Cryo-EM structure of RNase-untreated RESC-A in trypanosomal RNA editing
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8fn6
Q-score: 0.386
Liu S, Wang H, Li X, Zhang F, Lee JKJ, Li Z, Yu C, Hu JJ, Zhao X, Suematsu T, Alvarez-Cabrera AL, Liu Q, Zhang L, Huang L, Aphasizheva I, Aphasizhev R, Zhou ZH
Science (2023) 381 pp. eadg4725-eadg4725 [ DOI: doi:10.1126/science.adg4725 Pubmed: 37410820 ]
- Rna-editing substrate-binding complex protein 2 (resc2) (55 kDa, Protein from Trypanosoma brucei)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Rna-editing substrate-binding complex protein 5 (resc5) (43 kDa, Protein from Trypanosoma brucei)
- Rna-editing substrate-binding complex protein 3 (resc3) (53 kDa, Protein from Trypanosoma brucei)
- Resc5-tagged isolate without rnase treatment (Complex from Trypanosoma brucei)
- Rna-editing substrate-binding complex protein 1 (resc1) (52 kDa, Protein from Trypanosoma brucei)
- Grna (14 kDa, RNA from Trypanosoma brucei)
- Rna-editing substrate-binding complex protein 6 (resc6) (57 kDa, Protein from Trypanosoma brucei)
- Rna-editing substrate-binding complex protein 4 (resc4) (120 kDa, Protein from Trypanosoma brucei)
Cryo-EM structure of mouse RAG1/2 PRC complex (DNA0)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6oem
Q-score: 0.347
Chen X, Cui Y, Best RB, Wang H, Zhou ZH, Yang W, Gellert M
Nat Struct Mol Biol (2020) 27 pp. 119-126 [ Pubmed: 32015552 DOI: doi:10.1038/s41594-019-0363-2 ]
- Rag1/2 pre-reaction complex (Complex from Mus musculus)
- V(d)j recombination-activating protein 1 (119 kDa, Protein from Mus musculus)
- Magnesium ion (24 Da, Ligand)
- V(d)j recombination-activating protein 2 (59 kDa, Protein from Mus musculus)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
- Zinc ion (65 Da, Ligand)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- High mobility group protein b1 (16 kDa, Protein from Homo sapiens)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
Cryo-EM structure of mouse RAG1/2 PRC complex (DNA1)
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 6oen
Q-score: 0.322
Chen X, Cui Y, Best RB, Wang H, Zhou ZH, Yang W, Gellert M
Nat Struct Mol Biol (2020) 27 pp. 119-126 [ Pubmed: 32015552 DOI: doi:10.1038/s41594-019-0363-2 ]
- V(d)j recombination-activating protein 1 (119 kDa, Protein from Mus musculus)
- V(d)j recombination-activating protein 2 (59 kDa, Protein from Mus musculus)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
- Zinc ion (65 Da, Ligand)
- High mobility group protein b1 (18 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Rag1/2 pre-reaction complex (dna1) (Complex from Mus musculus)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
Cryo-EM structure of mouse RAG1/2 NFC complex (DNA1)
Resolution: 3.69 Å
EM Method: Single-particle
Fitted PDBs: 6oeo
Q-score: 0.425
Chen X, Cui Y, Best RB, Wang H, Zhou ZH, Yang W, Gellert M
Nat Struct Mol Biol (2020) 27 pp. 119-126 [ Pubmed: 32015552 DOI: doi:10.1038/s41594-019-0363-2 ]
- V(d)j recombination-activating protein 1 (119 kDa, Protein from Mus musculus)
- V(d)j recombination-activating protein 2 (59 kDa, Protein from Mus musculus)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- Rag1/2 nink-forming complex (dna1) (Complex from Mus musculus)
- High mobility group protein b1 (18 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
Cryo-EM structure of mouse RAG1/2 12RSS-NFC/23RSS-PRC complex (DNA1)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6oep
Q-score: 0.425
Chen X, Cui Y, Best RB, Wang H, Zhou ZH, Yang W, Gellert M
Nat Struct Mol Biol (2020) 27 pp. 119-126 [ Pubmed: 32015552 DOI: doi:10.1038/s41594-019-0363-2 ]
- V(d)j recombination-activating protein 1 (119 kDa, Protein from Mus musculus)
- V(d)j recombination-activating protein 2 (59 kDa, Protein from Mus musculus)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- Zinc ion (65 Da, Ligand)
- Mouse rag1/2 12rss-nfc/23rss-prc complex (dna1) (Complex from Mus musculus)
- Calcium ion (40 Da, Ligand)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
