CryoEM structure of Enterococcus italicus Csm-crRNA (3.2 complex)
Jungfer K, Moravcik S, Garcia-Doval C, Knorlein A, Hall J, Jinek M
Nucleic Acids Res (2025) 53 [ Pubmed: 39817514 DOI: doi:10.1093/nar/gkae1277 ]
- Crispr system cms protein csm4 (34 kDa, Protein from Enterococcus italicus DSM 15952)
- Crispr system cms protein csm5 (43 kDa, Protein from Enterococcus italicus DSM 15952)
- Rna (30-mer) (14 kDa, RNA from Enterococcus italicus DSM 15952)
- Binary csm-crrna complex with (csm1)1(csm2)2(csm3)3(csm4)1(csm5)1 stoichiometry (260 kDa, Complex from Enterococcus italicus DSM 15952)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (88 kDa, Protein from Enterococcus italicus DSM 15952)
- Crispr system cms protein csm2 (16 kDa, Protein from Enterococcus italicus DSM 15952)
- Crispr system cms endoribonuclease csm3 (23 kDa, Protein from Enterococcus italicus DSM 15952)
CryoEM structure of Enterococcus italicus Csm-crRNA (4.3) complex
Jungfer K, Moravcik S, Garcia-Doval C, Knorlein A, Hall J, Jinek M
Nucleic Acids Res (2025) 53 [ Pubmed: 39817514 DOI: doi:10.1093/nar/gkae1277 ]
- Crispr system cms protein csm4 (34 kDa, Protein from Enterococcus italicus DSM 15952)
- Crispr system cms protein csm5 (43 kDa, Protein from Enterococcus italicus DSM 15952)
- Binary csm-crrna complex with (csm1)1(csm2)3(csm3)4(csm4)1(csm5)1 stoichiometry (300 kDa, Complex from Enterococcus italicus DSM 15952)
- Rna (35-mer) (14 kDa, RNA from Enterococcus italicus DSM 15952)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (88 kDa, Protein from Enterococcus italicus DSM 15952)
- Crispr system cms protein csm2 (16 kDa, Protein from Enterococcus italicus DSM 15952)
- Crispr system cms endoribonuclease csm3 (23 kDa, Protein from Enterococcus italicus DSM 15952)
CryoEM structure of Enterococcus italicus Csm-crRNA-CTR1 complex (4.3) bound to AMPNPP
Jungfer K, Moravcik S, Garcia-Doval C, Knorlein A, Hall J, Jinek M
Nucleic Acids Res (2025) 53 [ Pubmed: 39817514 DOI: doi:10.1093/nar/gkae1277 ]
- Crispr system cms protein csm4 (34 kDa, Protein from Enterococcus italicus DSM 15952)
- Crispr system cms protein csm5 (43 kDa, Protein from Enterococcus italicus DSM 15952)
- Magnesium ion (24 Da, Ligand)
- Ternary csm-crrna-ctr complex bound to ampnpp in productive state with (csm1)1(csm2)3(csm3)4(csm4)1(csm5)1 stoichiometry (315 kDa, Complex)
- 5'-o-[(s)-hydroxy{[(s)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]adenosine (506 Da, Ligand)
- Rna (35-mer) (14 kDa, RNA from Enterococcus italicus DSM 15952)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (88 kDa, Protein from Enterococcus italicus DSM 15952)
- Crispr system cms protein csm2 (16 kDa, Protein from Enterococcus italicus DSM 15952)
- Ctr (15 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Enterococcus italicus csm-crrna-ctr1 complex (4.3) (Complex from Enterococcus italicus DSM 15952)
- Crispr system cms endoribonuclease csm3 (23 kDa, Protein from Enterococcus italicus DSM 15952)
- Covid19 rna (Complex from Severe acute respiratory syndrome coronavirus 2)
CryoEM structure of Enterococcus italicus Csm-crRNA-CTR1 complex bound to pNppA3 and AMPNPP
Jungfer K, Moravcik S, Garcia-Doval C, Knorlein A, Hall J, Jinek M
Nucleic Acids Res (2025) 53 [ Pubmed: 39817514 DOI: doi:10.1093/nar/gkae1277 ]
- Crispr system cms protein csm4 (34 kDa, Protein from Enterococcus italicus DSM 15952)
- Crispr system cms protein csm5 (43 kDa, Protein from Enterococcus italicus DSM 15952)
- Adenosine-5'-[(beta,gamma)-imido]triphosphate-adenosine-monophosphate-adenosine-monophosphate (1 kDa, Ligand)
- Enterococcus italicus csm-crrna-ctr1 complex (Complex from Enterococcus italicus DSM 15952)
- Crrna (14 kDa, RNA from Enterococcus italicus DSM 15952)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Ternary csm-crrna-ctr complex bound to pnppa3 and amppnp in productive state with (csm1)1(csm2)2(csm3)3(csm4)1(csm5)1 stoichiometry (275 kDa, Complex)
- Magnesium ion (24 Da, Ligand)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (88 kDa, Protein from Enterococcus italicus DSM 15952)
- Crispr system cms protein csm2 (16 kDa, Protein from Enterococcus italicus DSM 15952)
- Ctr (15 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Crispr system cms endoribonuclease csm3 (23 kDa, Protein from Enterococcus italicus DSM 15952)
- Covid19 rna (Complex from Severe acute respiratory syndrome coronavirus 2)
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 ]
- Magnesium ion (24 Da, Ligand)
- Crispr-associated protein csm4 (33 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr system cms protein csm5 (40 kDa, Protein from Lactococcus lactis subsp. lactis)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Water (18 Da, Ligand)
