Dimer structure of procaryotic Ago
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8k87
Q-score: 0.475
Sun D, Zhu K, Wang L, Mu Z, Wu K, Hua L, Qin B, Gao X, Wang Y, Cui S
Cell Rep (2024) 43 pp. 114391-114391 [ Pubmed: 38923459 DOI: doi:10.1016/j.celrep.2024.114391 ]
- Piwi domain protein (53 kDa, Protein from Geobacter sulfurreducens)
- Dna (41-mer) (12 kDa, DNA from synthetic construct)
- Rna/dna (21-mer) (6 kDa, Macromolecule from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Dimmeric gssirt2/ago-gran-tdna complex (Complex from Geobacter sulfurreducens)
- Sir2 superfamily protein (66 kDa, Protein from Geobacter sulfurreducens)
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8k88
Q-score: 0.548
Sun D, Zhu K, Wang L, Mu Z, Wu K, Hua L, Qin B, Gao X, Wang Y, Cui S
Cell Rep (2024) 43 pp. 114391-114391 [ Pubmed: 38923459 DOI: doi:10.1016/j.celrep.2024.114391 ]
- Short prokaryotic argonaute associated sir2 (120 MDa, Complex from Geobacter sulfurreducens)
- Piwi domain protein (53 kDa, Protein from Geobacter sulfurreducens)
- Dna (41-mer) (12 kDa, DNA from synthetic construct)
- Dna/rna (21-mer) (6 kDa, Macromolecule from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Sir2 superfamily protein (66 kDa, Protein from Geobacter sulfurreducens)
in vitro reconstituted 50S-ObgE-GMPPNP-RsfS particle
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 7bl4
Q-score: 0.492
Nikolay R, Hilal T, Schmidt S, Qin B, Schwefel D, Vieira-Vieira CH, Mielke T, Burger J, Loerke J, Amikura K, Flugel T, Ueda T, Selbach M, Deuerling E, Spahn CMT
Mol Cell (2021) 81 pp. 1200-1215.e9 [ Pubmed: 33639093 DOI: doi:10.1016/j.molcel.2021.02.006 ]
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli (strain K12))
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli (strain K12))
- Gtpase obge/cgta (43 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli (strain K12))
- In vitro reconstituted 50s-rsfs-obge-gmppnp complex (1 MDa, Complex from Escherichia coli (strain K12))
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli (strain K12))
- Ribosomal silencing factor rsfs (11 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli (strain K12))
- Water (18 Da, Ligand)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli (strain K12))
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli (strain K12))
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli (strain K12))
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli (strain K12))
- Magnesium ion (24 Da, Ligand)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli (strain K12))
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli (strain K12))
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli (strain K12))