Cryo-EM structure of mouse RAG1/2 12RSS-PRC/23RSS-NFC complex (DNA1)
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 6oeq
Q-score: 0.338
Chen X, Cui Y, Best RB, Wang H, Zhou ZH, Yang W, Gellert M
Nat Struct Mol Biol (2020) 27 pp. 119-126 [ Pubmed: 32015552 DOI: doi:10.1038/s41594-019-0363-2 ]
- V(d)j recombination-activating protein 1 (119 kDa, Protein from Mus musculus)
- V(d)j recombination-activating protein 2 (59 kDa, Protein from Mus musculus)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
- Mouse rag1/2 12rss-prc/23rss-nfc complex (dna1) (Complex from Mus musculus)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
Cryo-EM structure of mouse RAG1/2 NFC complex (DNA2)
Resolution: 3.29 Å
EM Method: Single-particle
Fitted PDBs: 6oer
Q-score: 0.464
Chen X, Cui Y, Best RB, Wang H, Zhou ZH, Yang W, Gellert M
Nat Struct Mol Biol (2020) 27 pp. 119-126 [ Pubmed: 32015552 DOI: doi:10.1038/s41594-019-0363-2 ]
- V(d)j recombination-activating protein 1 (119 kDa, Protein from Mus musculus)
- V(d)j recombination-activating protein 2 (59 kDa, Protein from Mus musculus)
- Rag1/2 nick-forming complex (dna2) (Complex)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- Calcium ion (40 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
- Dna (57-mer) (18 kDa, DNA from Escherichia coli K-12)
- High mobility group protein b1 (18 kDa, Protein from Equus caballus)
- Dna (46-mer) (15 kDa, DNA from Escherichia coli K-12)
Cryo-EM structure of mouse WT RAG1/2 NFC complex (DNA0)
Resolution: 3.61 Å
EM Method: Single-particle
Fitted PDBs: 6v0v
Q-score: 0.398
Chen X, Cui Y, Best RB, Wang H, Zhou ZH, Yang W, Gellert M
Nat Struct Mol Biol (2020) 27 pp. 119-126 [ Pubmed: 32015552 DOI: doi:10.1038/s41594-019-0363-2 ]
- V(d)j recombination-activating protein 2 (58 kDa, Protein from Mus musculus)
- Dna (30-mer) (14 kDa, DNA from Escherichia coli)
- V(d)j recombination-activating protein 1 (88 kDa, Protein from Mus musculus)
- Zinc ion (65 Da, Ligand)
- Rag1/2 nick-forming complex (dna0) (Complex from Mus musculus)
- Calcium ion (40 Da, Ligand)
- Dna (30-mer) (14 kDa, DNA from Escherichia coli)
Cryo-EM structure of mouse RAG1/2 STC complex (without NBD domain)
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 6oes
Q-score: 0.549
Chen X, Cui Y, Wang H, Zhou ZH, Gellert M, Yang W
Nat Struct Mol Biol (2020) 27 pp. 127-133 [ Pubmed: 32015553 DOI: doi:10.1038/s41594-019-0366-z ]
- Dna (35-mer) (15 kDa, DNA from Escherichia coli K-12)
- V(d)j recombination-activating protein 1 (119 kDa, Protein from Mus musculus)
- Water (18 Da, Ligand)
- V(d)j recombination-activating protein 2 (59 kDa, Protein from Mus musculus)
- Rag1/2 strand transfer complex (Complex from MUS MUSCULUS)
- Calcium ion (40 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna (34-mer) (18 kDa, DNA from Escherichia coli K-12)
- Dna (5'-d(*cp*cp*tp*gp*gp*ap*tp*cp*tp*gp*gp*cp*cp*tp*g)-3') (4 kDa, DNA from Escherichia coli K-12)
- Dna (5'-d(p*cp*ap*cp*ap*gp*tp*gp*ap*tp*ap*cp*ap*gp*cp*c)-3') (9 kDa, DNA from Escherichia coli K-12)
- Dna (5'-d(p*cp*ap*cp*ap*gp*tp*gp*ap*tp*gp*cp*ap*ap*a)-3') (12 kDa, DNA from Escherichia coli K-12)
Cryo-EM structure of mouse RAG1/2 STC complex
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 6oet
Q-score: 0.459
Chen X, Cui Y, Wang H, Zhou ZH, Gellert M, Yang W
Nat Struct Mol Biol (2020) 27 pp. 127-133 [ Pubmed: 32015553 DOI: doi:10.1038/s41594-019-0366-z ]
- V(d)j recombination-activating protein 1 (119 kDa, Protein from Mus musculus)
- Dna (50-mer) (15 kDa, DNA from Escherichia coli K-12)
- V(d)j recombination-activating protein 2 (59 kDa, Protein from Mus musculus)
- Dna (30-mer) (9 kDa, DNA from Escherichia coli K-12)
- Zinc ion (65 Da, Ligand)
- Rag1/2 strand transfer complex (Complex from Mus musculus)
- Dna (59-mer) (18 kDa, DNA from Escherichia coli K-12)
- Dna (5'-d(*cp*cp*tp*gp*gp*ap*tp*cp*tp*gp*gp*cp*cp*tp*g)-3') (4 kDa, DNA from Escherichia coli K-12)
- Calcium ion (40 Da, Ligand)
- Dna (39-mer) (12 kDa, DNA from Escherichia coli K-12)