Research workbench
Crystal structure of levan fructotransferase D54N mutant from arthrobacter ureafaciens in complex with sucrose
Analyse Crystal structure of levan fructotransferase D54N mutant from arthrobacter… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4FFH
- Type
- protein
- Length
- 1,918 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Levan fructotransferase
- EC
- 4.2.2.16
- UniProt
- Q9KJD0
- Ligands
- GLC, FRU
- Pockets
- 20 · best druggability 0.61
Structure
x-ray diffraction · 2 distinct chains · 8% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Levan fructotransferase (EC 4.2.2.16) | protein | 480 | 7% helix, 49% strand | Q9KJD0 |
| D | Levan fructotransferase (EC 4.2.2.16) | protein | 478 | 8% helix, 50% strand | Q9KJD0 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 6 copies · chains A, B, C, D
- FRU · beta-D-fructofuranose · sugar · 6 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 281 | 0.61 | 0.79 | 28 | empty |
| 2 | 268 | 0.59 | 0.79 | 35 | GLC, FRU |
| 3 | 325 | 0.59 | 0.77 | 39 | empty |
| 4 | 274 | 0.58 | 0.78 | 28 | empty |
| 5 | 249 | 0.58 | 0.79 | 25 | empty |
Interfaces
4 interfaces between chains.
- A–B · 416 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 329 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 284 Ų buried · 3 hydrogen bonds · protein-protein
- C–D · 51 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 4FFH · Crystal Structure of Levan Fructotransferase D54N mutant from Arthrobacter ureafaciens in… · 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 Q9KJD0
- Elsewhere: RCSB PDB 4FFH · PDBe 4FFH · UniProt Q9KJD0
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