2OL2 | pdb_00002ol2

High Resolution Structure of Native PCI in Space Group P21


Experimental Data Snapshot

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp2.00 Å
  • R-Value Free:&nbsp
    0.271 (Depositor), 0.230 (DCC)&nbsp
  • R-Value Work:&nbsp
    0.225 (Depositor), 0.227 (DCC)&nbsp
  • R-Value Observed:&nbsp
    0.225&nbsp(Depositor)&nbsp

Starting Model: experimental
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wwPDB Validation&nbsp &nbsp3D Report&nbspFull Report


This is version 1.3 of the entry. See complete&nbsphistory.&nbsp


Literature

Structure of native protein C inhibitor provides insight into its multiple functions.

Li, W.,&nbspAdams, T.E.,&nbspKjellberg, M.,&nbspStenflo, J.,&nbspHuntington, J.A.

(2007) J Biological Chem&nbsp282: 13759-13768

  • DOI:&nbsphttps://doi.org/10.1074/jbc.M701074200
  • Primary Citation Related Structures:&nbsp
    2HI9, 2OL2

  • PubMed Abstract:&nbsp

    Protein C inhibitor (PCI) is a multifunctional serpin with wide ranging protease inhibitory functions, unique cofactor binding activities, and potential non-inhibitory functions akin to the hormone-transporting serpins. To gain insight into the molecular mechanisms utilized by PCI we developed a robust expression system in Escherichia coli and solved the crystal structure of PCI in its native state. The five monomers obtained from our two crystal forms provide an NMR-like ensemble revealing regions of inherent flexibility. The reactive center loop (RCL) of PCI is long and highly flexible with no evidence of hinge region incorporation into beta-sheet A, as seen for other heparin-binding serpins. We adapted an extrinsic fluorescence method for determining dissociation constants for heparin and find that the N-terminal tail of PCI and residues adjacent to helix H are not involved in heparin binding. The minimal heparin length capable of tight binding to PCI was determined to be chains of eight monosaccharide units. A large hydrophobic pocket occupied by hydrophobic crystal contacts was found in an analogous position to the hormone-binding site in thyroxine-binding globulin. In conclusion, the data presented here provide important insights into the mechanisms by which PCI exercises its multiple inhibitory and non-inhibitory functions.


  • Organizational Affiliation:&nbsp
    • Department of Haematology, Division of Structural Medicine, Thrombosis Research Unit, Cambridge Institute for Medical Research, University of Cambridge, Wellcome Trust/MRC Building, Hills Road, Cambridge CB2 2XY, United Kingdom.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Plasma serine protease inhibitor
A, B
395Homo sapiensMutation(s): 0&nbsp
Gene Names:&nbspSERPINA5,&nbspPCI,&nbspPLANH3,&nbspPROCI
UniProt & NIH Common Fund Data Resources
Find proteins for&nbspP05154&nbsp(Homo sapiens)
Explore&nbspP05154&nbsp
Go to UniProtKB: &nbspP05154
PHAROS: &nbspP05154
GTEx: &nbspENSG00000188488&nbsp
Entity Groups &nbsp
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP05154
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands&nbsp1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File&nbsp
C [auth A]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp2.00 Å
  • R-Value Free:&nbsp 0.271 (Depositor), 0.230 (DCC)&nbsp
  • R-Value Work:&nbsp 0.225 (Depositor), 0.227 (DCC)&nbsp
  • R-Value Observed:&nbsp0.225&nbsp(Depositor)&nbsp
Space Group:&nbspP 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 56.017α = 90
b = 60.074β = 93.28
c = 133.171γ = 90
Software Package:
Software NamePurpose
CNSrefinement
MxCuBEdata collection
MOSFLMdata reduction
CCP4data scaling
PHASERphasing

Structure Validation

View&nbspFull Validation Report



Entry History&nbsp

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-03-13
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 1.3: 2023-08-30
    Changes: Data collection, Database references, Derived calculations, Refinement description