Research workbench
Crystal structure of human neutral endopeptidase complexed with a heteroarylalanine diacid.
Analyse Crystal structure of human neutral endopeptidase complexed with a… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2YB9
- Type
- protein
- Length
- 696 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Neprilysin
- EC
- 3.4.24.11
- UniProt
- P08473
- Ligands
- HA0, ZN
- Pockets
- 9 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 59% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Neprilysin (EC 3.4.24.11) | protein | 696 | 59% helix, 7% strand | P08473 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 199 | 0.69 | 0.87 | 33 | HA0 |
| 2 | 813 | 0.68 | 0.75 | 65 | empty |
| 3 | 500 | 0.65 | 0.77 | 55 | empty |
| 4 | 77 | 0.52 | 0.85 | 20 | empty |
| 5 | 152 | 0.50 | 0.79 | 24 | empty |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 2YB9 · Crystal Structure of Human Neutral Endopeptidase complexed with a heteroarylalanine… · the same entry in another collection · chain A against A, TM-score 1.00
- P08473 · AlphaFold monomer V2.0 prediction for neprilysin (P08473) · 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 P08473
- Elsewhere: RCSB PDB 2YB9 · PDBe 2YB9 · UniProt P08473
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