WT CRISPR-Cas12a with a 20bp R-loop and nontarget strand in the RuvC active site.
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8sfo
Q-score: 0.397
To Be Published
- Wt ascas12a incubated with 20bp-complementary target dna. (Complex from Acidaminococcus sp. BV3L6)
- Dna (40-mer) (17 kDa, DNA from synthetic construct)
- Dna (35-mer) (17 kDa, DNA from synthetic construct)
- Crispr-associated endonuclease cas12a (151 kDa, Protein from Acidaminococcus sp. BV3L6)
- Magnesium ion (24 Da, Ligand)
- Rna (39-mer) (15 kDa, RNA from synthetic construct)
WT CRISPR-Cas12a with the target strand in the RuvC active site.
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8sfp
Q-score: 0.321
To Be Published
- Wt ascas12a incubated with 20bp-complementary target dna with phosphorothioate-modified target strand. (Complex from Acidaminococcus sp. BV3L6)
- Dna (40-mer) (17 kDa, DNA from synthetic construct)
- Dna (5'-d(p*cp*tp*tp*cp*cp*gp*ap*tp*cp*tp*tp*tp*tp*ap*gp*tp*gp*ap*tp*a)-3') (17 kDa, DNA from synthetic construct)
- Crispr-associated endonuclease cas12a (151 kDa, Protein from Acidaminococcus sp. BV3L6)
- Rna (39-mer) (15 kDa, RNA from synthetic construct)
WT CRISPR-Cas12a post nontarget strand-cleavage with the the RuvC active site exposed.
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8sfq
Q-score: 0.353
To Be Published
- Wt ascas12a incubated with 20bp-complementary target dna with phosphorothioate-modified target strand. (Complex from Acidaminococcus sp. BV3L6)
- Dna (5'-d(p*cp*tp*tp*cp*cp*gp*ap*tp*cp*tp*tp*tp*tp*ap*gp*tp*gp*ap*t)-3') (17 kDa, DNA from synthetic construct)
- Dna (34-mer) (17 kDa, DNA from synthetic construct)
- Crispr-associated endonuclease cas12a (151 kDa, Protein from Acidaminococcus sp. BV3L6)
- Rna (39-mer) (15 kDa, RNA from synthetic construct)
WT CRISPR-Cas12a post nontarget strand cleavage.
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8sfr
Q-score: 0.347
To Be Published
- Wt ascas12a incubated with 20bp-complementary target dna with phosphorothioate-modified target strand. (Complex from Acidaminococcus sp. BV3L6)
- Dna (5'-d(p*cp*tp*tp*cp*cp*gp*ap*tp*cp*tp*tp*tp*tp*ap*gp*tp*gp*ap*t)-3') (17 kDa, DNA from synthetic construct)
- Dna (34-mer) (17 kDa, DNA from synthetic construct)
- Crispr-associated endonuclease cas12a (151 kDa, Protein from Acidaminococcus sp. BV3L6)
- Rna (39-mer) (15 kDa, RNA from synthetic construct)
Cryo-EM structure of DiCas7-11 mutant in complex with crRNA
Resolution: 3.53 Å
EM Method: Single-particle
Fitted PDBs: 8wmi
Q-score: 0.426
Hong T, Luo Q, Ma H, Wang X, Li X, Shen C, Pang J, Wang Y, Chen Y, Zhang C, Su Z, Dong H, Tang X
Signal Transduct Target Ther (2024) 9 pp. 111-111 [ Pubmed: 38735995 DOI: doi:10.1038/s41392-024-01821-4 ]
- Zinc ion (65 Da, Ligand)
- Crrna (39-mer) (12 kDa, RNA from Escherichia coli)
- Crispr-associated ramp family protein (183 kDa, Protein from Desulfonema ishimotonii)
- Binary complex of dicas7-11 mutant with crrna (Complex from Escherichia coli)
Golden Shiner Reovirus Core Tropical Vertex
Resolution: 3.27 Å
EM Method: Single-particle
Fitted PDBs: 8fjl
Q-score: 0.465
Stevens A, Cui Y, Shivakoti S, Zhou ZH
Protein Cell (2023) 14 pp. 544-548 [ DOI: doi:10.1093/procel/pwad002 Pubmed: 36856784 ]
- Rna (60-mer) (19 kDa, RNA from Golden shiner reovirus)
- Major inner capsid protein vp3 (9 kDa, Protein from Golden shiner reovirus)
- Microtubule-associated protein vp5 (79 kDa, Protein from Golden shiner reovirus)
- Major inner capsid protein vp3 (124 kDa, Protein from Golden shiner reovirus)
- Rna (52-mer) (16 kDa, RNA from Golden shiner reovirus)
