MolNFT v1 · #11730 · protein
Crystal structure of the VMA1-derived endonuclease bearing the N and C extein propeptides
1JVA · VMA1-derived homing endonuclease X10SSS: “Crystal structure of the VMA1-derived endonuclease bearing the N and C extein propeptides”. X-ray diffraction, 6 pockets (best druggability 0.77). MolNFT v1 #11730 on GenesisL1: 3D…
- PDB
- 1JVA
- Type
- protein
- Length
- 857 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- VMA1-derived homing endonuclease X10SSS
- EC
- 3.6.1.34
- UniProt
- P17255
- Pockets
- 6 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 26% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | VMA1-derived homing endonuclease X10SSS (EC 3.6.1.34) | protein | 427 | 27% helix, 36% strand | P17255 |
| B | VMA1-derived homing endonuclease X10SSS (EC 3.6.1.34) | protein | 430 | 26% helix, 37% strand | P17255 |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 737 | 0.77 | 0.81 | 93 | empty |
| 2 | 701 | 0.76 | 0.81 | 87 | empty |
| 3 | 177 | 0.47 | 0.76 | 30 | empty |
| 4 | 172 | 0.45 | 0.75 | 27 | empty |
| 5 | 72 | 0.42 | 0.80 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 1802 Ų buried · 29 hydrogen bonds · protein-protein
Compared structures
- 1JVA · Crystal structure of the VMA1-derived endonuclease bearing the N and C extein propeptides · the same entry in another collection · chain A against A, TM-score 1.00
- P17255 · AlphaFold monomer V2.0 prediction for V-type proton ATPase catalytic subunit a (P17255) · a predicted model of the same protein · chain B against A, TM-score 0.95
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 P17255
- Elsewhere: RCSB PDB 1JVA · PDBe 1JVA · UniProt P17255
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.