Research workbench
Human PFKFB3 in complex with an indole inhibitor 2
Analyse Human PFKFB3 in complex with an indole inhibitor 2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5AJW
- Type
- protein
- Length
- 439 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.5
- Source
- HOMO SAPIENS
- Molecule
- 6-phosphofructo-2-KINASE/FRUCTOSE-2,6-bisphosphatase 3
- EC
- 2.7.1.105, 3.1.3.46
- UniProt
- Q16875
- Ligands
- PHS, S6L, F6P, PO4
- Pockets
- 4 · best druggability 0.78
Structure
x-ray diffraction · resolution 2.5 · 1 distinct chain · 43% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 6-phosphofructo-2-KINASE/FRUCTOSE-2,6-bisphosphatase 3 (EC 2.7.1.105, 3.1.3.46) | protein | 439 | 43% helix, 17% strand | Q16875 |
Ligands and binding sites
- PHS · Phosphonic acid · ligand · chains A
- S6L · 2-amino-N-[4-(2-amino-1-benzyl-3-cyano-indol-5-yl)oxyphenyl]acetamide · ligand · chains A
- F6P · 6-O-phosphono-beta-D-fructofuranose · sugar · chains A
- PO4 · Phosphate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 367 | 0.78 | 0.88 | 44 | PO4 |
| 2 | 165 | 0.73 | 0.91 | 33 | PHS, F6P |
| 3 | 306 | 0.68 | 0.83 | 38 | S6L |
| 4 | 60 | 0.30 | 0.75 | 18 | empty |
Compared structures
- 5AJW · Human PFKFB3 in complex with an indole inhibitor 2 · the same entry in another collection · chain A against A, TM-score 1.00
- Q16875 · AlphaFold monomer V2.0 prediction for 6-phosphofructo-2-KINASE/FRUCTOSE-2,6-bisphosphatase… · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q16875
- Elsewhere: RCSB PDB 5AJW · PDBe 5AJW · UniProt Q16875
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