MolNFT v1 · #122759 · protein
P. patens sedoheptulose-1,7-bisphosphatase
5IZ3: “P. patens sedoheptulose-1,7-bisphosphatase”. X-ray diffraction, 1 ligand (PO4), 5 pockets (best druggability 0.58). MolNFT v1 #122759 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5IZ3
- Type
- protein
- Length
- 631 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sedoheptulose-1,7-bisphosphatase; Predicted protein
- UniProt
- A9S1S8
- Ligands
- PO4
- Pockets
- 5 · best druggability 0.58
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sedoheptulose-1,7-bisphosphatase | protein | 316 | 37% helix, 31% strand | A9S1S8 |
| B | Predicted protein | protein | 315 | 38% helix, 32% strand | A9S1S8 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 2 copies · chains A, B
- IMD · Imidazole · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 264 | 0.58 | 0.78 | 31 | PO4 |
| 2 | 265 | 0.58 | 0.78 | 34 | PO4 |
| 3 | 82 | 0.54 | 0.85 | 17 | empty |
| 4 | 129 | 0.46 | 0.78 | 23 | empty |
| 5 | 71 | 0.36 | 0.77 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 2169 Ų buried · 42 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5IZ3 · P. patens sedoheptulose-1,7-bisphosphatase · 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 A9S1S8
- Elsewhere: RCSB PDB 5IZ3 · PDBe 5IZ3 · UniProt A9S1S8
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