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 [ Pubmed: 38383786 DOI: doi:10.1038/s41586-024-07092-x ]
- Nad(+) hydrolase thsa (55 kDa, Protein from Bacillus cereus MSX-D12)
- Bcthsa in complex with 1''-3'gcadpr (Complex from Bacillus cereus)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- (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)
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 [ Pubmed: 38383786 DOI: doi:10.1038/s41586-024-07092-x ]
- 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 [ Pubmed: 38261981 DOI: doi:10.1093/nar/gkae016 ]
- Cas12m protein in complex with crrna and cognate dna, gordonia otitidis nbrc 100426 system (Complex from Gordonia otitidis NBRC 100426)
- Transposase (68 kDa, Protein from Gordonia otitidis NBRC 100426)
- Crrna, chain b (18 kDa, RNA from Gordonia otitidis NBRC 100426)
- Dna oligoduplex, target strand, chain c (13 kDa, DNA from synthetic construct)
- Dna oligoduplex, non-target strand, chain d (13 kDa, DNA from synthetic construct)
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 8pvv
Q-score: 0.56
Manakova E, Golovinas E, Poceviciute R, Sasnauskas G, Silanskas A, Rutkauskas D, Jankunec M, Zagorskaite E, Jurgelaitis E, Grybauskas A, Venclovas C, Zaremba M
Nucleic Acids Res (2024) 52 pp. 2530-2545 [ Pubmed: 38197228 DOI: doi:10.1093/nar/gkad1241 ]
- Water (18 Da, Ligand)
- Rna (30-mer) (Complex from Escherichia coli)
- Rna (30-mer) (9 kDa, RNA from Escherichia coli)
- Afago and afago-n complex with 30 nt rna guide and 51 nt dna target (90 kDa, Complex)
- Archaeoglobus fulgidus afago-n protein (Complex from Archaeoglobus fulgidus DSM 8774)
- Magnesium ion (24 Da, Ligand)
- Dna (51-mer) (15 kDa, DNA from Escherichia coli)
- Dna (51-mer) (Complex from Escherichia coli)
- Piwi protein (Complex from Archaeoglobus fulgidus)
- Archaeoglobus fulgidus afago-n protein (31 kDa, Protein from Archaeoglobus fulgidus DSM 8774)
- Piwi protein (49 kDa, Protein from Archaeoglobus fulgidus)
Resolution: 3.43 Å
EM Method: Single-particle
Fitted PDBs: 8qg0
Q-score: 0.42
Manakova E, Golovinas E, Poceviciute R, Sasnauskas G, Silanskas A, Rutkauskas D, Jankunec M, Zagorskaite E, Jurgelaitis E, Grybauskas A, Venclovas C, Zaremba M
Nucleic Acids Res (2024) 52 pp. 2530-2545 [ Pubmed: 38197228 DOI: doi:10.1093/nar/gkad1241 ]
- Afago-n protein (31 kDa, Protein from Archaeoglobus fulgidus)
- Dna target oligonucleotide (Complex from Escherichia coli)
- Rna guide 17 nt (5 kDa, RNA from Escherichia coli)
- Afago-n (Complex from Archaeoglobus fulgidus DSM 4304)
- Afago (Complex from Archaeoglobus fulgidus DSM 4304)
- 5'p-rna guide (Complex from Escherichia coli)
- Dna target 17 nt (5 kDa, DNA from Escherichia coli)
- Piwi protein (49 kDa, Protein from Archaeoglobus fulgidus)
- Heterodimeric afago and afago-n complex with 17 nt rna guide and 17 nt dna target (100 kDa, Complex)