Research workbench
Crystal structure of chi and psi subunit heterodimer from DNA pol III
Analyse Crystal structure of chi and psi subunit heterodimer from DNA pol III in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1EM8
- Type
- protein
- Length
- 516 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA polymerase III chi subunit; DNA polymerase III psi subunit
- EC
- 2.7.7.7
- UniProt
- P28905, P28632
- Pockets
- 5 · best druggability 0.50
Structure
x-ray diffraction · 3 distinct chains · 35% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | DNA polymerase III chi subunit (EC 2.7.7.7) | protein | 147 | 33% helix, 24% strand | P28905 |
| B | DNA polymerase III psi subunit (EC 2.7.7.7) | protein | 110 | 35% helix, 17% strand | P28632 |
| D | DNA polymerase III psi subunit (EC 2.7.7.7) | protein | 112 | 37% helix, 16% strand | P28632 |
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 108 | 0.50 | 0.81 | 23 | empty |
| 2 | 114 | 0.48 | 0.80 | 23 | empty |
| 3 | 135 | 0.42 | 0.75 | 20 | empty |
| 4 | 94 | 0.37 | 0.75 | 16 | empty |
| 5 | 65 | 0.35 | 0.77 | 18 | empty |
Interfaces
2 interfaces between chains.
- C–D · 722 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 713 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 1EM8 · Crystal structure of chi and psi subunit heterodimer from DNA POL III · the same entry in another collection · chain A against A, TM-score 1.00
- P28632 · AlphaFold monomer V2.0 prediction for DNA polymerase III subunit psi (P28632) · a predicted model of the same protein · chain B against A, TM-score 0.98
- P28905 · AlphaFold monomer V2.0 prediction for DNA polymerase III subunit chi (P28905) · 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 P28905
- Every structure of UniProt P28632
- Elsewhere: RCSB PDB 1EM8 · PDBe 1EM8 · UniProt P28905 · UniProt P28632
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.