Research workbench
Structure of the E9 DNA polymerase exonuclease deficient mutant (D166A+E168A) from vaccinia virus
Analyse Structure of the E9 DNA polymerase exonuclease deficient mutant (D166A+E168A)… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5N2H
- Type
- protein
- Length
- 999 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA polymerase
- EC
- 2.7.7.7, 3.1.11.-
- UniProt
- P20509
- Pockets
- 19 · best druggability 0.71
Structure
x-ray diffraction · 1 distinct chain · 35% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA polymerase (EC 2.7.7.7, 3.1.11.-) | protein | 999 | 35% helix, 25% strand | P20509 |
Ligands and binding sites
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 3 copies · chains A
- GOL · Glycerol · additive · 2 copies · chains A
- DTT · 2,3-dihydroxy-1,4-dithiobutane · additive · chains A
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
19 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 779 | 0.71 | 0.77 | 86 | empty |
| 2 | 254 | 0.69 | 0.85 | 42 | MES |
| 3 | 439 | 0.65 | 0.78 | 35 | empty |
| 4 | 381 | 0.63 | 0.77 | 36 | empty |
| 5 | 95 | 0.50 | 0.82 | 17 | empty |
Compared structures
- 5N2H · Structure of the E9 DNA polymerase exonuclease deficient mutant (D166A+E168A) from… · the same entry in another collection · chain A against A, TM-score 1.00
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 P20509
- Elsewhere: RCSB PDB 5N2H · PDBe 5N2H · UniProt P20509
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.