Do data resources managed by EMBL-EBI and our collaborators make a difference to your work? Please take 10 minutes to fill in our annual user survey, and help us make the case for why sustaining open data resources is critical for life sciences research. We appreciate your responses prior to closing of the survey on Monday 17th June.
Cryo-EM structure of GeoCas9 in complex with sgRNA and target DNA
Resolution: 3.17 Å
EM Method: Single-particle
Fitted PDBs: 8uza
Q-score: 0.516
Eggers AR, Chen K, Soczek KM, Tuck OT, Doherty EE, Xu B, Trinidad MI, Thornton BW, Yoon PH, Doudna JA
Cell (2024) [ Pubmed: 38781968 DOI: doi:10.1016/j.cell.2024.04.031 ]
- Sgrna (107-mer) (44 kDa, RNA from Geobacillus stearothermophilus)
- Non-target strand dna (15 kDa, DNA from Mus musculus)
- Crispr-associated endonuclease cas9 (127 kDa, Protein from Geobacillus stearothermophilus)
- Ternary complex of deactivated wild type geocas9 with sgrna and target dna (203 kDa, Complex from Geobacillus stearothermophilus)
- Target strand dna (15 kDa, DNA from Mus musculus)
Cryo-EM structure of iGeoCas9 in complex with sgRNA and target DNA
Resolution: 2.63 Å
EM Method: Single-particle
Fitted PDBs: 8uzb
Q-score: 0.561
Eggers AR, Chen K, Soczek KM, Tuck OT, Doherty EE, Xu B, Trinidad MI, Thornton BW, Yoon PH, Doudna JA
Cell (2024) [ Pubmed: 38781968 DOI: doi:10.1016/j.cell.2024.04.031 ]
- Ternary complex of deactivated igeocas9 with sgrna and target dna (203 kDa, Complex from Geobacillus stearothermophilus)
- Target strand dna (39-mer) (15 kDa, DNA from Mus musculus)
- Rna (107-mer) (44 kDa, RNA from Geobacillus stearothermophilus)
- Crispr-associated endonuclease cas9 (127 kDa, Protein from Geobacillus stearothermophilus)
- Non-target strand dna (15 kDa, DNA from Mus musculus)
Structure of HamAB apo complex from the Escherichia coli Hachiman defense system
Resolution: 2.65 Å
EM Method: Single-particle
Fitted PDBs: 8vx9
Q-score: 0.418
Tuck OT, Adler BA, Armbruster EG, Lahiri A, Hu JJ, Zhou J, Pogliano J, Doudna JA
bioRxiv (2024) [ Pubmed: 38464307 DOI: doi:10.1101/2024.02.29.582594 ]
- Hamb (130 kDa, Protein from Escherichia coli)
- Hama (28 kDa, Protein from Escherichia coli)
- Apo hamab complex (160 kDa, Complex from Escherichia coli)
Structure of HamB-DNA complex, conformation 1, from the Escherichia coli Hachiman defense system
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 8vxa
Q-score: 0.462
Tuck OT, Adler BA, Armbruster EG, Lahiri A, Hu JJ, Zhou J, Pogliano J, Doudna JA
bioRxiv (2024) [ Pubmed: 38464307 DOI: doi:10.1101/2024.02.29.582594 ]
- Dna (40-mer) (12 kDa, DNA from synthetic construct)
- Hamb (130 kDa, Protein from Escherichia coli)
- Hamb-dna complex (155 kDa, Complex from Escherichia coli)
Structure of HamB-DNA complex, conformation 2, from the Escherichia coli Hachiman defense system
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8vxc
Q-score: 0.408
Tuck OT, Adler BA, Armbruster EG, Lahiri A, Hu JJ, Zhou J, Pogliano J, Doudna JA
bioRxiv (2024) [ Pubmed: 38464307 DOI: doi:10.1101/2024.02.29.582594 ]
- Dna (40-mer) (12 kDa, DNA from synthetic construct)
- Hamb (130 kDa, Protein from Escherichia coli)
