MolNFT v1 · #122211 · protein
Structure of the spx-ttm domain fragment of the yeast inorganic polyphophate polymerase VTC4 (form a).
5IIG · Vacuolar transporter chaperone 4: “Structure of the spx-ttm domain fragment of the yeast inorganic polyphophate polymerase VTC4 (form a).”. X-ray diffraction, 1 ligand (SO4), 6 pockets (best druggability 0.74). MolNFT v1 #122211 on…
- PDB
- 5IIG
- Type
- protein
- Length
- 467 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Vacuolar transporter chaperone 4
- UniProt
- P47075
- Ligands
- SO4
- Pockets
- 6 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 45% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Vacuolar transporter chaperone 4 | protein | 467 | 45% helix, 20% strand | P47075 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 4 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 460 | 0.74 | 0.83 | 60 | SO4 |
| 2 | 759 | 0.74 | 0.79 | 46 | empty |
| 3 | 314 | 0.62 | 0.79 | 41 | empty |
| 4 | 88 | 0.48 | 0.82 | 22 | empty |
| 5 | 112 | 0.47 | 0.79 | 26 | empty |
Compared structures
- 5IIG · Structure of the SPX-TTM domain fragment of the yeast inorganic polyphophate polymerase… · the same entry in another collection · chain A against A, TM-score 1.00
- P47075 · AlphaFold monomer V2.0 prediction for vacuolar transporter chaperone 4 (P47075) · a predicted model of the same protein · chain A against A, TM-score 0.62
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 P47075
- Elsewhere: RCSB PDB 5IIG · PDBe 5IIG · UniProt P47075
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