MolNFT v1 · #10121 · protein
High-resolution structure of apo RB69 DNA polymerase
1IH7: “High-resolution structure of apo RB69 DNA polymerase”. X-ray diffraction, 2 ligands (GMP, K), 12 pockets (best druggability 0.74). MolNFT v1 #10121 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1IH7
- Type
- protein
- Length
- 897 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA polymerase
- EC
- 2.7.7.7
- UniProt
- Q38087
- Ligands
- GMP, K
- Pockets
- 12 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA polymerase (EC 2.7.7.7) | protein | 897 | 44% helix, 19% strand | Q38087 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1163 | 0.74 | 0.77 | 89 | K |
| 2 | 528 | 0.65 | 0.77 | 42 | empty |
| 3 | 100 | 0.54 | 0.84 | 17 | GMP |
| 4 | 152 | 0.48 | 0.78 | 23 | empty |
| 5 | 187 | 0.47 | 0.75 | 24 | empty |
Compared structures
- 1IH7 · High-Resolution Structure of Apo RB69 DNA Polymerase · 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 Q38087
- Elsewhere: RCSB PDB 1IH7 · PDBe 1IH7 · UniProt Q38087
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