- Golden shiner reovirus (47 MDa, Virus from Golden shiner reovirus)
- Rna (38-mer) (8 kDa, RNA from Golden shiner reovirus)
- Clamp protein vp6 (44 kDa, Protein from Golden shiner reovirus)
- Outer capsid protein vp1 (141 kDa, Protein from Golden shiner reovirus)
- Zinc ion (65 Da, Ligand)
- Rna-directed rna polymerase vp2 (141 kDa, Protein from Golden shiner reovirus)
- Rna (30-mer) (12 kDa, RNA from Golden shiner reovirus)
- Rna (39-mer) (12 kDa, RNA from Golden shiner reovirus)
Cryo-EM structure of a CRISPR effector in complex with a caspase regulator
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7zoq
Q-score: 0.431
Ekundayo B, Torre D, Beckert B, Nazarov S, Myasnikov A, Stahlberg H, Ni D
Nat Struct Mol Biol (2023) 30 pp. 135-139 [ DOI: doi:10.1038/s41594-022-00894-5 Pubmed: 36471056 ]
- Rna (39-mer) (12 kDa, RNA from Desulfonema magnum)
- Cas7-11 (207 kDa, Protein from Desulfonema magnum)
- Cas7-11 with trp-chat-full (310 kDa, Complex from Desulfonema magnum)
- Zinc ion (65 Da, Ligand)
- Tpr-chat (95 kDa, Protein from Desulfonema magnum)
Structure of Cas7-11 in complex with guide RNA and target RNA
Resolution: 2.45 Å
EM Method: Single-particle
Fitted PDBs: 7wah
Q-score: 0.561
Kato K, Zhou W, Okazaki S, Isayama Y, Nishizawa T, Gootenberg JS, Abudayyeh OO, Nishimasu H
Cell (2022) 185 pp. 2324-2337.e16 [ DOI: doi:10.1016/j.cell.2022.05.003 Pubmed: 35643083 ]
- Zinc ion (65 Da, Ligand)
- Crrna and target rna (Complex from Desulfonema ishimotonii)
- Cas7-11 in complex with a crrna and its target rna (Complex from Escherichia coli)
- Crispr-associated ramp family protein (185 kDa, Protein from Desulfonema ishimotonii)
- Crrna (39-mer) (12 kDa, RNA from Escherichia coli)
- Cas7-11 (Complex)
- Tgrna (5'-r(p*up*ap*cp*cp*cp*ap*up*gp*up*cp*gp*ap*ap*gp*ap*cp*ap*ap*cp*ap*ap*ap*g)-3') (7 kDa, RNA from Escherichia coli)
The cryo-EM structure of A. thaliana Pol IV-RDR2 backtracked complex
Resolution: 3.16 Å
EM Method: Single-particle
Fitted PDBs: 7eu0
Q-score: 0.487
Huang K, Wu XX, Fang CL, Xu ZG, Zhang HW, Gao J, Zhou CM, You LL, Gu ZX, Mu WH, Feng Y, Wang JW, Zhang Y
Science (2021) 374 pp. 1579-1586 [ Pubmed: 34941388 DOI: doi:10.1126/science.abj9184 ]
- Rna-dependent rna polymerase 2 (129 kDa, Protein from Arabidopsis thaliana)
- Dna-directed rna polymerases ii, iv and v subunit 6a (16 kDa, Protein from Arabidopsis thaliana)
- Dna-directed rna polymerases ii and iv subunit 5a (24 kDa, Protein from Arabidopsis thaliana)
- Dna-directed rna polymerases ii, iv and v subunit 3 (35 kDa, Protein from Arabidopsis thaliana)
- A. thaliana pol iv-rdr2 backtracked complex (550 kDa, Complex from Arabidopsis thaliana)
- Dna-directed rna polymerases iv and v subunit 2 (132 kDa, Protein from Arabidopsis thaliana)
- Dna-directed rna polymerases ii, iv and v subunit 8b (16 kDa, Protein from Arabidopsis thaliana)
- Dna-directed rna polymerases ii, iv and v subunit 12 (5 kDa, Protein from Arabidopsis thaliana)
- Dna (33-mer) (9 kDa, DNA from synthetic construct)
- Dna-directed rna polymerases ii, iv and v subunit 9a (13 kDa, Protein from Arabidopsis thaliana)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerases ii, iv and v subunit 10 (8 kDa, Protein from Arabidopsis thaliana)
- Dna (5'-d(*cp*tp*gp*tp*gp*cp*tp*tp*ap*tp*cp*gp*gp*tp*ap*gp*ap*gp*tp*g)-3') (6 kDa, DNA from synthetic construct)
- Rna (5'-r(*cp*cp*gp*a)-3') (1 kDa, RNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Rna (39-mer) (12 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase iv subunit 1 (169 kDa, Protein from Arabidopsis thaliana)
- Dna-directed rna polymerases ii, iv and v subunit 11 (13 kDa, Protein from Arabidopsis thaliana)