Helical structure of BcThsA in complex with 1''-3'gcADPR
Resolution: 2.96 Å
EM Method: Helical reconstruction
Fitted PDBs: 8bto
Q-score: 0.535
Tamulaitiene G, Sabonis D, Sasnauskas G, Ruksenaite A, Silanskas A, Avraham C, Ofir G, Sorek R, Zaremba M, Siksnys V
Nature (2024) 627 pp. 431-436 [ DOI: doi:10.1038/s41586-024-07092-x Pubmed: 38383786 ]
- (2r,3r,3as,5s,6r,7s,8r,11r,13s,15ar)-2-(6-amino-9h-purin-9-yl)-3,6,7,11,13-pentahydroxyoctahydro-2h,5h,11h,13h-5,8-epoxy-11lambda~5~,13lambda~5~-furo[2,3-g][1,3,5,9,2,4]tetraoxadiphosphacyclotetradecine-11,13-dione (541 Da, Ligand)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- Bcthsa in complex with 1''-3'gcadpr (Complex from Bacillus cereus)
- Nad(+) hydrolase thsa (55 kDa, Protein from Bacillus cereus MSX-D12)
Helical structure of BcThsA in complex with 1''-3'gc(etheno)ADPR
Resolution: 2.75 Å
EM Method: Helical reconstruction
Fitted PDBs: 8btp
Q-score: 0.577
Tamulaitiene G, Sabonis D, Sasnauskas G, Ruksenaite A, Silanskas A, Avraham C, Ofir G, Sorek R, Zaremba M, Siksnys V
Nature (2024) 627 pp. 431-436 [ DOI: doi:10.1038/s41586-024-07092-x Pubmed: 38383786 ]
- Bcthsa in complex with 1''-3'gc(etheno)adpr (Complex from Bacillus cereus)
- Nad(+) hydrolase thsa (55 kDa, Protein from Bacillus cereus MSX-D12)
- Etheno-nad (687 Da, Ligand)
- (1s,3s,4r,5r,7r,15r,16s,17r)-5-imidazo[2,1-f]purin-3-yl-10,12-bis(oxidanyl)-10,12-bis(oxidanylidene)-2,6,9,11,13,18-hexaoxa-10$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{3,7}]octadecane-4,16,17-triol (565 Da, Ligand)
Cryo-EM structure of the Cas12m-crRNA-target DNA complex
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8pm4
Q-score: 0.542
Bigelyte G, Duchovska B, Zedaveinyte R, Sasnauskas G, Sinkunas T, Dalgediene I, Tamulaitiene G, Silanskas A, Kazlauskas D, Valancauskas L, Madariaga-Marcos J, Seidel R, Siksnys V, Karvelis T
Nucleic Acids Res (2024) 52 pp. 3234-3248 [ DOI: doi:10.1093/nar/gkae016 Pubmed: 38261981 ]
- Crrna, chain b (18 kDa, RNA from Gordonia otitidis NBRC 100426)
- Transposase (68 kDa, Protein from Gordonia otitidis NBRC 100426)
- Cas12m protein in complex with crrna and cognate dna, gordonia otitidis nbrc 100426 system (Complex from Gordonia otitidis NBRC 100426)
- Dna oligoduplex, non-target strand, chain d (13 kDa, DNA from synthetic construct)
- Dna oligoduplex, target strand, chain c (13 kDa, DNA from synthetic construct)
Mogila I, Tamulaitiene G, Keda K, Timinskas A, Ruksenaite A, Sasnauskas G, Venclovas C, Siksnys V, Tamulaitis G
Science (2023) 382 pp. 1036-1041 [ DOI: doi:10.1126/science.adj2107 Pubmed: 38033086 ]
Cami1-ribosome local refinement map with mask on Cami1 and L12-Cter
Mogila I, Tamulaitiene G, Keda K, Timinskas A, Ruksenaite A, Sasnauskas G, Venclovas C, Siksnys V, Tamulaitis G
Science (2023) 382 pp. 1036-1041 [ DOI: doi:10.1126/science.adj2107 Pubmed: 38033086 ]
Cami1-ribosome local refinement map with mask on 30S subunit
Mogila I, Tamulaitiene G, Keda K, Timinskas A, Ruksenaite A, Sasnauskas G, Venclovas C, Siksnys V, Tamulaitis G
Science (2023) 382 pp. 1036-1041 [ DOI: doi:10.1126/science.adj2107 Pubmed: 38033086 ]
Cami1-ribosome local refinement map with mask on 50S subunit
Mogila I, Tamulaitiene G, Keda K, Timinskas A, Ruksenaite A, Sasnauskas G, Venclovas C, Siksnys V, Tamulaitis G
Science (2023) 382 pp. 1036-1041 [ DOI: doi:10.1126/science.adj2107 Pubmed: 38033086 ]
cA4-bound Cami1 in complex with 70S ribosome
Resolution: 3.67 Å
EM Method: Single-particle
Fitted PDBs: 8phj
Q-score: 0.584
Mogila I, Tamulaitiene G, Keda K, Timinskas A, Ruksenaite A, Sasnauskas G, Venclovas C, Siksnys V, Tamulaitis G
Science (2023) 382 pp. 1036-1041 [ DOI: doi:10.1126/science.adj2107 Pubmed: 38033086 ]
