Type I-EHNH Cascade-ssDNA complex
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8yha
Q-score: 0.508
Zhang C, Chen F, Wang F, Xu H, Xue J, Li Z
Mol Cell (2024) 84 pp. 3141- [ DOI: doi:10.1016/j.molcel.2024.06.033 Pubmed: 39047725 ]
- Zinc ion (65 Da, Ligand)
- Crispr system cascade subunit casd (43 kDa, Protein from Candidatus Cloacimonetes bacterium ADurb.Bin088)
- Crispr-associated protein cse2 (crispr_cse2) (20 kDa, Protein from Candidatus Cloacimonetes bacterium ADurb.Bin088)
- Crispr-associated endoribonuclease cse3 (31 kDa, Protein from Candidatus Cloacimonetes bacterium ADurb.Bin088)
- Type i-ehnh cascade-ssdna complex (Complex from Candidatus Cloacimonadota bacterium)
- Crispr system cascade subunit casc (41 kDa, Protein from Candidatus Cloacimonetes bacterium ADurb.Bin088)
- Dna/rna (47-mer) (17 kDa, Macromolecule from Candidatus Cloacimonadota bacterium)
- Crispr-associated protein cse1 (crispr_cse1) (60 kDa, Protein from Candidatus Cloacimonetes bacterium ADurb.Bin088)
- 61-nt crrna (19 kDa, RNA from Candidatus Cloacimonadota bacterium)
The cryo-EM structure of the Mycobacterium tuberculosis CRISPR-Csm complex
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8x5d
Q-score: 0.547
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 [ DOI: doi:10.1016/j.ijbiomac.2024.129331 Pubmed: 38218299 ]
- Csm2 (Complex from Mycobacterium canettii)
- Mycobacteria crispr-csm complexes (Complex from Mycobacterium tuberculosis)
- Crispr system cms protein csm5 (42 kDa, Protein from Mycobacterium tuberculosis)
- Crispr system cms endoribonuclease csm3 (26 kDa, Protein from Mycobacterium tuberculosis)
- Rna (47-mer) (59 kDa, RNA from Mycobacterium tuberculosis)
- Csm2 (15 kDa, Protein from Mycobacterium canettii)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8f3c
Q-score: 0.419
Chauvier A, Porta JC, Deb I, Ellinger E, Meze K, Frank AT, Ohi MD, Walter NG
Nat Struct Mol Biol (2023) 30 pp. 902-913 [ DOI: doi:10.1038/s41594-023-01002-x Pubmed: 37264140 ]
- Dna (39-mer) (11 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli)
- Rna (47-mer) (15 kDa, RNA from Escherichia coli)
- Dna (38-mer) (12 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit omega (11 kDa, Protein from Escherichia coli)
- Cryo-em consensus structure of escherichia coli que-pec (paused elongation complex) rna polymerase minus preq1 ligand (420 kDa, Complex from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8g00
Q-score: 0.419
Chauvier A, Porta JC, Deb I, Ellinger E, Meze K, Frank AT, Ohi MD, Walter NG
Nat Struct Mol Biol (2023) 30 pp. 902-913 [ DOI: doi:10.1038/s41594-023-01002-x Pubmed: 37264140 ]
- Dna-directed rna polymerase subunit alpha (26 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (25 kDa, Protein from Escherichia coli)
- Dna (31-mer) (9 kDa, DNA from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Cryo-em structure of 3dva component 0 of escherichia coli que-pec (paused elongation complex) rna polymerase minus preq1 ligand . (420 kDa, Complex from Escherichia coli)
- Dna (39-mer) (12 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
- Rna (47-mer) (15 kDa, RNA from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8g1s
Q-score: 0.389
Chauvier A, Porta JC, Deb I, Ellinger E, Meze K, Frank AT, Ohi MD, Walter NG
Nat Struct Mol Biol (2023) 30 pp. 902-913 [ DOI: doi:10.1038/s41594-023-01002-x Pubmed: 37264140 ]
- Dna-directed rna polymerase subunit beta' (152 kDa, Protein from Escherichia coli)
- Cryo-em structure of 3dva component 1 of escherichia coli que-pec (paused elongation complex) rna polymerase minus preq1 ligand (420 kDa, Complex)
- Rna (47-mer) (15 kDa, RNA from Bacillus subtilis)
- Dna-directed rna polymerase subunit alpha, dna-directed rna polymerase subunit beta, dna-directed rna polymerase subunit beta', dna-directed rna polymerase subunit omega, dna (Complex from Escherichia coli)
- Dna (31-mer) (9 kDa, DNA from Escherichia coli)
- Dna (39-mer) (12 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (25 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit omega (9 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
- Rna (Complex from Bacillus subtilis)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8g2w
