Research workbench
Crystal structure of rat DNA polymerase beta; evidence for a common polymerase mechanism
Analyse Crystal structure of rat DNA polymerase beta; evidence for a common polymerase… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1BPE
- Type
- protein
- Length
- 284 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.9
- Source
- Rattus norvegicus
- Molecule
- DNA polymerase beta
- EC
- 2.7.7.7
- UniProt
- P06766
- Ligands
- DTP
- Pockets
- 2 · best druggability 0.74
Structure
x-ray diffraction · resolution 2.9 · 1 distinct chain · 43% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA polymerase beta (EC 2.7.7.7) | protein | 284 | 43% helix, 9% strand | P06766 |
Ligands and binding sites
- DTP · 2'-deoxyadenosine 5'-triphosphate · ligand · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 85 | 0.74 | 0.96 | 19 | empty |
| 2 | 56 | 0.46 | 0.84 | 19 | empty |
Compared structures
- 1BPE · Crystal structure of rat DNA polymerase beta; evidence for a common polymerase mechanism · the same entry in another collection · chain A against A, TM-score 1.00
- P06766 · AlphaFold monomer V2.0 prediction for DNA polymerase beta (P06766) · a predicted model of the same protein · chain A against A, TM-score 0.80
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 P06766
- Elsewhere: RCSB PDB 1BPE · PDBe 1BPE · UniProt P06766
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