- Crispr system cms protein csm2 (17 kDa, Protein from Lactococcus lactis subsp. lactis)
- Rna (5'-d(*(atp))-r(p*ap*a)-3') (1 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)
- Crispr rna (11 kDa, RNA from Lactococcus lactis subsp. lactis)
- Target rna (11 kDa, RNA from Lactococcus lactis subsp. lactis)
- Crispr system cms endoribonuclease csm3 (23 kDa, Protein from Lactococcus lactis subsp. lactis)
- Atp bound lactococcus lactis csm crispr-cas complex with stable cas10 (Complex 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 ]
- Magnesium ion (24 Da, Ligand)
- Lactococcus lactis csm crispr-cas complex, atp bound and cas10 flexible (Complex from Lactococcus lactis subsp. lactis)
- Crispr-associated protein csm4 (33 kDa, Protein from Lactococcus lactis subsp. lactis)
- Crispr system cms protein csm5 (40 kDa, Protein from Lactococcus lactis subsp. lactis)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Adenosine monophosphate (347 Da, Ligand)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (87 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)
- Target rna (11 kDa, RNA from Lactococcus lactis subsp. lactis)
- Crispr system cms endoribonuclease csm3 (23 kDa, Protein from Lactococcus lactis subsp. lactis)
Cryo-EM structure of CRISPR-Csm effector complex from Mycobacterium canettii
Resolution: 3.73 Å
EM Method: Single-particle
Fitted PDBs: 8wfx
Q-score: 0.39
Zhang H, Shi M, Ma X, Liu M, Wang N, Lu Q, Li Z, Zhao Y, Zhao H, Chen H, Zhang H, Jiang T, Ouyang S, Huo Y, Bi L
Int J Biol Macromol (2024) 260 pp. 129331-129331 [ Pubmed: 38218299 DOI: doi:10.1016/j.ijbiomac.2024.129331 ]
- Rna (50-mer) (16 kDa, RNA from Mycobacterium canettii)
- Crispr system cms protein csm2 (15 kDa, Protein from Mycobacterium canettii)
- Csm effector complex (Complex from Mycobacterium canettii)
- Crispr system cms protein csm5 (42 kDa, Protein from Mycobacterium canettii)
- Crispr system cms protein csm4 (32 kDa, Protein from Mycobacterium canettii)
- Crispr system cms endoribonuclease csm3 (25 kDa, Protein from Mycobacterium canettii)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (91 kDa, Protein from Mycobacterium canettii)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6o7e
Q-score: 0.442
Jia N, Jones R, Sukenick G, Patel DJ
Mol Cell (2019) 75 pp. 933-943.e6 [ DOI: doi:10.1016/j.molcel.2019.06.013 Pubmed: 31326272 ]
- Csm4 (32 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Manganese (ii) ion (54 Da, Ligand)
- Csm-crrna-target rna complex (300 kDa, Complex from Thermococcus onnurineus)
- Zinc ion (65 Da, Ligand)
- Rna (40-mer) (12 kDa, RNA from Thermococcus onnurineus)
- Csm5 (40 kDa, Protein from Thermococcus onnurineus NA1)
- Csm2 (21 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Rna (38-mer) (12 kDa, RNA from Thermococcus onnurineus)
- Csm1 (89 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Csm3 (32 kDa, Protein from Thermococcus onnurineus (strain NA1))
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 6o7h
Q-score: 0.521
Jia N, Jones R, Sukenick G, Patel DJ
Mol Cell (2019) 75 pp. 933-943.e6 [ DOI: doi:10.1016/j.molcel.2019.06.013 Pubmed: 31326272 ]
- Csm5 (40 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Csm2 (21 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Rna (38-mer) (12 kDa, RNA from Thermococcus onnurineus (strain NA1))
- Csm4 (32 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Csm-crrna-target rna-amppnp complex (Complex from Thermococcus onnurineus)
- Rna (40-mer) (12 kDa, RNA from Thermococcus onnurineus (strain NA1))
- Csm3 (32 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Guanosine-5'-monophosphate (363 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Cyclic dna ca4 (1 kDa, RNA from synthetic construct)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (89 kDa, Protein from Thermococcus onnurineus (strain NA1))
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6o7i
Q-score: 0.439
Jia N, Jones R, Sukenick G, Patel DJ
Mol Cell (2019) 75 pp. 933-943.e6 [ DOI: doi:10.1016/j.molcel.2019.06.013 Pubmed: 31326272 ]
- Csm5 (40 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Csm4 (32 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Rna (5'-r(p*ap*ap*ap*a)-3') (1 kDa, RNA from synthetic construct)
- Csm-crrna-target rna complex (300 kDa, Complex from Thermococcus onnurineus)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (89 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Zinc ion (65 Da, Ligand)
- Rna (40-mer) (12 kDa, RNA from Thermococcus onnurineus)
- Csm2 (21 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Rna (38-mer) (12 kDa, RNA from Thermococcus onnurineus)
- Csm3 (32 kDa, Protein from Thermococcus onnurineus (strain NA1))