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs16 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul2 (29 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us7 (20 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- Fmet-trna(fmet) (24 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs6, fully modified isoform (15 kDa, Protein from Escherichia coli)
- Cyclic tetraadenosine monophosphate (ca4) (1 kDa, RNA from Streptococcus thermophilus)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Large ribosomal subunit protein bl12 (12 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl17 (14 kDa, Protein from Escherichia coli)
- 23s rrna (2862-mer) (941 kDa, RNA from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
- Mrna (10 kDa, RNA from synthetic construct)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul3 (22 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul10 (17 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul6 (18 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul18 (12 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
- Cami1 bound in 70s e.coli ribosome (Complex)
- Large ribosomal subunit protein bl28 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl36a (4 kDa, Protein from Escherichia coli)
- Ca4 (Complex from Streptococcus thermophilus)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Large ribosomal subunit protein bl33 (6 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul23 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
- Crispr-associated protein cami1, ape2256 family (Complex from Allochromatium vinosum)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein bl9 (15 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl27 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Escherichia coli)
- 70s e.coli ribosome (Complex from Escherichia coli)
- Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
- Crispr-associated protein, ape2256 family (45 kDa, Protein from Allochromatium vinosum)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Escherichia coli)
- Synthetic mrna (Complex from synthetic construct)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein ul11 (14 kDa, Protein from Escherichia coli)
Cryo-EM structure of the AsCas12f-sgRNA-target DNA ternary complex
Resolution: 3.08 Å
EM Method: Single-particle
Fitted PDBs: 8j12
Q-score: 0.479
Hino T, Omura NS, Nakagawa R, Togashi T, Takeda NS, Hiramoto T, Tasaka S, Hirano H, Tokuyama T, Uosaki H, Ishiguro H, Yamano H, Ozaki Y, Motooka D, Mori H, Kirita Y, Kise Y, Itoh Y, Matoba S, Aburatani H, Yachie N, Siksnys V, Ohmori T, Hoshino A, Nureki O
To Be Published
- Dna (38-mer) (11 kDa, DNA from Acidibacillus sulfooxidans)
- Ascas12f-sgrna-target dna (Complex from Mycolicibacterium mucogenicum)
- Magnesium ion (24 Da, Ligand)
- Dna (38-mer) (11 kDa, DNA from Acidibacillus sulfooxidans)
- Transposase is605 orfb c-terminal domain-containing protein (49 kDa, Protein from Acidibacillus sulfuroxidans)
- Zinc ion (65 Da, Ligand)
- Rna (247-mer) (72 kDa, RNA from Acidibacillus sulfooxidans)
Cryo-EM structure of the AsCas12f-YHAM-sgRNAS3-5v7-target DNA
Resolution: 2.91 Å
EM Method: Single-particle
Fitted PDBs: 8j1j
Q-score: 0.511
Hino T, Omura NS, Nakagawa R, Togashi T, Takeda NS, Hiramoto T, Tasaka S, Hirano H, Tokuyama T, Uosaki H, Ishiguro H, Yamano H, Ozaki Y, Motooka D, Mori H, Kirita Y, Kise Y, Itoh Y, Matoba S, Aburatani H, Yachie N, Siksnys V, Ohmori T, Hoshino A, Nureki O
To Be Published
- Dna (38-mer) (11 kDa, DNA from Sulfoacidibacillus thermotolerans)
- Ascas12f-yham-sgrnas3-5v7-target dna (Complex from Sulfoacidibacillus thermotolerans)
- Dna (38-mer) (11 kDa, DNA from Sulfoacidibacillus thermotolerans)
- Rna (118-mer) (38 kDa, RNA from Sulfoacidibacillus thermotolerans)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Transposase is605 orfb c-terminal domain-containing protein (49 kDa, Protein from Sulfoacidibacillus thermotolerans)