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)
Small conformation of ssRNA-bound CRISPR_Csm complex
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6nud
Q-score: 0.254
Guo M, Zhang K, Zhu Y, Pintilie GD, Guan X, Li S, Schmid MF, Ma Z, Chiu W, Huang Z
Cell Res (2019) 29 pp. 305-312 [ Pubmed: 30814678 DOI: doi:10.1038/s41422-019-0151-x ]
- Crispr type iii-associated ramp protein csm4 (33 kDa, Protein from Streptococcus thermophilus)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Crrna (22 kDa, RNA from Streptococcus thermophilus)
- Small conformation of ssrna-bound crispr_csm complex (Complex from Streptococcus thermophilus)
- Crispr system cms protein csm2 (14 kDa, Protein from Streptococcus thermophilus)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (86 kDa, Protein from Streptococcus thermophilus)
- Target ssrna (15 kDa, RNA from Streptococcus thermophilus)
- Crispr type iii-associated ramp protein csm3 (24 kDa, Protein from Streptococcus thermophilus)
Small conformation of apo CRISPR_Csm complex
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6nue
Q-score: 0.305
Guo M, Zhang K, Zhu Y, Pintilie GD, Guan X, Li S, Schmid MF, Ma Z, Chiu W, Huang Z
Cell Res (2019) 29 pp. 305-312 [ Pubmed: 30814678 DOI: doi:10.1038/s41422-019-0151-x ]
- Small conformation of apo crispr_csm complex (Complex from Streptococcus thermophilus)
- Crispr type iii-associated ramp protein csm4 (33 kDa, Protein from Streptococcus thermophilus)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Crispr system cms protein csm2 (14 kDa, Protein from Streptococcus thermophilus)
- Crrna (22 kDa, RNA from Streptococcus thermophilus)
- Crispr system single-strand-specific deoxyribonuclease cas10/csm1 (subtype iii-a) (86 kDa, Protein from Streptococcus thermophilus)
- Crispr type iii-associated ramp protein csm3 (24 kDa, Protein from Streptococcus thermophilus)
Cryo-EM structure of Csm effector complex
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 6iqw
Q-score: 0.404
Huo Y, Li T, Wang N, Dong Q, Wang X, Jiang T
Cell Res (2018) 28 pp. 1195-1197 [ DOI: doi:10.1038/s41422-018-0115-6 Pubmed: 30459428 ]
- Csm4 (32 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Csm2 (22 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Csm5 (45 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Csm1 (88 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Rna (5'-r(*gp*up*gp*gp*ap*ap*ap*gp*up*gp*gp*cp*cp*cp*gp*ap*ap*ap*cp*cp*cp*up*up*c)-3') (7 kDa, RNA from Thermococcus onnurineus (strain NA1))
- Csm3 (32 kDa, Protein from Thermococcus onnurineus (strain NA1))
- Tocsm effector complex (Complex from Thermococcus onnurineus NA1)
Cryo-EM structure of type III-A Csm-CTR1 complex, AMPPNP bound
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6ifk
Q-score: 0.511
You L, Ma J, Wang J, Artamonova D, Wang M, Liu L, Xiang H, Severinov K, Zhang X, Wang Y
Cell (2019) 176 pp. 239-253.e16 [ DOI: doi:10.1016/j.cell.2018.10.052 Pubmed: 30503210 ]
- Type iii-a crispr-associated ramp protein csm3 (24 kDa, Protein from Streptococcus thermophilus ND03)
- Ctr1 (13 kDa, RNA from Streptococcus thermophilus ND03)
- Magnesium ion (24 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Type iii-a crispr-associated protein csm1 (86 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated ramp protein csm5 (41 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated ramp protein csm4 (33 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated protein csm2 (14 kDa, Protein from Streptococcus thermophilus ND03)
- Zinc ion (65 Da, Ligand)
- Csm-ctr1 complex, amppnp bound (290 kDa, Complex from Streptococcus thermophilus ND03)
- Crrna (10 kDa, RNA from Streptococcus thermophilus ND03)
Cryo-EM structure of type III-A Csm-NTR complex
Resolution: 3.16 Å
EM Method: Single-particle
Fitted PDBs: 6ifl
Q-score: 0.5
You L, Ma J, Wang J, Artamonova D, Wang M, Liu L, Xiang H, Severinov K, Zhang X, Wang Y
Cell (2019) 176 pp. 239-253.e16 [ DOI: doi:10.1016/j.cell.2018.10.052 Pubmed: 30503210 ]
- Type iii-a crispr-associated ramp protein csm3 (24 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated ramp protein csm5 (41 kDa, Protein from Streptococcus thermophilus)
- Ntr (13 kDa, RNA from Streptococcus thermophilus ND03)
- Csm-ctr1 complex, amppnp bound (87 kDa, Complex from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated ramp protein csm4 (33 kDa, Protein from Streptococcus thermophilus ND03)
- Crrna (11 kDa, RNA from Streptococcus thermophilus ND03)
- Csm1 (Complex from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated protein csm2 (14 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated protein csm1 (86 kDa, Protein from Streptococcus thermophilus ND03)
Type III-A Csm complex, Cryo-EM structure of Csm-NTR, ATP bound
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 6ifr
Q-score: 0.456
You L, Ma J, Wang J, Artamonova D, Wang M, Liu L, Xiang H, Severinov K, Zhang X, Wang Y
Cell (2019) 176 pp. 239-253.e16 [ DOI: doi:10.1016/j.cell.2018.10.052 Pubmed: 30503210 ]
- Csm-ntr complex, atp bound (290 kDa, Complex from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated ramp protein csm3 (24 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a crispr-cas interference complex, ntr (13 kDa, RNA from Streptococcus thermophilus ND03)
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Type iii-a crispr-associated protein csm1 (86 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated ramp protein csm5 (41 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated ramp protein csm4 (33 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated protein csm2 (14 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a crispr-cas interference complex, crrna (11 kDa, RNA from Streptococcus thermophilus ND03)
Cryo-EM structure of type III-A Csm-CTR2-dsDNA complex
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 6ifu
Q-score: 0.508
You L, Ma J, Wang J, Artamonova D, Wang M, Liu L, Xiang H, Severinov K, Zhang X, Wang Y
Cell (2019) 176 pp. 239-253.e16 [ DOI: doi:10.1016/j.cell.2018.10.052 Pubmed: 30503210 ]
- Type iii-a crispr-associated ramp protein csm3 (24 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated ramp protein csm4 (33 kDa, Protein from Streptococcus thermophilus ND03)
- Crrna (11 kDa, RNA from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated protein csm2 (14 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a csm-ctr2-dsdna complex, csm1 subunit (Complex from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated protein csm1 (86 kDa, Protein from Streptococcus thermophilus ND03)
- Type iii-a csm-ctr2-dsdna complex (300 kDa, Complex from Streptococcus thermophilus ND03)
- Type iii-a crispr-associated ramp protein csm5 (41 kDa, Protein from Streptococcus thermophilus ND03)
- Ctr2 (16 kDa, RNA from Streptococcus thermophilus ND03)