- Hamb-dna complex (155 kDa, Complex from Escherichia coli)
Resolution: 3.19 Å
EM Method: Single-particle
Fitted PDBs: 8vxy
Q-score: 0.315
Tuck OT, Adler BA, Armbruster EG, Lahiri A, Hu JJ, Zhou J, Pogliano J, Doudna JA
bioRxiv (2024) [ Pubmed: 38464307 DOI: doi:10.1101/2024.02.29.582594 ]
- Hamb (130 kDa, Protein from Escherichia coli)
- Hama(e138a,k140a)b-plasmid dna complex (Complex from Escherichia coli)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Hama (28 kDa, Protein from Escherichia coli)
- Plasmid dna (9 kDa, DNA from Escherichia coli)
- Plasmid dna (9 kDa, DNA from Escherichia coli)
Cryo-EM structure of Cas1:Cas2-DEDDh:PAM-deficient prespacer complex
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8fy9
Q-score: 0.5
Wang JY, Tuck OT, Skopintsev P, Soczek KM, Li G, Al-Shayeb B, Zhou J, Doudna JA
Nature (2023) 618 pp. 855-861 [ Pubmed: 37316664 DOI: doi:10.1038/s41586-023-06178-2 ]
- Dna (28-mer) (8 kDa, DNA from Megasphaera)
- Cas2-deddh (32 kDa, Protein from Megasphaera)
- Cas1 (35 kDa, Protein from Megasphaera)
- Dna (28-mer) (8 kDa, DNA from Megasphaera)
- Cas1:cas2-deddh:pam-deficient prespacer complex (222 kDa, Complex from Megasphaera)
Cryo-EM structure of Cas1:Cas2-DEDDh:PAM-containing prespacer complex
Resolution: 2.91 Å
EM Method: Single-particle
Fitted PDBs: 8fya
Q-score: 0.54
Wang JY, Tuck OT, Skopintsev P, Soczek KM, Li G, Al-Shayeb B, Zhou J, Doudna JA
Nature (2023) 618 pp. 855-861 [ Pubmed: 37316664 DOI: doi:10.1038/s41586-023-06178-2 ]
- Dna (28-mer) (8 kDa, DNA from Megasphaera)
- Cas2-deddh (32 kDa, Protein from Megasphaera)
- Cas1 (35 kDa, Protein from Megasphaera)
- Dna (31-mer) (10 kDa, DNA from Megasphaera)
- Cas1:cas2-deddh:pam-containing prespacer complex (224 kDa, Complex from Megasphaera)
Cryo-EM structure of Cas1:Cas2-DEDDh:half-site integration complex
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8fyb
Q-score: 0.453
Wang JY, Tuck OT, Skopintsev P, Soczek KM, Li G, Al-Shayeb B, Zhou J, Doudna JA
Nature (2023) 618 pp. 855-861 [ Pubmed: 37316664 DOI: doi:10.1038/s41586-023-06178-2 ]
- Dna (36-mer) (23 kDa, DNA from Megasphaera)
- Cas2-deddh (32 kDa, Protein from Megasphaera)
- Cas1 (35 kDa, Protein from Megasphaera)
- Cas1:cas2-deddh:half-site integration complex (272 kDa, Complex from Megasphaera)
- Dna (52-mer) (19 kDa, DNA from Megasphaera)
- Dna (31-mer) (10 kDa, DNA from Megasphaera)
- Dna (17-mer) (13 kDa, DNA from Megasphaera)
Cryo-EM structure of Cas1:Cas2-DEDDh:half-site integration complex linear CRISPR repeat conformation
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8fyc
Q-score: 0.306
Wang JY, Tuck OT, Skopintsev P, Soczek KM, Li G, Al-Shayeb B, Zhou J, Doudna JA
Nature (2023) 618 pp. 855-861 [ Pubmed: 37316664 DOI: doi:10.1038/s41586-023-06178-2 ]
- Dna (57-mer) (17 kDa, DNA from Megasphaera)
- Cas1:cas2-deddh:half-site integration complex (272 kDa, Complex from Megasphaera)
- Dna (31-mer) (9 kDa, DNA from Megasphaera)
- Cas1 (34 kDa, Protein from Megasphaera)
- Deddh (18 kDa, Protein from Megasphaera)
- Cas2-deddh (10 kDa, Protein from Megasphaera)
- Dna (14-mer) (13 kDa, DNA from Megasphaera)
- Dna/rna (43-mer) (23 kDa, DNA from Megasphaera)