Cryo-EM structure of the monomeric SPARSA gRNA-ssDNA complex
Resolution: 2.57 Å
EM Method: Single-particle
Fitted PDBs: 8y7z
Q-score: 0.587
Cui N, Zhang JT, Li Z, Wei XY, Wang J, Jia N
Nat Commun (2024) 15 pp. 8610-8610 [ Pubmed: 39366953 DOI: doi:10.1038/s41467-024-52910-5 ]
- Monomeric sparsa grna-ssdna complex (Complex from Geobacter sulfurreducens)
- Rna (21-mer) (6 kDa, RNA from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
- Piwi domain protein (53 kDa, Protein from Geobacter sulfurreducens)
- Sir2 superfamily protein (66 kDa, Protein from Geobacter sulfurreducens)
- Magnesium ion (24 Da, Ligand)
- Dna (25-mer) (7 kDa, DNA from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
Structure of PsCas9 in complex with gRNA and DNA in product state
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8umf
Q-score: 0.526
To Be Published
- Dna (80-mer) (24 kDa, DNA from synthetic construct)
- Cas9 (168 kDa, Protein from Parasutterella secunda)
- Rna (121-mer) (41 kDa, RNA from synthetic construct)
- Pscas9 in with grna and dsdna, product state (211 kDa, Complex from Parasutterella secunda)
- Dna (80-mer) (24 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
SpRY-Cas9:gRNA complex targeting TAC PAM DNA
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 8srs
Q-score: 0.521
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ DOI: doi:10.1038/s41467-024-47830-3 Pubmed: 38688943 ]
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Ts (3 kDa, DNA from Escherichia phage Lambda)
- Ternary complex of spry-cas9 with lambda 1 grna and lambda 1 dna (211 kDa, Complex from Streptococcus pyogenes)
- Ts (5 kDa, DNA from Escherichia phage Lambda)
- Magnesium ion (24 Da, Ligand)
- Nts (16 kDa, DNA from Escherichia phage Lambda)
- Grna (31 kDa, RNA from Streptococcus pyogenes)
- Water (18 Da, Ligand)
SpRY-Cas9:gRNA complex bound to non-target DNA with 1 bp R-loop
Resolution: 2.88 Å
EM Method: Single-particle
Fitted PDBs: 8t6y
Q-score: 0.465
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ DOI: doi:10.1038/s41467-024-47830-3 Pubmed: 38688943 ]
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Grna (28 kDa, RNA from Streptococcus pyogenes)
- Ts (3 kDa, DNA from Escherichia phage Lambda)
- Ternary complex of spry-cas9 with grna and non-target dna with 1 bp r-loop (211 kDa, Complex from Streptococcus pyogenes)
- Nts (3 kDa, DNA from Escherichia phage Lambda)
Cryo-EM structure of monomeric SPARTA gRNA-ssDNA target complex
Resolution: 2.54 Å
EM Method: Single-particle
Fitted PDBs: 8ifk
Q-score: 0.602
Zhang JT, Wei XY, Cui N, Tian R, Jia N
Nat Chem Biol (2024) 20 pp. 503-511 [ Pubmed: 37932528 DOI: doi:10.1038/s41589-023-01479-z ]
- Piwi domain-containing protein (58 kDa, Protein from Thermoflavifilum thermophilum)
- Tir domain-containing protein (53 kDa, Protein from Thermoflavifilum thermophilum)
- Target ssdna (7 kDa, DNA from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
- Crtsparta-grna-tdna ternary complex (Complex from Thermoflavifilum thermophilum)
- Magnesium ion (24 Da, Ligand)
- Guide rna (6 kDa, RNA from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
Cryo-EM structure of SPARTA gRNA binary complex
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 8k34
Q-score: 0.441
Zhang JT, Wei XY, Cui N, Tian R, Jia N
Nat Chem Biol (2024) 20 pp. 503-511 [ Pubmed: 37932528 DOI: doi:10.1038/s41589-023-01479-z ]
- Rna (5'-r(p*ap*ap*ap*cp*gp*gp*cp*up*cp*up*ap*ap*up*cp*up*ap*up*up*ap*gp*u)-3') (6 kDa, RNA from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
- Piwi domain-containing protein (58 kDa, Protein from Thermoflavifilum thermophilum)
- Crtsparta-grna binary complex (Complex from Thermoflavifilum thermophilum)
- Tir domain-containing protein (53 kDa, Protein from Thermoflavifilum thermophilum)
- Magnesium ion (24 Da, Ligand)
Cas9:gRNA in complex with 18-20MM DNA, 1 minute time-point, kinked active conformation
Resolution: 2.76 Å
EM Method: Single-particle
Fitted PDBs: 7s4x
Q-score: 0.551
Bravo JPK, Liu MS, Hibshman GN, Dangerfield TL, Jung K, McCool RS, Johnson KA, Taylor DW
Nature (2022) 603 pp. 343-347 [ DOI: doi:10.1038/s41586-022-04470-1 Pubmed: 35236982 ]
- Ts (4 kDa, DNA from synthetic construct)
- Crispr-associated endonuclease cas9/csn1 (158 kDa, Protein from Streptococcus pyogenes)
- Grna (31 kDa, RNA from synthetic construct)
- Ts (6 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Nts (10 kDa, DNA from synthetic construct)
- Water (18 Da, Ligand)
- Cas9 bound to 18-20mm dna, 1 min time-point, kinked active conformation (Complex from Streptococcus pyogenes)