Nucleosome containing 8oxoG at SHL-6
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8vws
Q-score: 0.534
Cordero C, Mehta KPM, Weaver TM, Ling JA, Freudenthal BD, Cortez D, Roberts SA
Nat Commun (2024) 15 pp. 10722-10722 [ Pubmed: 39715760 DOI: doi:10.1038/s41467-024-55497-z ]
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- 601 i strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Nucleosome containing 8oxog at shl-6 (Complex from Homo sapiens)
- 601 j strand (damaged strand) (45 kDa, DNA from synthetic construct)
- Histone h4 (11 kDa, Protein from Homo sapiens)
OGG1 bound to a nucleosome containing 8oxoG at SHL-6 (composite map)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8vwt
Q-score: 0.41
Cordero C, Mehta KPM, Weaver TM, Ling JA, Freudenthal BD, Cortez D, Roberts SA
Nat Commun (2024) 15 pp. 10722-10722 [ Pubmed: 39715760 DOI: doi:10.1038/s41467-024-55497-z ]
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- N-glycosylase/dna lyase (38 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- 601 i strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- 601 j strand (damaged strand) (45 kDa, DNA from synthetic construct)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Ogg1 bound to a nucleosome containing 8oxog at shl-6 (composite map) (Complex from Homo sapiens)
Nucleosome containing 8oxoG at SHL4
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8vwu
Q-score: 0.559
Cordero C, Mehta KPM, Weaver TM, Ling JA, Freudenthal BD, Cortez D, Roberts SA
Nat Commun (2024) 15 pp. 10722-10722 [ Pubmed: 39715760 DOI: doi:10.1038/s41467-024-55497-z ]
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- 601 j strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- 601 i strand (damaged strand) (45 kDa, DNA from synthetic construct)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Nucleosome containing 8oxog at shl4 (Complex from Homo sapiens)
OGG1 bound to a nucleosome containing 8oxoG at SHL4 (composite map)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8vwv
Q-score: 0.359
Cordero C, Mehta KPM, Weaver TM, Ling JA, Freudenthal BD, Cortez D, Roberts SA
Nat Commun (2024) 15 pp. 10722-10722 [ Pubmed: 39715760 DOI: doi:10.1038/s41467-024-55497-z ]
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- N-glycosylase/dna lyase (38 kDa, Protein from Homo sapiens)
- 601 j strand (non-damaged) (45 kDa, DNA from synthetic construct)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- 601 i strand (damaged strand) (45 kDa, DNA from synthetic construct)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Ogg1 bound to a nucleosome containing 8oxog at shl4 (composite map) (Complex from Homo sapiens)
APE1 bound to a nucleosome core particle with AP-site at SHL-6
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7u50
Q-score: 0.415
Weaver TM, Hoitsma NM, Spencer JJ, Gakhar L, Schnicker NJ, Freudenthal BD
Nat Commun (2022) 13 pp. 5390-5390 [ DOI: doi:10.1038/s41467-022-33057-7 Pubmed: 36104361 ]
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Dna (145-mer) (45 kDa, DNA from synthetic construct)
- Dna-(apurinic or apyrimidinic site) endonuclease (35 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna (144-mer) (45 kDa, DNA from synthetic construct)
- Ape1 bound to a nucleosome core particle with ap-site at shl-6 (Complex from Homo sapiens)
Nucleosome core particle with AP-site at SHL-6
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7u51
Q-score: 0.537
Weaver TM, Hoitsma NM, Spencer JJ, Gakhar L, Schnicker NJ, Freudenthal BD
Nat Commun (2022) 13 pp. 5390-5390 [ DOI: doi:10.1038/s41467-022-33057-7 Pubmed: 36104361 ]
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Nucleosome core particle with ap-site at shl-6 (Complex from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Dna (145-mer) (45 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Dna (145-mer) (45 kDa, DNA from synthetic construct)
- Histone h4 (11 kDa, Protein from Homo sapiens)
nucleosome core particle with AP-site at SHL-6.5
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7u52
Q-score: 0.454
Weaver TM, Hoitsma NM, Spencer JJ, Gakhar L, Schnicker NJ, Freudenthal BD
Nat Commun (2022) 13 pp. 5390-5390 [ DOI: doi:10.1038/s41467-022-33057-7 Pubmed: 36104361 ]
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Nucleosome core particle with ap-site at shl-6.5 (Complex from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Dna (145-mer) (45 kDa, DNA from synthetic construct)
- Dna (145-mer) (45 kDa, DNA from synthetic construct)
- Histone h4 (11 kDa, Protein from Homo sapiens)
Nucleosome core particle with AP-site at SHL0
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7u53
Q-score: 0.385
Weaver TM, Hoitsma NM, Spencer JJ, Gakhar L, Schnicker NJ, Freudenthal BD
Nat Commun (2022) 13 pp. 5390-5390 [ DOI: doi:10.1038/s41467-022-33057-7 Pubmed: 36104361 ]
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Nucleosome core particle with ap-site at shl0 (200 kDa, Complex)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Dna (144-mer) (45 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna (144-mer) (44 kDa, DNA from synthetic construct)