Research workbench
Proliferating cell nuclear antigen homolog 1 bound to fen-1 peptide
Analyse Proliferating cell nuclear antigen homolog 1 bound to fen-1 peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5DAI
- Type
- protein
- Length
- 256 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA polymerase sliding clamp 1; C-terminus of fen-1 protein
- UniProt
- Q5JF32
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.44
Structure
x-ray diffraction · 2 distinct chains · 18% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA polymerase sliding clamp 1 | protein | 247 | 17% helix, 47% strand | Q5JF32 |
| B | C-terminus of fen-1 protein | protein | 9 | 33% helix, 11% strand | — |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 11 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 110 | 0.44 | 0.78 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 619 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 5DAI · Proliferating cell nuclear antigen homolog 1 bound to FEN-1 peptide · the same entry in another collection · chain A against A, TM-score 1.00
- Q5JF32 · AlphaFold monomer V2.0 prediction for DNA polymerase sliding clamp 1 (Q5JF32) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q5JF32
- Elsewhere: RCSB PDB 5DAI · PDBe 5DAI · UniProt Q5JF32
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.