2QY0

Active dimeric structure of the catalytic domain of C1r reveals enzyme-product like contacts


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.211 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Revisiting the mechanism of the autoactivation of the complement protease C1r in the C1 complex: Structure of the active catalytic region of C1r.

Kardos, J.Harmat, V.Pallo, A.Barabas, O.Szilagyi, K.Graf, L.Naray-Szabo, G.Goto, Y.Zavodszky, P.Gal, P.

(2008) Mol.Immunol. 45: 1752-1760

  • DOI: 10.1016/j.molimm.2007.09.031

  • PubMed Abstract: 
  • C1r is a modular serine protease which is the autoactivating component of the C1 complex of the classical pathway of the complement system. We have determined the first crystal structure of the entire active catalytic region of human C1r. This fragme ...

    C1r is a modular serine protease which is the autoactivating component of the C1 complex of the classical pathway of the complement system. We have determined the first crystal structure of the entire active catalytic region of human C1r. This fragment contains the C-terminal serine protease (SP) domain and the preceding two complement control protein (CCP) modules. The activated CCP1-CCP2-SP fragment makes up a dimer in a head-to-tail fashion similarly to the previously characterized zymogen. The present structure shows an increased number of stabilizing interactions. Moreover, in the crystal lattice there is an enzyme-product relationship between the C1r molecules of neighboring dimers. This enzyme-product complex exhibits the crucial S1-P1 salt bridge between Asp631 and Arg446 residues, and intermolecular interaction between the CCP2 module and the SP domain. Based on these novel structural information we propose a new split-and-reassembly model for the autoactivation of the C1r. This model is consistent with experimental results that have not been explained adequately by previous models. It allows autoactivation of C1r without large-scale, directed movement of C1q arms. The model is concordant with the stability of the C1 complex during activation of the next complement components.


    Organizational Affiliation

    Department of Biochemistry, Institute of Biology, Eötvös Loránd University, Pázmány sétány 1/C, Budapest H-1117, Hungary.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Complement C1r subcomponent
A, C
159Homo sapiensMutation(s): 0 
Gene Names: C1R
EC: 3.4.21.41
Find proteins for P00736 (Homo sapiens)
Go to Gene View: C1R
Go to UniProtKB:  P00736
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Complement C1r subcomponent
B, D
242Homo sapiensMutation(s): 0 
Gene Names: C1R
EC: 3.4.21.41
Find proteins for P00736 (Homo sapiens)
Go to Gene View: C1R
Go to UniProtKB:  P00736
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B, C, D
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.211 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 74.541α = 90.00
b = 92.416β = 90.00
c = 162.848γ = 90.00
Software Package:
Software NamePurpose
ADSCdata collection
BEASTphasing
SCALAdata scaling
REFMACrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-02-05
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance