3LCP

Crystal structure of the carbohydrate recognition domain of LMAN1 in complex with MCFD2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.196 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of the LMAN1-CRD/MCFD2 transport receptor complex provides insight into combined deficiency of factor V and factor VIII.

Wigren, E.Bourhis, J.M.Kursula, I.Guy, J.E.Lindqvist, Y.

(2010) Febs Lett. 584: 878-882

  • DOI: 10.1016/j.febslet.2010.02.009

  • PubMed Abstract: 
  • LMAN1 is a glycoprotein receptor, mediating transfer from the ER to the ER-Golgi intermediate compartment. Together with the co-receptor MCFD2, it transports coagulation factors V and VIII. Mutations in LMAN1 and MCFD2 can cause combined deficiency o ...

    LMAN1 is a glycoprotein receptor, mediating transfer from the ER to the ER-Golgi intermediate compartment. Together with the co-receptor MCFD2, it transports coagulation factors V and VIII. Mutations in LMAN1 and MCFD2 can cause combined deficiency of factors V and VIII (F5F8D). We present the crystal structure of the LMAN1/MCFD2 complex and relate it to patient mutations. Circular dichroism data show that the majority of the substitution mutations give rise to a disordered or severely destabilized MCFD2 protein. The few stable mutation variants are found in the binding surface of the complex leading to impaired LMAN1 binding and F5F8D.


    Organizational Affiliation

    Department of Medical Biochemistry and Biophysics, Karolinska Institutet, 17177 Stockholm, Sweden.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protein ERGIC-53
A, B
247Homo sapiensMutation(s): 0 
Gene Names: LMAN1 (ERGIC53, F5F8D)
Find proteins for P49257 (Homo sapiens)
Go to Gene View: LMAN1
Go to UniProtKB:  P49257
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Multiple coagulation factor deficiency protein 2
C, D
93Homo sapiensMutation(s): 0 
Gene Names: MCFD2 (SDNSF)
Find proteins for Q8NI22 (Homo sapiens)
Go to Gene View: MCFD2
Go to UniProtKB:  Q8NI22
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download SDF File 
Download CCD File 
A, B, C, D
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.196 
  • Space Group: P 61
Unit Cell:
Length (Å)Angle (°)
a = 58.602α = 90.00
b = 58.602β = 90.00
c = 396.870γ = 120.00
Software Package:
Software NamePurpose
DNAdata collection
PHASERphasing
REFMACrefinement
SCALAdata scaling
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-01-26
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance