Cryo-EM Structure of Pre-B-like Complex (core part)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8qpe
Q-score: 0.495
Zhang Z, Kumar V, Dybkov O, Will CL, Zhong J, Ludwig SEJ, Urlaub H, Kastner B, Stark H, Luhrmann R
Nature (2024) 630 pp. 1012-1019 [ DOI: doi:10.1038/s41586-024-07458-1 Pubmed: 38778104 ]
- Ubiquitin carboxyl-terminal hydrolase 39 (65 kDa, Protein from Homo sapiens)
- U4 snrna (46 kDa, RNA from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp4 (58 kDa, Protein from Homo sapiens)
- Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
- Nhp2-like protein 1, n-terminally processed (14 kDa, Protein from Homo sapiens)
- Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
- 116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
- Ww domain-binding protein 4 (42 kDa, Protein from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp3 (77 kDa, Protein from Homo sapiens)
- U5 snrna (37 kDa, RNA from Homo sapiens)
- Zinc finger matrin-type protein 2 (23 kDa, Protein from Homo sapiens)
- Oligo2 (1 kDa, RNA from Homo sapiens)
- Microfibrillar-associated protein 1 (52 kDa, Protein from Homo sapiens)
- Oligo1 (3 kDa, RNA from Homo sapiens)
- U4/u6.u5 tri-snrnp-associated protein 1 (90 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor 38a (37 kDa, Protein from Homo sapiens)
- Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
- Human spliceosomal cross-exon b-like complex (Complex from Homo sapiens)
- U6 snrna (34 kDa, RNA from Homo sapiens)
- Inositol hexakisphosphate (660 Da, Ligand)
Complex of RecF and DNA from Thermus thermophilus.
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8a8j
Q-score: 0.556
Nirwal S, Czarnocki-Cieciura M, Chaudhary A, Zajko W, Skowronek K, Chamera S, Figiel M, Nowotny M
Nat Struct Mol Biol (2023) 30 pp. 650-660 [ Pubmed: 37081315 DOI: doi:10.1038/s41594-023-00967-z ]
- Magnesium ion (24 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Oligo2 (12 kDa, DNA from synthetic construct)
- Dna replication and repair protein recf (37 kDa, Protein from Thermus thermophilus HB8)
- Complex of recf and dna from thermus thermophilus. (95 kDa, Complex from Thermus thermophilus HB8)
- Oligo1 (7 kDa, DNA from synthetic construct)
Complex of RecF-RecR-DNA from Thermus thermophilus.
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 8a93
Q-score: 0.525
Nirwal S, Czarnocki-Cieciura M, Chaudhary A, Zajko W, Skowronek K, Chamera S, Figiel M, Nowotny M
Nat Struct Mol Biol (2023) 30 pp. 650-660 [ Pubmed: 37081315 DOI: doi:10.1038/s41594-023-00967-z ]
- Recombination protein recr (21 kDa, Protein from Thermus thermophilus HB8)
- Magnesium ion (24 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Complex of recf-recr-dna from thermus thermophilus. (180 kDa, Complex from Thermus thermophilus HB8)
- Oligo2 (12 kDa, DNA from synthetic construct)
- Dna replication and repair protein recf (37 kDa, Protein from Thermus thermophilus HB8)
- Oligo1 (7 kDa, DNA from synthetic construct)
Complex of RecO-RecR-DNA from Thermus thermophilus.
Resolution: 6.09 Å
EM Method: Single-particle
Fitted PDBs: 8ab0
Q-score: 0.233
Nirwal S, Czarnocki-Cieciura M, Chaudhary A, Zajko W, Skowronek K, Chamera S, Figiel M, Nowotny M
Nat Struct Mol Biol (2023) 30 pp. 650-660 [ Pubmed: 37081315 DOI: doi:10.1038/s41594-023-00967-z ]
- Recombination protein recr (21 kDa, Protein from Thermus thermophilus HB8)
- Dna repair protein reco (24 kDa, Protein from Thermus thermophilus HB8)
- Zinc ion (65 Da, Ligand)
- Oligo2 (12 kDa, DNA from synthetic construct)
- Complex of reco-recr-dna from thermus thermophilus. (130 kDa, Complex from Thermus thermophilus HB8)
- Oligo1 (7 kDa, DNA from synthetic construct)
Complex of RecF-RecO-RecR-DNA from Thermus thermophilus (low resolution reconstruction).
Resolution: 3.65 Å
EM Method: Single-particle
Fitted PDBs: 8bpr
Q-score: 0.359
Nirwal S, Czarnocki-Cieciura M, Chaudhary A, Zajko W, Skowronek K, Chamera S, Figiel M, Nowotny M
Nat Struct Mol Biol (2023) 30 pp. 650-660 [ Pubmed: 37081315 DOI: doi:10.1038/s41594-023-00967-z ]
- Recombination protein recr (21 kDa, Protein from Thermus thermophilus HB8)
- Complex of recf-reco-recr-dna from thermus thermophilus. (205 kDa, Complex from Thermus thermophilus HB8)
- Magnesium ion (24 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Dna repair protein reco (24 kDa, Protein from Thermus thermophilus HB8)
- Zinc ion (65 Da, Ligand)
- Oligo2 (12 kDa, DNA from synthetic construct)
- Dna replication and repair protein recf (37 kDa, Protein from Thermus thermophilus HB8)
- Oligo1 (7 kDa, DNA from synthetic construct)