MolNFT v1 · #20410 · protein
T-state structure of the arg 243 to ala mutant of pig kidney fructose 1,6-bisphosphatase expressed in E. COLI
1RDY: “T-state structure of the arg 243 to ala mutant of pig kidney fructose 1,6-bisphosphatase expressed in E. COLI”. X-ray diffraction, 2 ligands (F6P, AMP), 8 pockets (best druggability 0.72). MolNFT v1 #20410 on GenesisL1: 3D…
- PDB
- 1RDY
- Type
- protein
- Length
- 674 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fructose 1,6-bisphosphatase
- EC
- 3.1.3.11
- UniProt
- P00636
- Ligands
- F6P, AMP
- Pockets
- 8 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 36% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Fructose 1,6-bisphosphatase (EC 3.1.3.11) | protein | 337 | 36% helix, 23% strand | P00636 |
Ligands and binding sites
- F6P · 6-O-phosphono-beta-D-fructofuranose · ligand · 2 copies · chains A, B
- AMP · Adenosine monophosphate · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 517 | 0.72 | 0.81 | 77 | F6P |
| 2 | 248 | 0.53 | 0.75 | 30 | empty |
| 3 | 185 | 0.52 | 0.77 | 32 | empty |
| 4 | 145 | 0.49 | 0.78 | 23 | empty |
| 5 | 97 | 0.43 | 0.78 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 2301 Ų buried · 28 hydrogen bonds · protein-protein
Compared structures
- 1RDY · T-state structure of the arg 243 to ala mutant of pig kidney fructose 1,6-bisphosphatase… · the same entry in another collection · chain A against A, TM-score 1.00
- P00636 · AlphaFold monomer V2.0 prediction for fructose-1,6-bisphosphatase 1 (P00636) · a predicted model of the same protein · chain B against A, TM-score 0.94
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 P00636
- Elsewhere: RCSB PDB 1RDY · PDBe 1RDY · UniProt P00636
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