Structure of nucleosome-bound Sirtuin 6 deacetylase
Resolution: 3.07 Å
EM Method: Single-particle
Fitted PDBs: 8g57
Q-score: 0.493
Chio US, Rechiche O, Bryll AR, Zhu J, Leith EM, Feldman JL, Peterson CL, Tan S, Armache JP
Sci Adv (2023) 9 pp. eadf7586-eadf7586 [ Pubmed: 37058572 DOI: doi:10.1126/sciadv.adf7586 ]
- Histone h4 (9 kDa, Protein from Xenopus laevis)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Dna strand 2 (46 kDa, DNA from synthetic construct)
- Histone h2b type 1-j (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Sirt6 deacetylase bound to a nucleosome assembled with 172-bp 601 widom dna (300 MDa, Complex from Homo sapiens)
- Dna strand 1 (46 kDa, DNA from synthetic construct)
- Nad-dependent protein deacylase sirtuin-6 (39 kDa, Protein from Homo sapiens)
Resolution: 3.45 Å
EM Method: Single-particle
Fitted PDBs: 8atf
Q-score: 0.474
Kunert F, Metzner FJ, Jung J, Hopfler M, Woike S, Schall K, Kostrewa D, Moldt M, Chen JX, Bantele S, Pfander B, Eustermann S, Hopfner KP
Sci Adv (2022) 8 pp. eadd3189-eadd3189 [ Pubmed: 36490333 DOI: doi:10.1126/sciadv.add3189 ]
- Ino80 atpase (131 kDa, Protein from Thermochaetoides thermophila)
- Dna (227-mer) (69 kDa, DNA from DNA molecule)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Papa-1 domain-containing protein (53 kDa, Protein from Thermochaetoides thermophila)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna (226-mer) (70 kDa, DNA from DNA molecule)
- Histone h2a (13 kDa, Protein from Homo sapiens)
- Chaetomium thermophilum ino80 a-module (arp4-ies4-n-actin-arp8-ino80hsa) (Complex from Thermochaetoides thermophila)
Structure of transcription factor UAF in complex with TBP and 35S rRNA promoter DNA
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7z0o
Q-score: 0.507
Baudin F, Murciano B, Fung HKH, Fromm SA, Mattei S, Mahamid J, Muller CW
Sci Adv (2022) 8 pp. eabn5725-eabn5725 [ DOI: doi:10.1126/sciadv.abn5725 Pubmed: 35442737 ]
- Upstream activation factor subunit uaf30 (26 kDa, Protein from Saccharomyces cerevisiae)
- Template dna (45 kDa, DNA from Saccharomyces cerevisiae)
- Tata-box-binding protein (27 kDa, Protein from Saccharomyces cerevisiae)
- Non-template dna (47 kDa, DNA from Saccharomyces cerevisiae)
- Rna polymerase i-specific transcription initiation factor rrn5 (41 kDa, Protein from Saccharomyces cerevisiae)
- Histone h3 (15 kDa, Protein from Saccharomyces cerevisiae)
- Upstream activating factor (uaf) bound to tbp and promoter dna (Complex from Saccharomyces cerevisiae)
- Rna polymerase i-specific transcription initiation factor rrn10 (16 kDa, Protein from Saccharomyces cerevisiae)
- Rna polymerase i-specific transcription initiation factor rrn9 (42 kDa, Protein from Saccharomyces cerevisiae)
- Histone h4 (11 kDa, Protein from Saccharomyces cerevisiae)
Resolution: 4.43 Å
EM Method: Single-particle
Fitted PDBs: 6z6p
Q-score: 0.189
Lee JH, Bollschweiler D, Schafer T, Huber R
Sci Adv (2021) 7 [ Pubmed: 33523989 DOI: doi:10.1126/sciadv.abd4413 ]
- Histone deacetylase (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone (Complex from Xenopus laevis)
- Histone h2a (11 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Hdac-pc-nuc (Complex)
- Histone deacetylase hda1 (76 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h2a type 1 (11 kDa, Protein from Xenopus laevis)
- Histone h2b (10 kDa, Protein from Xenopus laevis)
- Hda1 complex subunit 2 (71 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (145-mer) (44 kDa, DNA from unidentified plasmid)
- Histone h4 (9 kDa, Protein from Xenopus laevis)
- Histone h4 (8 kDa, Protein from Xenopus laevis)
- Histone h2b (10 kDa, Protein from Xenopus laevis)
- Histone h3.2 (11 kDa, Protein from Xenopus laevis)
- Dna (Complex from unidentified plasmid)
- Histone h3 (11 kDa, Protein from Xenopus laevis)
- Hda1 complex subunit 3,hda1 complex subunit 3 (63 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (145-mer) (44 kDa, DNA from unidentified plasmid)
- Histone deacetylase hda1 (74 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))