Q-score: 0.368
Chauvier A, Porta JC, Deb I, Ellinger E, Meze K, Frank AT, Ohi MD, Walter NG
Nat Struct Mol Biol (2023) 30 pp. 902-913 [ DOI: doi:10.1038/s41594-023-01002-x Pubmed: 37264140 ]
- Dna-directed rna polymerase subunit omega (8 kDa, Protein from Escherichia coli)
- Cryo-em structure of 3dva component 2 of escherichia coli que-pec (paused elongation complex) rna polymerase minus preq1 ligand (420 kDa, Complex from Escherichia coli)
- Dna (31-mer) (9 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (25 kDa, Protein from Escherichia coli)
- Dna (39-mer) (12 kDa, DNA from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
- Rna (47-mer) (15 kDa, RNA from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (150 kDa, Protein from Escherichia coli)
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8g4w
Q-score: 0.338
Chauvier A, Porta JC, Deb I, Ellinger E, Meze K, Frank AT, Ohi MD, Walter NG
Nat Struct Mol Biol (2023) 30 pp. 902-913 [ DOI: doi:10.1038/s41594-023-01002-x Pubmed: 37264140 ]
- Dna (39-mer) (12 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (150 kDa, Protein from Escherichia coli)
- Cryo-em consensus structure of escherichia coli que-pec (paused elongation complex) rna polymerase plus preq1 ligand (420 kDa, Complex from Escherichia coli)
- Dna-directed rna polymerase subunit omega (8 kDa, Protein from Escherichia coli)
- Rna (47-mer) (15 kDa, RNA from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
- Dna (31-mer) (9 kDa, DNA from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit alpha (25 kDa, Protein from Escherichia coli)
- 7-deaza-7-aminomethyl-guanine (179 Da, Ligand)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8g7e
Q-score: 0.294
Chauvier A, Porta JC, Deb I, Ellinger E, Meze K, Frank AT, Ohi MD, Walter NG
Nat Struct Mol Biol (2023) 30 pp. 902-913 [ DOI: doi:10.1038/s41594-023-01002-x Pubmed: 37264140 ]
- Dna (39-mer) (12 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit omega (8 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
- Rna (47-mer) (15 kDa, RNA from Escherichia coli)
- Dna (31-mer) (9 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Cryo-em structure of 3dva component 0 of escherichia coli que-pec (paused elongation complex) rna polymerase plus preq1 ligand (420 kDa, Complex from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (25 kDa, Protein from Escherichia coli)
- 7-deaza-7-aminomethyl-guanine (179 Da, Ligand)
D. vulgaris type I-C Cascade bound to dsDNA target
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 8dej
Q-score: 0.523
O'Brien RE, Bravo JPK, Ramos D, Hibshman GN, Wright JT, Taylor DW
Mol Cell (2023) 83 pp. 746- [ Pubmed: 36805026 DOI: doi:10.1016/j.molcel.2023.01.024 ]
- Dna (48-mer) (14 kDa, Macromolecule from synthetic construct)
- Pre-crrna processing endonuclease (26 kDa, Protein from Desulfovibrio vulgaris)
- Crispr-associated protein, ct1133 family (14 kDa, Protein from Desulfovibrio vulgaris)
- Crispr-associated protein, ct1133 family (68 kDa, Protein from Desulfovibrio vulgaris)
- Rna (47-mer) (15 kDa, RNA from Desulfovibrio vulgaris)
- Crispr-associated protein, tm1801 family (32 kDa, Protein from Desulfovibrio vulgaris)
- Dna (40-mer) (12 kDa, DNA from synthetic construct)
- Type i-c cascade bound to dsdna target (Complex)
Substrate Recruitment Pathways in the Yeast Exosome by Electron Microscopy
Liu JJ, Bratkowski MA, Liu X, Niu CY, Ke A, Wang HW
Nat Struct Mol Biol (2014) 21 pp. 95-102 [ DOI: doi:10.1038/nsmb.2736 Pubmed: 24336220 ]
- Mtr3 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp43 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rrp46-tap (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44 (110 kDa, Protein from Saccharomyces cerevisiae)
- Csl4 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp40 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp45 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rna47 (1 kDa, RNA from synthetic construct)
- Rrp42 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp4 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44-exosome incubated with rna47 (350 kDa, Sample)
- Rrp41 (30 kDa, Protein from Saccharomyces cerevisiae)