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Structure of 6-aminohexanoate-oligomer hydrolase from arthrobacter sp. KI72., D122R muntant
Analyse Structure of 6-aminohexanoate-oligomer hydrolase from arthrobacter sp. KI72.… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5XYP
- Type
- protein
- Length
- 663 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Endo-type 6-aminohexanoate oligomer hydrolase
- UniProt
- Q57326
- Ligands
- PO4
- Pockets
- 5 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 26% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Endo-type 6-aminohexanoate oligomer hydrolase | protein | 332 | 26% helix, 33% strand | Q57326 |
| B | Endo-type 6-aminohexanoate oligomer hydrolase | protein | 331 | 26% helix, 33% strand | Q57326 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 82 | 0.74 | 0.97 | 33 | empty |
| 2 | 401 | 0.62 | 0.77 | 49 | empty |
| 3 | 257 | 0.60 | 0.80 | 38 | empty |
| 4 | 76 | 0.36 | 0.77 | 19 | empty |
| 5 | 50 | 0.32 | 0.77 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 1369 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 5XYP · Structure of 6-aminohexanoate-oligomer hydrolase from Arthrobacter sp. KI72., D122R mutant · 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 Q57326
- Elsewhere: RCSB PDB 5XYP · PDBe 5XYP · UniProt Q57326
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