MolNFT v1 · #108553 · protein
Methanopyrus kandleri fen-1 nuclease
4WA8 · Flap endonuclease 1: “Methanopyrus kandleri fen-1 nuclease”. X-ray diffraction, 1 ligand (CL), 4 pockets (best druggability 0.79). MolNFT v1 #108553 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4WA8
- Type
- protein
- Length
- 592 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Flap endonuclease 1
- EC
- 3.1.-.-
- UniProt
- Q8TXU4
- Ligands
- CL
- Pockets
- 4 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 49% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Flap endonuclease 1 (EC 3.1.-.-) | protein | 303 | 49% helix, 14% strand | Q8TXU4 |
| B | Flap endonuclease 1 (EC 3.1.-.-) | protein | 289 | 49% helix, 12% strand | Q8TXU4 |
Ligands and binding sites
- CL · Chloride ion · ion · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 941 | 0.79 | 0.81 | 76 | empty |
| 2 | 121 | 0.50 | 0.80 | 26 | empty |
| 3 | 64 | 0.42 | 0.81 | 20 | empty |
| 4 | 87 | 0.35 | 0.75 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 628 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
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 Q8TXU4
- Elsewhere: RCSB PDB 4WA8 · PDBe 4WA8 · UniProt Q8TXU4
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