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Cryoem structure of mammalian acylaminoacyl-peptidase

Analyse Cryoem structure of mammalian acylaminoacyl-peptidase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7PX8
Type: protein
Length: 2,798 residues
Chains: 4
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Acylamino-acid-releasing enzyme
UniProt: P19205
Pockets: 20 · best druggability 0.87

Structure

electron microscopy · 2 distinct chains · 16% helix, 35% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Acylamino-acid-releasing enzyme	protein	700	15% helix, 35% strand	P19205
C, D	Acylamino-acid-releasing enzyme	protein	699	17% helix, 35% strand	P19205

Pockets

20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1133	0.87	0.88	98	empty
2	1139	0.87	0.88	112	empty
3	944	0.81	0.83	78	empty
4	1114	0.79	0.81	86	empty
5	1064	0.79	0.80	87	empty

Interfaces

6 interfaces between chains.

C–D · 2331 Å² buried · 5 hydrogen bonds · protein-protein
A–B · 2240 Å² buried · 6 hydrogen bonds · protein-protein
A–D · 2140 Å² buried · 11 hydrogen bonds · protein-protein
B–C · 2112 Å² buried · 9 hydrogen bonds · protein-protein
A–C · 299 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

7PX8 · CryoEM structure of mammalian acylaminoacyl-peptidase · the same entry in another collection · chain D against D, TM-score 1.00
P19205 · AlphaFold monomer V2.0 prediction for acylamino-acid-releasing enzyme (P19205) · a predicted model of the same protein · chain D against A, TM-score 0.98

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 P19205
Elsewhere: RCSB PDB 7PX8 · PDBe 7PX8 · UniProt P19205

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