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 [ DOI: doi:10.1016/j.celrep.2024.114391 Pubmed: 38923459 ]
- Magnesium ion (24 Da, Ligand)
- Sir2 superfamily protein (66 kDa, Protein from Geobacter sulfurreducens)
- Rna/dna (21-mer) (6 kDa, Macromolecule from synthetic construct)
- Dna (41-mer) (12 kDa, DNA from synthetic construct)
- Dimmeric gssirt2/ago-gran-tdna complex (Complex from Geobacter sulfurreducens)
- Piwi domain protein (53 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 [ DOI: doi:10.1016/j.celrep.2024.114391 Pubmed: 38923459 ]
- Magnesium ion (24 Da, Ligand)
- Dna/rna (21-mer) (6 kDa, Macromolecule from synthetic construct)
- Dna (41-mer) (12 kDa, DNA from synthetic construct)
- Short prokaryotic argonaute associated sir2 (120 MDa, Complex from Geobacter sulfurreducens)
- Sir2 superfamily protein (66 kDa, Protein from Geobacter sulfurreducens)
- Piwi domain protein (53 kDa, Protein from Geobacter sulfurreducens)
Cryo-EM structure of Crt-SPARTA-gRNA-tDNA tetramer (NADase active form)
Resolution: 3.41 Å
EM Method: Single-particle
Fitted PDBs: 8it1
Q-score: 0.271
Gao X, Shang K, Zhu K, Wang L, Mu Z, Fu X, Yu X, Qin B, Zhu H, Ding W, Cui S
Nature (2024) 625 pp. 822-831 [ Pubmed: 37783228 DOI: doi:10.1038/s41586-023-06665-6 ]
- Piwi domain-containing protein (58 kDa, Protein from Thermoflavifilum thermophilum)
- Rna (5'-r(p*up*gp*ap*gp*gp*up*ap*gp*up*ap*gp*gp*up*up*gp*up*ap*up*ap*gp*u)-3') (6 kDa, RNA from synthetic construct)
- Dna (45-mer) (13 kDa, DNA from synthetic construct)
- Tir domain-containing protein (53 kDa, Protein from Thermoflavifilum thermophilum)
- The tetramer structural of prokaryotic argonaute with dna and rna complex (Complex from Thermoflavifilum thermophilum)
Cryo-EM structure of Crt-SPARTA-gRNA-tDNA monomer
Resolution: 3.27 Å
EM Method: Single-particle
Fitted PDBs: 8isz
Q-score: 0.321
Gao X, Shang K, Zhu K, Wang L, Mu Z, Fu X, Yu X, Qin B, Zhu H, Ding W, Cui S
Nature (2024) 625 pp. 822-831 [ Pubmed: 37783228 DOI: doi:10.1038/s41586-023-06665-6 ]
- The dimer structural of prokaryotic argonaute with dna and rna complex (Complex from Thermoflavifilum thermophilum)
- Piwi domain-containing protein (58 kDa, Protein from Thermoflavifilum thermophilum)
- Rna (5'-r(p*up*gp*ap*gp*gp*up*ap*gp*up*ap*gp*gp*up*up*gp*up*ap*up*ap*gp*u)-3') (6 kDa, RNA from synthetic construct)
- Dna (45-mer) (13 kDa, DNA from synthetic construct)
- Tir domain-containing protein (53 kDa, Protein from Thermoflavifilum thermophilum)
Cryo-EM structure of Crt-SPARTA-gRNA-tDNA dimer (conformation-2)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8it0
Q-score: 0.397
Gao X, Shang K, Zhu K, Wang L, Mu Z, Fu X, Yu X, Qin B, Zhu H, Ding W, Cui S
Nature (2024) 625 pp. 822-831 [ Pubmed: 37783228 DOI: doi:10.1038/s41586-023-06665-6 ]
- Piwi domain-containing protein (58 kDa, Protein from Thermoflavifilum thermophilum)
- The dimer of prokaryotic argonaute system with dna and rna (Complex from Thermoflavifilum thermophilum)
- Rna (5'-r(p*up*gp*ap*gp*gp*up*ap*gp*up*ap*gp*gp*up*up*gp*up*ap*up*ap*gp*u)-3') (6 kDa, RNA from synthetic construct)
- Dna (45-mer) (13 kDa, DNA from synthetic construct)
