MolNFT v1 · #146951 · protein
Human N-acylethanolamine-hydrolyzing acid amidase (naaa) precursor (C126A)
6DXW: “Human N-acylethanolamine-hydrolyzing acid amidase (naaa) precursor (C126A)”. X-ray diffraction, 3 ligands (NAG, FUC, CL), 9 pockets (best druggability 0.67). MolNFT v1 #146951 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 6DXW
- Type
- protein
- Length
- 1,312 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- N-acylethanolamine-hydrolyzing acid amidase
- EC
- 3.5.1.60
- UniProt
- Q02083
- Ligands
- NAG, FUC, CL
- Pockets
- 9 · best druggability 0.67
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | N-acylethanolamine-hydrolyzing acid amidase (EC 3.5.1.60) | protein | 328 | 37% helix, 27% strand | Q02083 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 12 copies · chains A, B, C, D
- FUC · alpha-L-fucopyranose · sugar · 2 copies · chains A
- CL · Chloride ion · ion · 28 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 323 | 0.67 | 0.82 | 47 | CL |
| 2 | 288 | 0.64 | 0.81 | 60 | empty |
| 3 | 57 | 0.64 | 0.93 | 17 | empty |
| 4 | 320 | 0.54 | 0.74 | 33 | empty |
| 5 | 209 | 0.49 | 0.76 | 23 | empty |
Interfaces
4 interfaces between chains.
- B–C · 787 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 723 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 447 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 392 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 glycan (N-glycosylation).
Compared structures
- 6DXW · Human N-acylethanolamine-hydrolyzing acid amidase (NAAA) precursor (C126A) · the same entry in another collection · chain A against A, TM-score 1.00
- Q02083 · AlphaFold monomer V2.0 prediction for N-acylethanolamine-hydrolyzing acid amidase (Q02083) · a predicted model of the same protein · 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 Q02083
- Elsewhere: RCSB PDB 6DXW · PDBe 6DXW · UniProt Q02083
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.