Research workbench
Crystal structure of a. japonicus CB05
Analyse Crystal structure of a. japonicus CB05 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3LDK
- Type
- protein
- Length
- 634 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fructosyltransferase
- Ligands
- GLC, FRU
- Pockets
- 8 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 9% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fructosyltransferase | protein | 634 | 9% helix, 42% strand | — |
Ligands and binding sites
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 | 75 | 0.77 | 0.99 | 18 | empty |
| 2 | 444 | 0.68 | 0.80 | 38 | GLC, FRU |
| 3 | 230 | 0.62 | 0.82 | 31 | empty |
| 4 | 142 | 0.43 | 0.75 | 30 | empty |
| 5 | 85 | 0.36 | 0.76 | 16 | empty |
Compared structures
- 3LDK · Crystal Structure of A. japonicus CB05 · 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
- Elsewhere: RCSB PDB 3LDK · PDBe 3LDK
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