Cryo-EM structure of the active Lactococcus lactis Csm bound to target in post-cleavage stage
Resolution: 2.58 Å
EM Method: Single-particle
Fitted PDBs: 9ash
Q-score: 0.56
Goswami HN, Ahmadizadeh F, Wang B, Addo-Yobo D, Zhao Y, Whittington AC, He H, Terns MP, Li H
Nucleic Acids Res (2024) 52 pp. 10619-10629 [ DOI: doi:10.1093/nar/gkae603 Pubmed: 38989619 ]
- Crispr system cms protein csm5 (40 kDa, Protein from Lactococcus lactis subsp. lactis)
- Target rna (11 kDa, RNA from Lactococcus lactis subsp. lactis)
- Atp bound lactococcus lactis csm crispr-cas complex with stable cas10 (Complex from Lactococcus lactis subsp. lactis)
- Water (18 Da, Ligand)
- Rna (5'-d(*(atp))-r(p*ap*a)-3') (1 kDa, RNA from Lactococcus lactis subsp. lactis)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Crispr-associated protein csm4 (33 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr system cms endoribonuclease csm3 (23 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr system cms protein csm2 (17 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr rna (11 kDa, RNA from Lactococcus lactis subsp. lactis)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (87 kDa, Protein from Lactococcus lactis subsp. lactis)
Cryo-EM structure of the active Lactococcus lactis Csm bound to target in pre-cleavage stage
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 9asi
Q-score: 0.467
Goswami HN, Ahmadizadeh F, Wang B, Addo-Yobo D, Zhao Y, Whittington AC, He H, Terns MP, Li H
Nucleic Acids Res (2024) 52 pp. 10619-10629 [ DOI: doi:10.1093/nar/gkae603 Pubmed: 38989619 ]
- Crispr system cms protein csm5 (40 kDa, Protein from Lactococcus lactis subsp. lactis)
- Target rna (11 kDa, RNA from Lactococcus lactis subsp. lactis)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Crispr-associated protein csm4 (33 kDa, Protein from Lactococcus lactis subsp. lactis)
- Adenosine monophosphate (347 Da, Ligand)
- Crispr system cms endoribonuclease csm3 (23 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr system cms protein csm2 (17 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (87 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr rna (11 kDa, RNA from Lactococcus lactis subsp. lactis)
- Lactococcus lactis csm crispr-cas complex, atp bound and cas10 flexible (Complex from Lactococcus lactis subsp. lactis)
Cascade complex from type I-A CRISPR-Cas system
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7tr6
Q-score: 0.263
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)
- Crrna (45-mer) (14 kDa, RNA from Escherichia coli)
- Cas5a (29 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Cascade complex from pyrococcus furiosus type i-a crispr/cas system (350 kDa, Complex from Geobacter sulfurreducens)
- 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: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7tr8
Q-score: 0.122
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)
- Cas3 bound cascade complex from pyrococcus furiosus type i-a crispr/cas system (400 kDa, Complex from Geobacter sulfurreducens)
- Cas8 (38 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Crispr-associated endonuclease cas3-hd (26 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Cas11a (12 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Crispr-associated helicase cas3 (61 kDa, Protein from Pyrococcus furiosus DSM 3638)
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)
Cas3-Cas8 complex from type I-A CRISPR-Cas system
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 ]
Structure of the Lactococcus lactis Csm CTR_4:3 CRISPR-Cas Complex
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 6xn3
Q-score: 0.467
Sridhara S, Rai J, Whyms C, Goswami H, He H, Woodside W, Terns MP, Li H
Commun Biol (2022) 5 pp. 279-279 [ Pubmed: 35351985 DOI: doi:10.1038/s42003-022-03187-1 ]
- Target rna (11 kDa, RNA from Lactococcus lactis subsp. lactis)
- Crispr-associated protein csm3 (23 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr-associated protein csm5 (40 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr-associated protein cas10 (87 kDa, Protein from Lactococcus lactis subsp. lactis)
- Lactococcus lactis csm crispr-cas ntr complex (Complex from Lactococcus lactis subsp. lactis)
- Crispr rna (11 kDa, RNA from Lactococcus lactis subsp. lactis)
- Crispr-associated protein csm2 (15 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr-associated protein csm4 (33 kDa, Protein from Lactococcus lactis subsp. lactis)
Structure of the Lactococcus lactis Csm CTR_3:2 CRISPR-Cas Complex
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 6xn4
Q-score: 0.414
Sridhara S, Rai J, Whyms C, Goswami H, He H, Woodside W, Terns MP, Li H
Commun Biol (2022) 5 pp. 279-279 [ DOI: doi:10.1038/s42003-022-03187-1 Pubmed: 35351985 ]
- Lactococcus lactis csm crispr-cas ctr_3:2 complex (Complex from Lactococcus lactis subsp. lactis)
- Crispr-associated protein csm4 (33 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr-associated protein csm2 (15 kDa, Protein from Lactococcus lactis subsp. lactis)
- Target rna (9 kDa, RNA from Lactococcus lactis subsp. lactis)
- Crispr rna (11 kDa, RNA from Lactococcus lactis subsp. lactis)
- Crispr-associated protein csm3 (23 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr-associated protein csm5 (40 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr-associated protein cas10 (87 kDa, Protein from Lactococcus lactis subsp. lactis)
Structure of the Lactococcus lactis Csm Apo- CRISPR-Cas Complex
Resolution: 2.97 Å
EM Method: Single-particle
Fitted PDBs: 6xn5
Q-score: 0.486
Sridhara S, Rai J, Whyms C, Goswami H, He H, Woodside W, Terns MP, Li H
Commun Biol (2022) 5 pp. 279-279 [ Pubmed: 35351985 DOI: doi:10.1038/s42003-022-03187-1 ]
- Crispr-associated protein csm3 (23 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr-associated protein csm5 (40 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr-associated protein cas10 (87 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr rna (10 kDa, RNA from Lactococcus lactis subsp. lactis)
- Lactococcus lactis csm crispr-cas apo complex (Complex from Lactococcus lactis subsp. lactis)
- Crispr-associated protein csm4 (33 kDa, Protein from Lactococcus lactis subsp. lactis)