Research workbench
Structure of the spx-ttm domain fragment of the yeast inorganic polyphophate polymerase VTC4 (form B).
Analyse Structure of the spx-ttm domain fragment of the yeast inorganic polyphophate… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5IIQ
- Type
- protein
- Length
- 463 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Vacuolar transporter chaperone 4
- UniProt
- P47075
- Ligands
- POP, SO4
- Pockets
- 5 · best druggability 0.56
Structure
x-ray diffraction · 1 distinct chain · 47% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Vacuolar transporter chaperone 4 | protein | 463 | 47% helix, 18% strand | P47075 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 265 | 0.56 | 0.77 | 33 | SO4, POP |
| 2 | 110 | 0.39 | 0.75 | 18 | empty |
| 3 | 98 | 0.38 | 0.75 | 17 | empty |
| 4 | 126 | 0.37 | 0.73 | 21 | empty |
| 5 | 50 | 0.25 | 0.72 | 14 | empty |
Compared structures
- 5IIQ · 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 0.59
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 5IIQ · PDBe 5IIQ · UniProt P47075
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