4EJX

Structure of ceruloplasmin-myeloperoxidase complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.69 Å
  • R-Value Free: 0.401 
  • R-Value Work: 0.366 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Ceruloplasmin: macromolecular assemblies with iron-containing acute phase proteins.

Samygina, V.R.Sokolov, A.V.Bourenkov, G.Petoukhov, M.V.Pulina, M.O.Zakharova, E.T.Vasilyev, V.B.Bartunik, H.Svergun, D.I.

(2013) Plos One 8: e67145-e67145

  • DOI: 10.1371/journal.pone.0067145
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Copper-containing ferroxidase ceruloplasmin (Cp) forms binary and ternary complexes with cationic proteins lactoferrin (Lf) and myeloperoxidase (Mpo) during inflammation. We present an X-ray crystal structure of a 2Cp-Mpo complex at 4.7 Å resolution. ...

    Copper-containing ferroxidase ceruloplasmin (Cp) forms binary and ternary complexes with cationic proteins lactoferrin (Lf) and myeloperoxidase (Mpo) during inflammation. We present an X-ray crystal structure of a 2Cp-Mpo complex at 4.7 Å resolution. This structure allows one to identify major protein-protein interaction areas and provides an explanation for a competitive inhibition of Mpo by Cp and for the activation of p-phenylenediamine oxidation by Mpo. Small angle X-ray scattering was employed to construct low-resolution models of the Cp-Lf complex and, for the first time, of the ternary 2Cp-2Lf-Mpo complex in solution. The SAXS-based model of Cp-Lf supports the predicted 1:1 stoichiometry of the complex and demonstrates that both lobes of Lf contact domains 1 and 6 of Cp. The 2Cp-2Lf-Mpo SAXS model reveals the absence of interaction between Mpo and Lf in the ternary complex, so Cp can serve as a mediator of protein interactions in complex architecture. Mpo protects antioxidant properties of Cp by isolating its sensitive loop from proteases. The latter is important for incorporation of Fe(3+) into Lf, which activates ferroxidase activity of Cp and precludes oxidation of Cp substrates. Our models provide the structural basis for possible regulatory role of these complexes in preventing iron-induced oxidative damage.


    Organizational Affiliation

    Institute of Crystallography RAS, Moscow, Russia. vsamygina@cicbiogune.es




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ceruloplasmin
A
1065Homo sapiensMutation(s): 0 
Gene Names: CP
EC: 1.16.3.1
Find proteins for P00450 (Homo sapiens)
Go to Gene View: CP
Go to UniProtKB:  P00450
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Myeloperoxidase light chain
B
114Homo sapiensMutation(s): 0 
Gene Names: MPO
EC: 1.11.2.2
Find proteins for P05164 (Homo sapiens)
Go to Gene View: MPO
Go to UniProtKB:  P05164
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Myeloperoxidase heavy chain
D
467Homo sapiensMutation(s): 0 
Gene Names: MPO
EC: 1.11.2.2
Find proteins for P05164 (Homo sapiens)
Go to Gene View: MPO
Go to UniProtKB:  P05164
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BMA
Query on BMA

Download SDF File 
Download CCD File 
D
BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
 Ligand Interaction
HEM
Query on HEM

Download SDF File 
Download CCD File 
D
PROTOPORPHYRIN IX CONTAINING FE
HEME
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
CU
Query on CU

Download SDF File 
Download CCD File 
A
COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, D
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.69 Å
  • R-Value Free: 0.401 
  • R-Value Work: 0.366 
  • Space Group: P 65 2 2
Unit Cell:
Length (Å)Angle (°)
a = 106.249α = 90.00
b = 106.249β = 90.00
c = 834.619γ = 120.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
MOLREPphasing
MAR345dtbdata collection
REFMACrefinement
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-04-10
    Type: Initial release
  • Version 1.1: 2013-07-17
    Type: Database references
  • Version 1.2: 2013-09-11
    Type: Database references