Single particle cryoEM data of Human OGG1 bound to a 35-bp DNA with an 8-oxoG in the middle
Single particle cryoEM data of Nucleosome core particle containing an 8-oxoG damage site
Human OGG1 bound to a 35-bp DNA with an 8-oxoG in the middle
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8vx4
Q-score: 0.358
You Q, Feng X, Cai Y, Baylin SB, Li H
Commun Biol (2024) 7 pp. 1202-1202 [ DOI: doi:10.1038/s42003-024-06919-7 Pubmed: 39341999 ]
- Dna (35-mer) (10 kDa, DNA from synthetic construct)
- Dna (35-mer) (10 kDa, DNA from synthetic construct)
- N-glycosylase/dna lyase (43 kDa, Protein from Homo sapiens)
- Complex of human ogg1 with a 35 bp dna duplex containing 8-oxog (Complex from Homo sapiens)
Nucleosome core particle containing an 8-oxoG damage site
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8vx5
Q-score: 0.493
You Q, Feng X, Cai Y, Baylin SB, Li H
Commun Biol (2024) 7 pp. 1202-1202 [ DOI: doi:10.1038/s42003-024-06919-7 Pubmed: 39341999 ]
- Dna (167-mer) (51 kDa, DNA from synthetic construct)
- Histone h2a (18 kDa, Protein from Xenopus laevis)
- Complex of human ogg1 with a 35 bp dna duplex containing 8-oxog (Complex from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Dna (167-mer) (51 kDa, DNA from synthetic construct)
- Histone h4 (13 kDa, Protein from Xenopus laevis)
Human OGG1 bound at the nucleosomal DNA entry site
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8vx6
Q-score: 0.424
You Q, Feng X, Cai Y, Baylin SB, Li H
Commun Biol (2024) 7 pp. 1202-1202 [ DOI: doi:10.1038/s42003-024-06919-7 Pubmed: 39341999 ]
- Dna (167-mer) (51 kDa, DNA from synthetic construct)
- Histone h2a (18 kDa, Protein from Xenopus laevis)
- Complex of human ogg1 with a 35 bp dna duplex containing 8-oxog (Complex from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- N-glycosylase/dna lyase (43 kDa, Protein from Homo sapiens)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Dna (167-mer) (51 kDa, DNA from synthetic construct)
- Histone h4 (13 kDa, Protein from Xenopus laevis)
Human OGG1 bound at the nucleosomal super helical location -5
Human OGG1 bound at the nucleosomal super helical location +6
local refinement of the primase/DNA/primer region in mutant T4 primosome
Feng X, Spiering MM, de Luna Almeida Santos R, Benkovic SJ, Li H
Nat Commun (2023) 14 pp. 4396-4396 [ DOI: doi:10.1038/s41467-023-40106-2 Pubmed: 37474605 ]
- Dna (70-mer) (DNA from Escherichia phage T4)
- Bacteriophage t4 dna primase (Protein from Escherichia phage T4)
- Rna (5'-r(*(gtp)p*cp*cp*gp*a)-3') (RNA from Escherichia phage T4)
- Complex of mutated t4 bacteriophage helicase gp41 with ssdna/rna hybrid (Complex from Escherichia phage T4)
Close state of T4 bacteriophage gp41 hexamer bound with single strand DNA
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8dtp
Q-score: 0.535
Feng X, Spiering MM, de Luna Almeida Santos R, Benkovic SJ, Li H
Nat Commun (2023) 14 pp. 4396-4396 [ DOI: doi:10.1038/s41467-023-40106-2 Pubmed: 37474605 ]
- Magnesium ion (24 Da, Ligand)
- Dna (5'-d(p*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*t)-3') (5 kDa, DNA from Escherichia phage T4)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Complex of t4 bacteriophage helicase gp41 with ssdna/rna hybrid (Complex from Escherichia phage T4)
- Dnab-like replicative helicase (53 kDa, Protein from Escherichia phage T4)
Feng X, Spiering MM, de Luna Almeida Santos R, Benkovic SJ, Li H
Nat Commun (2023) 14 pp. 4396-4396 [ DOI: doi:10.1038/s41467-023-40106-2 Pubmed: 37474605 ]