1UAP | pdb_00001uap

NMR structure of the NTR domain from human PCOLCE1


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

wwPDB Validation 3D Report Full Report

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This is version 1.5 of the entry. See complete history

Literature

NMR Structure of the Netrin-like Domain (NTR) of Human Type I Procollagen C-Proteinase Enhancer Defines Structural Consensus of NTR Domains and Assesses Potential Proteinase Inhibitory Activity and Ligand Binding.

Liepinsh, E.Banyai, L.Pintacuda, G.Trexler, M.Patthy, L.Otting, G.

(2003) J Biological Chem 278: 25982-25989

  • DOI: https://doi.org/10.1074/jbc.M302734200
  • Primary Citation Related Structures: 
    1UAP

  • PubMed Abstract: 

    Procollagen C-proteinase enhancer (PCOLCE) proteins are extracellular matrix proteins that enhance the activities of procollagen C-proteinases by binding to the C-propeptide of procollagen I. PCOLCE proteins are built of three structural modules, consisting of two CUB domains followed by a C-terminal netrin-like (NTR) domain. While the enhancement of proteinase activity can be ascribed solely to the CUB domains, sequence homology of the NTR domain with tissue inhibitors of metalloproteinases suggest proteinase inhibitory activity for the NTR domain. Here we present the three-dimensional structure of the NTR domain of human PCOLCE1 as the first example of a structural domain with the canonical features of an NTR module. The structure rules out a binding mode to metalloproteinases similar to that of tissue inhibitors of metalloproteinases but suggests possible inhibitory function toward specific serine proteinases. Sequence conservation between 13 PCOLCE proteins from different organisms suggests a conserved binding surface for other protein partners.


  • Organizational Affiliation
    • Department of Medical Biochemistry and Biophysics, Karolinska Institute, S-17177 Stockholm, Sweden.

Macromolecule Content 

  • Total Structure Weight: 16.59 kDa 
  • Atom Count: 979 
  • Modeled Residue Count: 131 
  • Deposited Residue Count: 154 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Procollagen C-proteinase enhancer protein154Homo sapiensMutation(s): 0 
Gene Names: PCOLCE
UniProt & NIH Common Fund Data Resources
Find proteins for Q15113 (Homo sapiens)
Explore Q15113 
Go to UniProtKB:  Q15113
PHAROS:  Q15113
GTEx:  ENSG00000106333 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ15113
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-07-15
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2022-03-02
    Changes: Database references, Derived calculations
  • Version 1.4: 2023-12-27
    Changes: Data collection
  • Version 1.5: 2024-11-20
    Changes: Structure summary