MolNFT v1 · #26062 · protein
Endonuclease domain of TRAS1, a telomere-specific non-ltr retrotransposon
1WDU · TRAS1 ORF2P: “Endonuclease domain of TRAS1, a telomere-specific non-ltr retrotransposon”. X-ray diffraction, 2 ligands (CL, PO4), 3 pockets (best druggability 0.55). MolNFT v1 #26062 on GenesisL1: 3D structure, binding sites and…
- PDB
- 1WDU
- Type
- protein
- Length
- 436 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- TRAS1 ORF2P
- UniProt
- Q93139
- Ligands
- CL, PO4
- Pockets
- 3 · best druggability 0.55
Structure
x-ray diffraction · 2 distinct chains · 22% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | TRAS1 ORF2P | protein | 217 | 21% helix, 32% strand | Q93139 |
| B | TRAS1 ORF2P | protein | 219 | 22% helix, 35% strand | Q93139 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 297 | 0.55 | 0.76 | 41 | CL |
| 2 | 59 | 0.36 | 0.78 | 15 | empty |
| 3 | 77 | 0.33 | 0.75 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 318 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 1WDU · Endonuclease domain of TRAS1, a telomere-specific non-LTR retrotransposon · 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 Q93139
- Elsewhere: RCSB PDB 1WDU · PDBe 1WDU · UniProt Q93139
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