1JV4

Crystal structure of recombinant major mouse urinary protein (rmup) at 1.75 A resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.206 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The X-ray structure of a recombinant major urinary protein at 1.75 A resolution. A comparative study of X-ray and NMR-derived structures.

Kuser, P.R.Franzoni, L.Ferrari, E.Spisni, A.Polikarpov, I.

(2001) Acta Crystallogr.,Sect.D 57: 1863-1869


  • PubMed Abstract: 
  • Major urinary proteins belong to the lipocalin family and are present in the urine of rodents as an ensemble of isoforms with pheromonal activity. The crystal structure of a recombinant mouse MUP (rMUP) was solved by the molecular-replacement techniq ...

    Major urinary proteins belong to the lipocalin family and are present in the urine of rodents as an ensemble of isoforms with pheromonal activity. The crystal structure of a recombinant mouse MUP (rMUP) was solved by the molecular-replacement technique and refined to an R factor and R(free) of 20 and 26.5%, respectively, at 1.75 A resolution. The structure was compared with an NMR model and with a crystallographic structure of the wild-type form of the protein. The crystal structures determined in different space groups present significantly smaller conformational differences amongst themselves than in comparison with NMR models. Some, but not all, of the conformational differences between the crystal and solution structures can be explained by the influence of crystallographic contacts. Most of the differences between the NMR and X-ray structures were found in the N-terminus and loop regions. A number of side chains lining the hydrophobic pocket of the molecule are more tightly packed in the NMR structure than in the crystallographic model. Surprisingly, clear and continuous electron density for a ligand was observed inside the hydrophobic pocket of this recombinant protein. Conformation of the ligand modelled inside the density is coherent with the results of recent NMR experiments.


    Related Citations: 
    • Crystallization and preliminary diffraction studies of a recombinant major urinary protein
      Kuser, P.R.,Krauchenco, S.,Fangel, A.,Polikarpov, I.
      (1999) Acta Crystallogr.,Sect.D 55: 1340
    • Solution Structure of a Recombinant Mouse Major Urinary Protein
      Luecke, C.,Franzoni, L.,Abbate, F.,Lohr, F.,Ferrari, E.,Sorbi, R.T.,Rueterjans, H.,Spisni, A.
      (1999) Eur.J.Biochem. 266: 1210


    Organizational Affiliation

    Laboratório Nacional de Luz Síncrotron, Caixa Postal 6192, CEP 13084-971 Campinas, SP, Brazil.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Major urinary protein 2
A
162Mus musculusGene Names: Mup2
Find proteins for P11589 (Mus musculus)
Go to UniProtKB:  P11589
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
TZL
Query on TZL

Download SDF File 
Download CCD File 
A
2-(SEC-BUTYL)THIAZOLE
C7 H11 N S
MHJSWOZJMPIGJQ-ZCFIWIBFSA-N
 Ligand Interaction
CD
Query on CD

Download SDF File 
Download CCD File 
A
CADMIUM ION
Cd
WLZRMCYVCSSEQC-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.206 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 37.140α = 90.00
b = 55.790β = 93.24
c = 37.670γ = 90.00
Software Package:
Software NamePurpose
DENZOdata reduction
AMoREphasing
SCALEPACKdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-12-05
    Type: Initial release
  • Version 1.1: 2007-10-16
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance