DtpB hexamer from Streptomyces lividans
Resolution: 3.02 Å
EM Method: Single-particle
Fitted PDBs: 8rwy
Q-score: 0.54
Lucic M, Allport T, Clarke TA, Williams LJ, Wilson MT, Chaplin AK, Worrall JAR
Protein Sci (2024) 33 pp. e5073-e5073 [ DOI: doi:10.1002/pro.5073 Pubmed: 38864770 ]
Cryo-EM structure of NHEJ supercomplex(trimer)
Resolution: 7.76 Å
EM Method: Single-particle
Fitted PDBs: 8bot
Q-score: 0.128
Hardwick SW, Stavridi AK, Chirgadze DY, De Oliveira TM, Charbonnier JB, Ropars V, Meek K, Blundell TL, Chaplin AK
Structure (2023) 31 pp. 895- [ Pubmed: 37311458 DOI: doi:10.1016/j.str.2023.05.013 ]
- Dna (28-mer) (8 kDa, DNA from Homo sapiens)
- Dna (27-mer) (8 kDa, DNA from Homo sapiens)
- Nhej supercomplex trimer (2 MDa, Cellular component from Homo sapiens)
- Dna (24-mer) (7 kDa, DNA from Homo sapiens)
- X-ray repair cross-complementing protein 6 (69 kDa, Protein from Homo sapiens)
- Dna ligase 4 (104 kDa, Protein from Homo sapiens)
- Dna-dependent protein kinase catalytic subunit (469 kDa, Protein from Homo sapiens)
- Dna (24-mer) (7 kDa, DNA from Homo sapiens)
- Non-homologous end-joining factor 1 (33 kDa, Protein from Homo sapiens)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
- Dna repair protein xrcc4 (38 kDa, Protein from Homo sapiens)
CryoEM structure of Ku heterodimer bound to DNA, PAXX and XLF
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 7zyg
Q-score: 0.512
Seif-El-Dahan M, Kefala-Stavridi A, Frit P, Hardwick SW, Chirgadze DY, Maia De Oliviera T, Britton S, Barboule N, Bossaert M, Pandurangan AP, Meek K, Blundell TL, Ropars V, Calsou P, Charbonnier JB, Chaplin AK
Sci Adv (2023) 9 pp. eadg2834-eadg2834 [ DOI: doi:10.1126/sciadv.adg2834 Pubmed: 37256950 ]
- Phosphate ion (94 Da, Ligand)
- X-ray repair cross-complementing protein 6 (69 kDa, Protein from Homo sapiens)
- Ku70/80 hetero dimer bound to dna, paxx and xlf (160 kDa, Cellular component from Homo sapiens)
- Dna (4 kDa, DNA from Homo sapiens)
- Dna (4 kDa, DNA from Homo sapiens)
- Protein paxx (21 kDa, Protein from Homo sapiens)
- Non-homologous end-joining factor 1 (33 kDa, Protein from Homo sapiens)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
DNA-PK Ku80 mediated dimer bound to PAXX
Resolution: 4.55 Å
EM Method: Single-particle
Fitted PDBs: 8bh3
Q-score: 0.185
Seif-El-Dahan M, Kefala-Stavridi A, Frit P, Hardwick SW, Chirgadze DY, Maia De Oliviera T, Britton S, Barboule N, Bossaert M, Pandurangan AP, Meek K, Blundell TL, Ropars V, Calsou P, Charbonnier JB, Chaplin AK
Sci Adv (2023) 9 pp. eadg2834-eadg2834 [ DOI: doi:10.1126/sciadv.adg2834 Pubmed: 37256950 ]
- Dna (26-mer) (8 kDa, DNA from Homo sapiens)
- Dna (25-mer) (7 kDa, DNA from Homo sapiens)
- Nhej supercomplex bound to paxx (1 MDa, Complex from Homo sapiens)
- X-ray repair cross-complementing protein 6 (69 kDa, Protein from Homo sapiens)
