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Soluble rabbit neprilysin

Analyse Soluble rabbit neprilysin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4XBH
Type: protein
Length: 1,392 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Neprilysin
EC: 3.4.24.11
UniProt: P08049
Ligands: NAG, ZN, PO4
Pockets: 13 · best druggability 0.82

Structure

x-ray diffraction · 1 distinct chain · 58% helix, 8% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Neprilysin (EC 3.4.24.11)	protein	696	58% helix, 8% strand	P08049

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 11 copies · chains A, B
ZN · Zinc ion · metal · 2 copies · chains A, B
PO4 · Phosphate ion · ion · 2 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

13 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	663	0.82	0.87	80	empty
2	722	0.74	0.80	95	PO4
3	1175	0.73	0.76	129	PO4
4	227	0.54	0.78	33	empty
5	205	0.53	0.78	24	empty

Interfaces

1 interface between chains.

A–B · 1012 Å² buried · 4 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 12 disulfide, 7 glycan (disulfide, N-glycosylation).

Compared structures

4XBH · Soluble rabbit neprilysin · the same entry in another collection · chain A against A, TM-score 1.00
P08049 · AlphaFold monomer V2.0 prediction for neprilysin (P08049) · 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 P08049
Elsewhere: RCSB PDB 4XBH · PDBe 4XBH · UniProt P08049

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