3 (35 kDa, Protein from Vibrio phage ICP1 2011 A)
- Csy1 (22 kDa, Protein from Vibrio phage ICP1 2011 A)
Cascade complex from type I-A CRISPR-Cas system
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7tr9
Q-score: 0.225
Hu C, Ni D, Nam KH, Majumdar S, McLean J, Stahlberg H, Terns MP, Ke A
Mol Cell (2022) 82 pp. 2754-2768.e5 [ DOI: doi:10.1016/j.molcel.2022.06.007 Pubmed: 35835111 ]
- Cas7a (36 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Nickel (ii) ion (58 Da, Ligand)
- Crrna (45-mer) (14 kDa, RNA from Escherichia coli)
- Cas5a (29 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Crispr-associated helicase cas3 (61 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Partial r-loop state of cas3-cascade complex from pyrococcus furiosus type i-a crispr/cas system (450 kDa, Complex from Geobacter sulfurreducens)
- Non-target strand dna (2 kDa, DNA from Escherichia coli)
- Target strand dna (6 kDa, DNA from Escherichia coli)
- Crispr-associated endonuclease cas3-hd (26 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Cas11a (12 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Cas8a (38 kDa, Protein from Pyrococcus furiosus DSM 3638)
Cascade complex from type I-A CRISPR-Cas system
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7tra
Q-score: 0.324
Hu C, Ni D, Nam KH, Majumdar S, McLean J, Stahlberg H, Terns MP, Ke A
Mol Cell (2022) 82 pp. 2754-2768.e5 [ DOI: doi:10.1016/j.molcel.2022.06.007 Pubmed: 35835111 ]
- Full r-loop state of cas3-cascade complex from pyrococcus furiosus type i-a crispr/cas system (450 kDa, Complex from Geobacter sulfurreducens)
- Cas7a (36 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Nickel (ii) ion (58 Da, Ligand)
- Cas8a (38 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Cas5a (29 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Target strand dna (44-mer) (13 kDa, DNA from Escherichia coli)
- Crrna (44-mer) (14 kDa, RNA from Escherichia coli)
- Non-target strand dna (25-mer) (7 kDa, DNA from Escherichia coli)
- Cas11a (12 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Crispr-associated helicase cas3 (61 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Crispr-associated endonuclease cas3-hd (24 kDa, Protein from Pyrococcus furiosus DSM 3638)