- Dna ligase 4 (104 kDa, Protein from Homo sapiens)
- Dna-dependent protein kinase catalytic subunit (469 kDa, Protein from Homo sapiens)
- Protein paxx (21 kDa, Protein from Homo sapiens)
- Dna (28-mer) (8 kDa, DNA from Homo sapiens)
- Dna repair protein xrcc4 (38 kDa, Protein from Homo sapiens)
- Dna (27-mer) (8 kDa, DNA from Homo sapiens)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
DNA-PK XLF mediated dimer bound to PAXX
Resolution: 4.51 Å
EM Method: Single-particle
Fitted PDBs: 8bhv
Q-score: 0.203
Seif-El-Dahan M, Kefala-Stavridi A, Frit P, Hardwick SW, Chirgadze DY, Maia De Oliviera T, Britton S, Barboule N, Bossaert M, Pandurangan AP, Meek K, Blundell TL, Ropars V, Calsou P, Charbonnier JB, Chaplin AK
Sci Adv (2023) 9 pp. eadg2834-eadg2834 [ DOI: doi:10.1126/sciadv.adg2834 Pubmed: 37256950 ]
- Dna (28-mer) (7 kDa, DNA from Homo sapiens)
- Dna (27-mer) (8 kDa, DNA from Homo sapiens)
- X-ray repair cross-complementing protein 6 (69 kDa, Protein from Homo sapiens)
- Non-homologous end-joining factor 1 (33 kDa, Protein from Homo sapiens)
- Dna (26-mer) (8 kDa, DNA from Homo sapiens)
- Dna ligase 4 (104 kDa, Protein from Homo sapiens)
- Dna-dependent protein kinase catalytic subunit (469 kDa, Protein from Homo sapiens)
- Protein paxx (21 kDa, Protein from Homo sapiens)
- Dna-pk xlf mediated dimer bound to paxx (1 MDa, Complex from Homo sapiens)
- Dna repair protein xrcc4 (38 kDa, Protein from Homo sapiens)
- Dna (24-mer) (7 kDa, DNA from Homo sapiens)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
DNA-PK Ku80 mediated dimer bound to PAXX and XLF
Resolution: 5.33 Å
EM Method: Single-particle
Fitted PDBs: 8bhy
Q-score: 0.166
Seif-El-Dahan M, Kefala-Stavridi A, Frit P, Hardwick SW, Chirgadze DY, Maia De Oliviera T, Britton S, Barboule N, Bossaert M, Pandurangan AP, Meek K, Blundell TL, Ropars V, Calsou P, Charbonnier JB, Chaplin AK
Sci Adv (2023) 9 pp. eadg2834-eadg2834 [ DOI: doi:10.1126/sciadv.adg2834 Pubmed: 37256950 ]
- Dna (25-mer) (7 kDa, DNA from Homo sapiens)
- Dna (5'-d(p*ap*ap*tp*ap*ap*tp*ap*gp*tp*tp*tp*tp*tp*ap*gp*tp*tp*tp*ap*tp*tp*gp*gp*g)-3') (7 kDa, DNA from Homo sapiens)
- X-ray repair cross-complementing protein 6 (69 kDa, Protein from Homo sapiens)
- Non-homologous end-joining factor 1 (33 kDa, Protein from Homo sapiens)
- Dna ligase 4 (104 kDa, Protein from Homo sapiens)
- Dna-dependent protein kinase catalytic subunit (469 kDa, Protein from Homo sapiens)
- Protein paxx (21 kDa, Protein from Homo sapiens)
- Dna-pk ku80 mediated dimer bound to paxx and xlf (1 MDa, Cellular component from Homo sapiens)
- Dna repair protein xrcc4 (38 kDa, Protein from Homo sapiens)
- Dna (26-mer) (7 kDa, DNA from Homo sapiens)
- Dna (27-mer) (8 kDa, DNA from Homo sapiens)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
CryoEM structure of Ku heterodimer bound to DNA and PAXX
