Research workbench
Crystal structure of an archaeal intein-encoded homing endonuclease pi-pfui
Analyse Crystal structure of an archaeal intein-encoded homing endonuclease pi-pfui in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1DQ3
- Type
- protein
- Length
- 454 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Endonuclease
- UniProt
- P95484
- Ligands
- ZN
- Pockets
- 5 · best druggability 0.54
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Endonuclease | protein | 454 | 33% helix, 35% strand | P95484 |
Ligands and binding sites
- ZN · Zinc ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 173 | 0.54 | 0.79 | 26 | empty |
| 2 | 101 | 0.48 | 0.81 | 22 | empty |
| 3 | 70 | 0.35 | 0.77 | 19 | empty |
| 4 | 78 | 0.31 | 0.74 | 18 | empty |
| 5 | 69 | 0.29 | 0.74 | 21 | empty |
Compared structures
- 1DQ3 · Crystal structure of an archaeal intein-encoded homing endonuclease pi-pfui · 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 P95484
- Elsewhere: RCSB PDB 1DQ3 · PDBe 1DQ3 · UniProt P95484
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