MolNFT v1 · #27232 · protein
Structure of human aldolase B associated with hereditary fructose intolerance (A149P), at 277K
1XDL · Fructose-bisphosphate aldolase B: “Structure of human aldolase B associated with hereditary fructose intolerance (A149P), at 277K”. X-ray diffraction, 1 ligand (SO4), 20 pockets (best druggability 0.82). MolNFT v1 #27232 on…
- PDB
- 1XDL
- Type
- protein
- Length
- 2,456 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fructose-bisphosphate aldolase B
- EC
- 4.1.2.13
- UniProt
- P05062
- Ligands
- SO4
- Pockets
- 20 · best druggability 0.82
Structure
x-ray diffraction · 8 distinct chains · 53% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fructose-bisphosphate aldolase B (EC 4.1.2.13) | protein | 303 | 53% helix, 13% strand | P05062 |
| B | Fructose-bisphosphate aldolase B (EC 4.1.2.13) | protein | 299 | 52% helix, 11% strand | P05062 |
| C | Fructose-bisphosphate aldolase B (EC 4.1.2.13) | protein | 329 | 51% helix, 12% strand | P05062 |
| D | Fructose-bisphosphate aldolase B (EC 4.1.2.13) | protein | 297 | 55% helix, 12% strand | P05062 |
| W | Fructose-bisphosphate aldolase B (EC 4.1.2.13) | protein | 296 | 56% helix, 12% strand | P05062 |
| X | Fructose-bisphosphate aldolase B (EC 4.1.2.13) | protein | 329 | 51% helix, 13% strand | P05062 |
| Y | Fructose-bisphosphate aldolase B (EC 4.1.2.13) | protein | 302 | 52% helix, 11% strand | P05062 |
| Z | Fructose-bisphosphate aldolase B (EC 4.1.2.13) | protein | 301 | 53% helix, 12% strand | P05062 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 8 copies · chains A, B, C, D, W, X, Y, Z
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1174 | 0.82 | 0.83 | 103 | empty |
| 2 | 1163 | 0.82 | 0.83 | 100 | SO4 |
| 3 | 67 | 0.72 | 0.97 | 16 | empty |
| 4 | 68 | 0.72 | 0.97 | 18 | empty |
| 5 | 65 | 0.71 | 0.97 | 18 | empty |
Interfaces
13 interfaces between chains.
- A–B · 793 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 788 Ų buried · 10 hydrogen bonds · protein-protein
- Y–Z · 784 Ų buried · 10 hydrogen bonds · protein-protein
- W–X · 782 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 737 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 1XDL · Structure of human aldolase B associated with hereditary fructose intolerance (A149P), at… · the same entry in another collection · chain X against X, TM-score 1.00
- P05062 · AlphaFold monomer V2.0 prediction for fructose-bisphosphate aldolase B (P05062) · a predicted model of the same protein · chain Z 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 P05062
- Elsewhere: RCSB PDB 1XDL · PDBe 1XDL · UniProt P05062
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