Research workbench
Crystal structure of RAD4-RAD23 bound to a UV-damaged DNA
Analyse Crystal structure of RAD4-RAD23 bound to a UV-damaged DNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2QSG
- Type
- protein + DNA
- Length
- 602 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA repair protein RAD4; UV excision repair protein RAD23; Native strand of the…
- UniProt
- P14736, P32628
- Pockets
- 7 · best druggability 0.80
Structure
x-ray diffraction · 4 distinct chains · 43% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA repair protein RAD4 | protein | 502 | 39% helix, 19% strand | P14736 |
| X | UV excision repair protein RAD23 | protein | 54 | 80% helix, 0% strand | P32628 |
| W | Native strand of the cpd-mismatch DNA | dna | 24 | — | — |
| Y | Damaged strand of the cpd-mismatch DNA | dna | 22 | — | — |
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1132 | 0.80 | 0.81 | 93 | empty |
| 2 | 413 | 0.65 | 0.78 | 44 | empty |
| 3 | 227 | 0.50 | 0.76 | 25 | empty |
| 4 | 51 | 0.36 | 0.79 | 14 | empty |
| 5 | 63 | 0.31 | 0.75 | 15 | empty |
Interfaces
4 interfaces between chains.
- A–X · 1383 Ų buried · 6 hydrogen bonds · protein-protein
- A–W · 1181 Ų buried · 11 hydrogen bonds · protein-nucleic
- W–Y · 986 Ų buried · 88 hydrogen bonds · nucleic-nucleic
- A–Y · 638 Ų buried · 4 hydrogen bonds · protein-nucleic
Compared structures
- 2QSG · Crystal structure of Rad4-Rad23 bound to a UV-damaged DNA · the same entry in another collection · chain A against A, TM-score 1.00
- P14736 · AlphaFold monomer V2.0 prediction for DNA repair protein RAD4 (P14736) · a predicted model of the same protein · chain A against A, TM-score 0.98
- P32628 · AlphaFold monomer V2.0 prediction for UV excision repair protein RAD23 (P32628) · a predicted model of the same protein · chain X against A, TM-score 0.91
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P14736
- Every structure of UniProt P32628
- Elsewhere: RCSB PDB 2QSG · PDBe 2QSG · UniProt P14736 · UniProt P32628
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.