MolNFT v1 · #30849 · protein
Refinement of the native structure of endonuclease III to a resolution of 1.85 ångström
2ABK: “Refinement of the native structure of endonuclease III to a resolution of 1.85 ångström”. X-ray diffraction, 1 ligand (SF4), 2 pockets (best druggability 0.55). MolNFT v1 #30849 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 2ABK
- Type
- protein
- Length
- 211 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Endonuclease III
- EC
- 4.2.99.18
- UniProt
- P0AB83
- Ligands
- SF4
- Pockets
- 2 · best druggability 0.55
Structure
x-ray diffraction · 1 distinct chain · 61% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Endonuclease III (EC 4.2.99.18) | protein | 211 | 61% helix, 0% strand | P0AB83 |
Ligands and binding sites
- SF4 · Iron/sulfur cluster · 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 | 176 | 0.55 | 0.80 | 25 | empty |
| 2 | 51 | 0.32 | 0.77 | 12 | empty |
Compared structures
- 2ABK · Refinement of the native structure of endonuclease III to a resolution of 1.85 ångström · the same entry in another collection · chain A against A, TM-score 1.00
- P0AB83 · AlphaFold monomer V2.0 prediction for endonuclease III (P0AB83) · 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 P0AB83
- Elsewhere: RCSB PDB 2ABK · PDBe 2ABK · UniProt P0AB83
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