MolNFT v1 · #140119 · protein
Structure of 6-aminohexanoate-oligomer hydrolase from arthrobacter sp. KI72., D122G/H130Y muntant
5Y0L · Endo-type 6-aminohexanoate oligomer hydrolase: “Structure of 6-aminohexanoate-oligomer hydrolase from arthrobacter sp. KI72., D122G/H130Y muntant”. X-ray diffraction, 2 ligands (NA, SO4), 2 pockets (best druggability 0.73). MolNFT…
- PDB
- 5Y0L
- Type
- protein
- Length
- 666 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
- NA, SO4
- Pockets
- 2 · best druggability 0.73
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 | 331 | 26% helix, 33% strand | Q57326 |
| B | Endo-type 6-aminohexanoate oligomer hydrolase | protein | 335 | 25% helix, 33% strand | Q57326 |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · chains B
- GOL · Glycerol · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 61 | 0.73 | 0.99 | 26 | empty |
| 2 | 694 | 0.71 | 0.78 | 84 | empty |
Interfaces
1 interface between chains.
- A–B · 1355 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 5Y0L · Structure of 6-aminohexanoate-oligomer hydrolase from Arthrobacter sp. KI72., D122G/H130Y… · 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 5Y0L · PDBe 5Y0L · UniProt Q57326
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