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7zwa
Q-score: 0.523
Seif-El-Dahan M, Kefala-Stavridi A, Frit P, Hardwick SW, Chirgadze DY, Maia De Oliviera T, Britton S, Barboule N, Bossaert M, Pandurangan AP, Meek K, Blundell TL, Ropars V, Calsou P, Charbonnier JB, Chaplin AK
Sci Adv (2023) 9 pp. eadg2834-eadg2834 [ DOI: doi:10.1126/sciadv.adg2834 Pubmed: 37256950 ]
- Phosphate ion (94 Da, Ligand)
- Dna (5'-d(p*gp*ap*tp*cp*cp*cp*tp*cp*tp*ap*gp*ap*tp*ap*t)-3') (4 kDa, DNA from Homo sapiens)
- X-ray repair cross-complementing protein 6 (69 kDa, Protein from Homo sapiens)
- Ku70/80 heterodimer bound to dna and paxx (150 kDa, Cellular component from Homo sapiens)
- Dna (5'-d(p*cp*gp*ap*tp*ap*tp*cp*tp*ap*gp*ap*gp*gp*gp*ap*tp*c)-3') (4 kDa, DNA from Homo sapiens)
- Protein paxx (21 kDa, Protein from Homo sapiens)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
CryoEM structure of Ku heterodimer bound to DNA
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 7zvt
Q-score: 0.554
Kefala Stavridi A, Gontier A, Morin V, Frit P, Ropars V, Barboule N, Racca C, Jonchhe S, Morten MJ, Andreani J, Rak A, Legrand P, Bourand-Plantefol A, Hardwick SW, Chirgadze DY, Davey P, De Oliveira TM, Rothenberg E, Britton S, Calsou P, Blundell TL, Varela PF, Chaplin AK, Charbonnier JB
Nucleic Acids Res (2023) 51 pp. 11732-11747 [ Pubmed: 37870477 DOI: doi:10.1093/nar/gkad863 ]
- Dna (5'-d(p*cp*gp*ap*tp*ap*tp*cp*tp*ap*gp*ap*gp*gp*gp*ap*t)-3') (4 kDa, DNA from Homo sapiens)
- X-ray repair cross-complementing protein 6 (69 kDa, Protein from Homo sapiens)
- Ku70/80 heterodimer bound to dna (150 kDa, Cellular component from Homo sapiens)
- Inositol hexakisphosphate (660 Da, Ligand)
- Dna (5'-d(p*tp*cp*cp*cp*tp*cp*tp*ap*gp*ap*tp*ap*tp*c)-3') (4 kDa, DNA from Homo sapiens)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
Cryo-EM structure of Ku 70/80 bound to inositol hexakisphosphate
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7zt6
Q-score: 0.387
Kefala Stavridi A, Gontier A, Morin V, Frit P, Ropars V, Barboule N, Racca C, Jonchhe S, Morten MJ, Andreani J, Rak A, Legrand P, Bourand-Plantefol A, Hardwick SW, Chirgadze DY, Davey P, De Oliveira TM, Rothenberg E, Britton S, Calsou P, Blundell TL, Varela PF, Chaplin AK, Charbonnier JB
Nucleic Acids Res (2023) 51 pp. 11732-11747 [ Pubmed: 37870477 DOI: doi:10.1093/nar/gkad863 ]
- Inositol hexakisphosphate (660 Da, Ligand)
- Cryo-em structure of ku 70/80 bound to inositol hexakisphosphate (Complex from Homo sapiens)
- X-ray repair cross-complementing protein 6 (73 kDa, Protein from Homo sapiens)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
DNA-PK in complex with ATPgammaS
Liang S, Thomas SE, Chaplin AK, Hardwick SW, Chirgadze DY, Blundell TL
Nature (2022) 601 pp. 643-648 [ Pubmed: 34987222 DOI: doi:10.1038/s41586-021-04274-9 ]