MolNFT v1 · #153650 · protein
Crystal structure of vvplpa from vibrio vulnificus
6JKZ · Thermolabile hemolysin: “Crystal structure of vvplpa from vibrio vulnificus”. X-ray diffraction, 2 ligands (1PS, CL), 3 pockets (best druggability 0.80). MolNFT v1 #153650 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 6JKZ
- Type
- protein
- Length
- 396 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Thermolabile hemolysin
- UniProt
- A0A2S3SYP4
- Ligands
- 1PS, CL
- Pockets
- 3 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Thermolabile hemolysin | protein | 396 | 39% helix, 18% strand | A0A2S3SYP4 |
Ligands and binding sites
- 1PS · 3-pyridinium-1-ylpropane-1-sulfonate · ligand · 2 copies · chains A
- CL · Chloride ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 576 | 0.80 | 0.86 | 59 | 1PS |
| 2 | 73 | 0.53 | 0.86 | 20 | CL |
| 3 | 104 | 0.36 | 0.74 | 22 | empty |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 6JKZ · Crystal structure of VvPlpA from Vibrio vulnificus · 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 A0A2S3SYP4
- Elsewhere: RCSB PDB 6JKZ · PDBe 6JKZ · UniProt A0A2S3SYP4
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.