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Human RAD52 open ring - ssDNA complex
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8rjw
Q-score: 0.512
Liang CC, Greenhough LA, Masino L, Maslen S, Bajrami I, Tuppi M, Skehel M, Taylor IA, West SC
Nature (2024) 629 pp. 697-703 [ DOI: doi:10.1038/s41586-024-07347-7 Pubmed: 38658755 ]
- Dna repair protein rad52 homolog (46 kDa, Protein from Homo sapiens)
- Ssdna (6 kDa, DNA from Homo sapiens)
- Water (18 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Open ring conformation of human rad52 in complex with ssdna (Complex from Homo sapiens)
Human Replication protein A (RPA; trimeric core) - ssDNA complex
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8rk2
Q-score: 0.436
Liang CC, Greenhough LA, Masino L, Maslen S, Bajrami I, Tuppi M, Skehel M, Taylor IA, West SC
Nature (2024) 629 pp. 697-703 [ DOI: doi:10.1038/s41586-024-07347-7 Pubmed: 38658755 ]
- Replication protein a 70 kda dna-binding subunit, n-terminally processed (68 kDa, Protein from Homo sapiens)
- Replication protein a 14 kda subunit (13 kDa, Protein from Homo sapiens)
- Open ring conformation of human rad52 in complex with ssdna (Complex from Homo sapiens)
- Replication protein a 32 kda subunit (29 kDa, Protein from Homo sapiens)
Human RADX tetramer bound to ssDNA
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 8u61
Q-score: 0.18
Balakrishnan S, Adolph M, Tsai MS, Akizuki T, Gallagher K, Cortez D, Chazin WJ
PNAS (2024) 121 pp. e2316491121-e2316491121 [ Pubmed: 38466836 DOI: doi:10.1073/pnas.2316491121 ]
- Dt25 dna (25-mer) (7 kDa, DNA from Homo sapiens)
- Radx tetramer bound to ssdna dt25 (600 kDa, Complex from Homo sapiens)
- Rpa-related protein radx (97 kDa, Protein from Homo sapiens)
Cryo-EM structure of monomeric SPARTA gRNA-ssDNA target complex
Resolution: 2.54 Å
EM Method: Single-particle
Fitted PDBs: 8ifk
Q-score: 0.602
Zhang JT, Wei XY, Cui N, Tian R, Jia N
Nat Chem Biol (2024) 20 pp. 503-511 [ Pubmed: 37932528 DOI: doi:10.1038/s41589-023-01479-z ]
- Target ssdna (7 kDa, DNA from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
- Piwi domain-containing protein (58 kDa, Protein from Thermoflavifilum thermophilum)
- Magnesium ion (24 Da, Ligand)
- Guide rna (6 kDa, RNA from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
- Tir domain-containing protein (53 kDa, Protein from Thermoflavifilum thermophilum)
- Crtsparta-grna-tdna ternary complex (Complex from Thermoflavifilum thermophilum)
Cryo-EM structure of tetrameric SPARTA gRNA-ssDNA target complex in state1
Resolution: 3.11 Å
EM Method: Single-particle
Fitted PDBs: 8ifl
Q-score: 0.356
Zhang JT, Wei XY, Cui N, Tian R, Jia N
Nat Chem Biol (2024) 20 pp. 503-511 [ Pubmed: 37932528 DOI: doi:10.1038/s41589-023-01479-z ]
- Target ssdna (7 kDa, DNA from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
- Piwi domain-containing protein (58 kDa, Protein from Thermoflavifilum thermophilum)
- Crtsparta tetramer complex (Complex from Thermoflavifilum thermophilum)
- Magnesium ion (24 Da, Ligand)
- Guide rna (6 kDa, RNA from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
- Tir domain-containing protein (53 kDa, Protein from Thermoflavifilum thermophilum)
Cryo-EM structure of tetrameric SPARTA gRNA-ssDNA target complex in state 2
Resolution: 2.92 Å
EM Method: Single-particle
Fitted PDBs: 8ifm
Q-score: 0.359
Zhang JT, Wei XY, Cui N, Tian R, Jia N
Nat Chem Biol (2024) 20 pp. 503-511 [ Pubmed: 37932528 DOI: doi:10.1038/s41589-023-01479-z ]
- Target ssdna (7 kDa, DNA from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
- Piwi domain-containing protein (58 kDa, Protein from Thermoflavifilum thermophilum)
- Crtsparta tetramer complex in a second state (Complex from Thermoflavifilum thermophilum)
- Magnesium ion (24 Da, Ligand)
- Guide rna (6 kDa, RNA from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
- Tir domain-containing protein (53 kDa, Protein from Thermoflavifilum thermophilum)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8hwa
Q-score: 0.459
Nat Struct Mol Biol (2024) 31 pp. 68-81 [ Pubmed: 38177671 DOI: doi:10.1038/s41594-023-01142-0 ]
- D5 atp-adp-apo-ssdna is1 (Complex from Monkeypox virus)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Primase d5 (90 kDa, Protein from Monkeypox virus)
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna (5'-d(p*tp*tp*tp*tp*tp*t)-3') (1 kDa, DNA from Homo sapiens)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8hwb
Q-score: 0.406
Nat Struct Mol Biol (2024) 31 pp. 68-81 [ Pubmed: 38177671 DOI: doi:10.1038/s41594-023-01142-0 ]
- Dna (5'-d(p*tp*tp*tp*tp*tp*t)-3') (1 kDa, DNA from Monkeypox virus)
- D5 atp-adp-apo-ssdna is2 (Complex from Monkeypox virus)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Primase d5 (90 kDa, Protein from Monkeypox virus)
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
Cryo-EM Structure of D5 ADP-ssDNA form
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8hwf
Q-score: 0.518
Nat Struct Mol Biol (2024) 31 pp. 68-81 [ Pubmed: 38177671 DOI: doi:10.1038/s41594-023-01142-0 ]
- D5 adp-ssdna form (Complex from Monkeypox virus)
- Primase d5 (90 kDa, Protein from Monkeypox virus)
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna (5'-d(p*tp*tp*tp*tp*tp*t)-3') (1 kDa, DNA from Homo sapiens)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8hwg
Q-score: 0.573
Nat Struct Mol Biol (2024) 31 pp. 68-81 [ Pubmed: 38177671 DOI: doi:10.1038/s41594-023-01142-0 ]
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Primase d5 (90 kDa, Protein from Monkeypox virus)
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna (5'-d(p*tp*tp*tp*tp*tp*t)-3') (1 kDa, DNA from Homo sapiens)
- D5 atprs-adp-ssdna form (Complex from Monkeypox virus)