6JYM image
Deposition Date 2019-04-26
Release Date 2020-04-29
Last Version Date 2023-11-22
Entry Detail
PDB ID:
6JYM
Keywords:
HYDROLASE
Title:
Crystal structure of Prolyl Endopeptidase from Haliotis discus hannai
Biological Source:
Source Organism:
Haliotis discus hannai (Taxon ID: 42344)
Host Organism:
Escherichia coli K-12
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
1.50 Å
R-Value Free:
0.19
R-Value Work:
0.17
R-Value Observed:
0.17
Space Group:
P 21 21 21
6JYM validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Prolyl endopeptidase
Gene (Uniprot):PREP
Chain IDs:A
Chain Length:758
Number of Molecules:1
Biological Source:Haliotis discus hannai
UniProt ID:A0A1X9T5X9 Pfam ID:PF02897, PF00326
Primary Citation
Characterization and crystal structure of prolyl endopeptidase from abalone (Haliotis discus hannai).
FOOD CHEM 333 127452 127452 (2020)
PMID: 32673951 DOI: 10.1016/j.foodchem.2020.127452

Abstact

Aimed to study the characteristics of prolyl endopeptidase (PEP, EC 3.4.21.26) and its possible role in the degradation of collagen, we cloned the full-length cDNA sequence of PEP from abalone (Haliotis discus hannai) (Hdh-PEP). Recombinant Hdh-PEP (rHdh-PEP) was expressed in vitro, its enzymatic properties were detected, and its secondary structure was analyzed by Circular Dichroism (CD). We for the first time determined the 1.5 Å crystal structure of rHdh-PEP. The decomposition effect of rHdh-PEP on collagen peptides was analyzed. Our data revealed that the molecular weight of rHdh-PEP is 85 kDa, consisting of a catalytic domain and a β-propeller domain. The optimal pH and temperature of rHdh-PEP were pH 6.0 and 20 °C, respectively. Using small collagen peptides as substrates, HPLC-ESI-MS analysis confirmed that rHdh-PEP specifically cleaved at the carboxyl side of proline residues, suggesting its role in the degradation of collagen peptides during autolysis.

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Primary Citation of related structures
6JYM