Nucleosome containing a 1-nt gap at SHL-4.5
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9dwf
Q-score: 0.526
Ryan BJ, Weaver TM, Freudenthal BD
To Be Published
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- 601 j strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- 601 k strand (damaged strand 2) (8 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Nucleosome containing a 1-nt gap at shl-4.5 (Complex from Homo sapiens)
- 601 i strand (damaged strand 1) (35 kDa, DNA from synthetic construct)
DNA Polymerase Beta bound to a nucleosome containing a 1-nt gap at SHL-4.5 (State 1, composite)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9dwg
Q-score: 0.364
Ryan BJ, Weaver TM, Freudenthal BD
To Be Published
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- 601 j strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- 601 k strand (damaged strand 2) (8 kDa, DNA from synthetic construct)
- Dna polymerase beta bound to a nucleosome containing a 1-nt gap at shl-4.5 (Complex from Homo sapiens)
- Dna polymerase beta (38 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- 601 i strand (damaged strand 1) (35 kDa, DNA from synthetic construct)
DNA Polymerase Beta bound to a nucleosome containing a 1-nt gap at SHL-4.5 (State 2, composite)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9dwh
Q-score: 0.384
Ryan BJ, Weaver TM, Freudenthal BD
To Be Published
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- 601 j strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- 601 k strand (damaged strand 2) (8 kDa, DNA from synthetic construct)
- Dna polymerase beta bound to a nucleosome containing a 1-nt gap at shl-4.5 (Complex from Homo sapiens)
- Dna polymerase beta (38 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- 601 i strand (damaged strand 1) (35 kDa, DNA from synthetic construct)
DNA Polymerase Beta bound to a nucleosome containing a 1-nt gap at SHL-4.5 (State 3, composite)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9dwi
Q-score: 0.405
Ryan BJ, Weaver TM, Freudenthal BD
To Be Published
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- 601 j strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- 601 k strand (damaged strand 2) (8 kDa, DNA from synthetic construct)
- Dna polymerase beta bound to a nucleosome containing a 1-nt gap at shl-4.5 (Complex from Homo sapiens)
- Dna polymerase beta (38 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- 601 i strand (damaged strand 1) (35 kDa, DNA from synthetic construct)
Nucleosome containing a 1-nt gap at SHL-3.5
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 9dwj
Q-score: 0.453
Weaver TM, Ryan BJ, Freudenthal BD
To Be Published
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Nucleosome containing a 1-nt gap at shl-3.5 (Complex from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- 601 i strand (damaged strand 1) (32 kDa, DNA from synthetic construct)
- 601 j strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- 601 k strand (damaged strand 2) (12 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
DNA Polymerase Beta bound to a nucleosome containing a 1-nt gap at SHL-3.5
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 9dwk
Q-score: 0.297
Weaver TM, Ryan BJ, Freudenthal BD
To Be Published
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- 601 i strand (damaged strand 1) (32 kDa, DNA from synthetic construct)
- 601 j strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- 601 k strand (damaged strand 2) (12 kDa, DNA from synthetic construct)
- Dna polymerase beta (38 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Dna polymerase beta bound to a nucleosome containing a 1-nt gap at shl-3.5 (Complex from Homo sapiens)
Nucleosome containing a 1-nt gap at SHL-5.5
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 9dwl
Q-score: 0.366
Ryan BJ, Weaver TM, Freudenthal BD
To Be Published
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- 601 j strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- 601 i strand (damaged strand 1) (38 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Nucleosome containing a 1-nt gap at shl-5.5 (Complex from Homo sapiens)
- 601 k strand (damaged strand 2) (5 kDa, DNA from synthetic construct)
DNA polymerase Beta bound to a nucleosome containing a 1-nt gap at SHL-5.5
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 9dwm
Q-score: 0.31
Ryan BJ, Weaver TM, Freudenthal BD
To Be Published
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- 601 j strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- Dna polymerase beta (38 kDa, Protein from Homo sapiens)
- 601 i strand (damaged strand 1) (38 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Nucleosome containing a 1-nt gap at shl-5.5 (Complex from Homo sapiens)
- 601 k strand (damaged strand 2) (5 kDa, DNA from synthetic construct)
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 h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- 601 j strand (damaged strand) (45 kDa, DNA from synthetic construct)
- 601 i strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- Nucleosome containing 8oxog at shl-6 (Complex from Homo sapiens)
- Histone h3.2 (15 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 h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (13 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- 601 j strand (damaged strand) (45 kDa, DNA from synthetic construct)
- Ogg1 bound to a nucleosome containing 8oxog at shl-6 (composite map) (Complex from Homo sapiens)
- 601 i strand (non-damaged strand) (45 kDa, DNA from synthetic construct)
- N-glycosylase/dna lyase (38 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)