- Tir domain-containing protein (53 kDa, Protein from Thermoflavifilum thermophilum)
Cryo-EM structure of Crt-SPARTA-gRNA-tDNA dimer (conformation-1)
Resolution: 3.49 Å
EM Method: Single-particle
Fitted PDBs: 8k9g
Q-score: 0.404
Gao X, Shang K, Zhu K, Wang L, Mu Z, Fu X, Yu X, Qin B, Zhu H, Ding W, Cui S
Nature (2024) 625 pp. 822-831 [ Pubmed: 37783228 DOI: doi:10.1038/s41586-023-06665-6 ]
- Piwi domain-containing protein (58 kDa, Protein from Thermoflavifilum thermophilum)
- The dimer of prokaryotic argonaute system with dna and rna (Complex from Thermoflavifilum thermophilum)
- Rna (5'-r(p*up*gp*ap*gp*gp*up*ap*gp*up*ap*gp*gp*up*up*gp*up*ap*up*ap*gp*u)-3') (6 kDa, RNA from synthetic construct)
- Dna (45-mer) (13 kDa, DNA from synthetic construct)
- Tir domain-containing protein (53 kDa, Protein from Thermoflavifilum thermophilum)
Cryo-EM structure of CH848 10.17DT DS-SOSIP-2P Env
Resolution: 3.73 Å
EM Method: Single-particle
Fitted PDBs: 8eu8
Q-score: 0.431
Wrapp D, Mu Z, Thakur B, Janowska K, Ajayi O, Barr M, Parks R, Mansouri K, Edwards RJ, Hahn BH, Acharya P, Saunders KO, Haynes BF
J Virol (2023) 97 pp. e0167322-e0167322 [ DOI: doi:10.1128/jvi.01673-22 Pubmed: 36633409 ]
- Ch848 10.17dt ds-sosip-2p (233 kDa, Complex from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ch848 10.17dt sosip envelope glycoprotein gp160 (77 kDa, Protein from Human immunodeficiency virus 1)
Yeast Set2 bound to a nucleosome containing oncohistone mutations
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7ea5
Q-score: 0.473
Liu Y, Zhang Y, Xue H, Cao M, Bai G, Mu Z, Yao Y, Sun S, Fang D, Huang J
Cell Discov (2021) 7 pp. 32-32 [ DOI: doi:10.1038/s41421-021-00261-6 Pubmed: 33972509 ]
- Histone h3 (11 kDa, Protein from Xenopus laevis)
- Histone h2a (11 kDa, Protein from Xenopus laevis)
- The set2-nucleosome(h3k36m)complex structure (Complex from Xenopus laevis)
- 601-dna (44 kDa, DNA from synthetic construct)
- 601-dna (44 kDa, DNA from synthetic construct)
- S-adenosylmethionine (398 Da, Ligand)
- Histone h2b (10 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Histone-lysine n-methyltransferase, h3 lysine-36 specific (26 kDa, Protein from Saccharomyces cerevisiae)
- Histone h4 (8 kDa, Protein from Xenopus laevis)
Human SETD2 bound to a nucleosome containing oncohistone mutations
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7ea8
Q-score: 0.509
Liu Y, Zhang Y, Xue H, Cao M, Bai G, Mu Z, Yao Y, Sun S, Fang D, Huang J
Cell Discov (2021) 7 pp. 32-32 [ DOI: doi:10.1038/s41421-021-00261-6 Pubmed: 33972509 ]
- Dna (Complex)
- Zinc ion (65 Da, Ligand)
- Histone h2a type 1-d (11 kDa, Protein from Homo sapiens)
- 601-dna (37 kDa, DNA from synthetic construct)
- 601-dna (37 kDa, DNA from synthetic construct)
- Histone h4 (8 kDa, Protein from Homo sapiens)
- Histone-lysine n-methyltransferase setd2 (Complex from Homo sapiens)
- Histone-lysine n-methyltransferase setd2 (28 kDa, Protein from Homo sapiens)
- Histone h3.3 (11 kDa, Protein from Homo sapiens)
- S-adenosylmethionine (398 Da, Ligand)
- Human setd2-ncp(h3.3k36m)-sam complex structure (Complex from Homo sapiens)
- Histone (Complex)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)