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sample_name:"DNA damage-binding protein 1" AND citation_journal_name:"TO BE PUBLISHED"
The ternary complex of DDB1, DDA1, DET1
Release date: Feb. 5, 2025
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 9dhd
Q-score: 0.517
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 9dhd
Q-score: 0.517
Karayel O, Soung A, Gurung H, Schubert AF, Kschonsak M, Dugger DL, Webster JD, French DM, Klaeger S, Rose CM, Harris SF, Ndoja A, Newton K, Dixit VM
To Be Published
Sample:
- Dna damage-binding protein 1 (129 kDa, Protein from Homo sapiens)
- Det1 homolog (64 kDa, Protein from Homo sapiens)
- Ddb1:dda1:det1 (205 kDa, Complex from Homo sapiens)
- Det1- and ddb1-associated protein 1 (11 kDa, Protein from Homo sapiens)
CryoEM structure of UVSSA(VHS)-CSA-DDB1-DDA1
To Be Published
Sample:
- Ternary complex of uvssa(vhs)-csa-ddb1-dda1 (210 kDa, Complex from Homo sapiens)
- Uv-stimulated scaffold protein a (82 kDa, Protein from Homo sapiens)
- Dna damage-binding protein 1 (129 kDa, Protein from Homo sapiens)
- Dna excision repair protein ercc-8 (45 kDa, Protein from Homo sapiens)
- Det1- and ddb1-associated protein 1 (16 kDa, Protein from Homo sapiens)
Structure of the Pol II-TCR-ELOF1 complex.
Release date: Sept. 27, 2023
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8b3d
Q-score: 0.532
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8b3d
Q-score: 0.532
To Be Published
Sample:
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa domesticus)
- Dna excision repair protein ercc-6 (168 kDa, Protein from Homo sapiens)
- Transcription elongation factor 1 homolog (9 kDa, Protein from Homo sapiens)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa domesticus)
- Rna (3 kDa, RNA from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa domesticus)
- Rna_pol_l_2 domain-containing protein (13 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase subunit beta (133 kDa, Protein from Sus scrofa domesticus)
- Nts (16 kDa, DNA from Homo sapiens)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa domesticus)
- Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Rna polymerase ii subunit d (16 kDa, Protein from Sus scrofa domesticus)
- Uv-stimulated scaffold protein a (80 kDa, Protein from Homo sapiens)
- Pol ii-tcr-elof1 complex. (Complex from Homo sapiens)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa domesticus)
- Ts (15 kDa, DNA from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Rpb7 (28 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa domesticus)
Release date: Sept. 27, 2023
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8b3f
Q-score: 0.456
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8b3f
Q-score: 0.456
To Be Published
Sample:
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa domesticus)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Dna excision repair protein ercc-6 (168 kDa, Protein from Homo sapiens)
- Pol ii-csb-csa-ddb1-elof1 complex. (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa domesticus)
- Rna (3 kDa, RNA from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa domesticus)
- Nts (16 kDa, DNA from Homo sapiens)
- Ts (15 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase subunit beta (133 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa domesticus)
- Transcription elongation factor 1 homolog (9 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna_pol_l_2 domain-containing protein (13 kDa, Protein from Sus scrofa domesticus)
- Rna polymerase ii subunit d (16 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa domesticus)
- Magnesium ion (24 Da, Ligand)
- Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa domesticus)
Release date: Sept. 27, 2023
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8b3i
Q-score: 0.466
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8b3i
Q-score: 0.466
To Be Published
Sample:
- Cullin-4a (87 kDa, Protein from Homo sapiens)
- C(n)rl4csa-e2-ub complex. (Complex from Homo sapiens)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- E3 ubiquitin-protein ligase rbx1 (12 kDa, Protein from Homo sapiens)
- Nedd8 (8 kDa, Protein from Homo sapiens)
- Ubiquitin-conjugating enzyme e2 d2 (16 kDa, Protein from Homo sapiens)
- Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
CryoEM structure of DDB1-VprBP complex in "ARM-up" conformation
Release date: Aug. 31, 2022
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7v7b
Q-score: 0.262
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7v7b
Q-score: 0.262
To Be Published
Sample:
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Ddb1- and cul4-associated factor 1 (169 kDa, Protein from Homo sapiens)
- Cryoem structure of ddb1-vprbp complex in "arm-up" conformation (Complex from Homo sapiens)
CryoEM structure of DDB1-VprBP-Vpr-UNG2(94-313) complex
Release date: Aug. 31, 2022
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7v7c
Q-score: 0.283
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7v7c
Q-score: 0.283
To Be Published
Sample:
- Uracil-dna glycosylase (25 kDa, Protein from Homo sapiens)
- Protein vpr (11 kDa, Protein from Human immunodeficiency virus 1)
- Ddb1-vprbp-vpr-ung2(94-313) complex (660 kDa, Complex from Homo sapiens)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Ddb1- and cul4-associated factor 1 (169 kDa, Protein from Homo sapiens)