Kallikrein-related peptidase 10

Experimental Data Snapshot

  • Resolution: 2.70 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.223 
  • R-Value Observed: 0.227 

wwPDB Validation   3D Report Full Report

This is version 1.3 of the entry. See complete history


Structural basis for the Zn2+ inhibition of the zymogen-like kallikrein-related peptidase 10.

Debela, M.Magdolen, V.Bode, W.Brandstetter, H.Goettig, P.

(2016) Biol Chem 397: 1251-1264

  • DOI: https://doi.org/10.1515/hsz-2016-0205
  • Primary Citation of Related Structures:  
    5LPE, 5LPF

  • PubMed Abstract: 

    Although kallikrein-related peptidase 10 (KLK10) is expressed in a variety of human tissues and body fluids, knowledge of its physiological functions is fragmentary. Similarly, the pathophysiology of KLK10 in cancer is not well understood. In some cancer types, a role as tumor suppressor has been suggested, while in others elevated expression is associated with poor patient prognosis. Active human KLK10 exhibits a unique, three residue longer N-terminus with respect to other serine proteases and an extended 99-loop nearly as long as in tissue kallikrein KLK1. Crystal structures of recombinant ligand-free KLK10 and a Zn2+ bound form explain to some extent the mixed trypsin- and chymotrypsin-like substrate specificity. Zn2+-inhibition of KLK10 appears to be based on a unique mechanism, which involves direct binding and blocking of the catalytic triad. Since the disordered N-terminus and several loops adopt a zymogen-like conformation, the active protease conformation is very likely induced by interaction with the substrate, in particular at the S1 subsite and at the unusual Ser193 as part of the oxyanion hole. The KLK10 structures indicate that the N-terminus, the nearby 75-, 148-, and the 99-loops are connected in an allosteric network, which is present in other trypsin-like serine proteases with several variations.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
A, B
234Homo sapiensMutation(s): 0 
Gene Names: KLK10NES1PRSSL1
EC: 3.4.21
UniProt & NIH Common Fund Data Resources
Find proteins for O43240 (Homo sapiens)
Explore O43240 
Go to UniProtKB:  O43240
PHAROS:  O43240
GTEx:  ENSG00000129451 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO43240
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.70 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.223 
  • R-Value Observed: 0.227 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 53.602α = 90
b = 66.841β = 104.29
c = 57.9γ = 90
Software Package:
Software NamePurpose
AUTOMARdata collection
MOSFLMdata reduction
Aimlessdata scaling
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Austrian Science FundAustriaP25003-B21

Revision History  (Full details and data files)

  • Version 1.0: 2016-10-05
    Type: Initial release
  • Version 1.1: 2016-11-16
    Changes: Database references
  • Version 1.2: 2017-09-06
    Changes: Advisory, Author supporting evidence
  • Version 1.3: 2024-01-10
    Changes: Advisory, Data collection, Database references, Refinement description