1QSJ

N-TERMINALLY TRUNCATED C3DG FRAGMENT


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.212 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure at 1.44 A resolution of an N-terminally truncated form of the rat serum complement C3d fragment.

Zanotti, G.Bassetto, A.Battistutta, R.Folli, C.Arcidiaco, P.Stoppini, M.Berni, R.

(2000) Biochim.Biophys.Acta 1478: 232-238

  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Complement component C3 plays a key role in the complement-mediated immune defence, and occupies a central position within the complement cascade system. One of its degradation products, C3dg, was purified from rat serum and crystallised in two diffe ...

    Complement component C3 plays a key role in the complement-mediated immune defence, and occupies a central position within the complement cascade system. One of its degradation products, C3dg, was purified from rat serum and crystallised in two different crystal forms as N-terminally truncated fragment. Despite the truncation and the lack of a significant portion of the N-terminus as compared to C3d, the structure of the fragment is highly similar to that of recombinant human C3d (Nagar et al., Science 280 (1998) 1277-1281). Structural details of the reactive site have been obtained, suggesting a possible mode of thioester bond formation between Cys-1010 and Gln-1013 and thioester bond cleavage in the transacylation reaction involving His-1126. The truncation at the N-terminus of C3d leads to the exposure of a surface of the molecule that favours dimerisation, so that in both crystal forms, the fragment is present as a dimer, with monomers related by a two-fold axis.


    Related Citations: 
    • X-ray Crystal Structure of C3d: A C3 Fragment and Ligand for Complement Receptor 2
      Nagar, B.,Jones, R.G.,Diefenbach, R.J.,Isenman, D.E.,Rini, J.M.
      (1998) Science 280: 1277


    Organizational Affiliation

    Department of Organic Chemistry and Biopolymer Research Center, University of Padova, Italy. zanotti@chor.unipd.it




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
COMPLEMENT C3 PRECURSOR
A, B, C, D
277Rattus norvegicusMutation(s): 3 
Gene Names: C3
Find proteins for P01026 (Rattus norvegicus)
Go to Gene View: C3
Go to UniProtKB:  P01026
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.212 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 99.620α = 90.00
b = 99.930β = 90.00
c = 114.880γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
CCP4data scaling
AMoREphasing
SCALAdata scaling
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2000-07-31
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance