Research workbench
Structure and function of the RAD9-binding region of the DNA damage checkpoint adaptor TOPBP1
Analyse Structure and function of the RAD9-binding region of the DNA damage checkpoint… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2XNH
- Type
- protein
- Length
- 281 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA topoisomerase 2-binding protein 1
- UniProt
- Q92547
- Ligands
- IOD
- Pockets
- 2 · best druggability 0.43
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA topoisomerase 2-binding protein 1 | protein | 281 | 40% helix, 16% strand | Q92547 |
Ligands and binding sites
- IOD · Iodide ion · ion · 17 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 113 | 0.43 | 0.77 | 19 | IOD |
| 2 | 69 | 0.32 | 0.76 | 18 | empty |
Modifications
Observed in the structure: 8 modified (engineered).
Compared structures
- 2XNH · Structure and function of the Rad9-binding region of the DNA damage checkpoint adaptor… · the same entry in another collection · chain A against A, TM-score 1.00
- Q92547 · AlphaFold monomer V2.0 prediction for DNA topoisomerase 2-binding protein 1 (Q92547) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 Q92547
- Elsewhere: RCSB PDB 2XNH · PDBe 2XNH · UniProt Q92547
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