1LPJ

Human cRBP IV


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.230 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Ligand binding and structural analysis of a human putative cellular retinol-binding protein

Folli, C.Calderone, V.Ramazzina, I.Zanotti, G.Berni, R.

(2002) J.Biol.Chem. 277: 41970-41977

  • DOI: 10.1074/jbc.M207124200

  • PubMed Abstract: 
  • Three cellular retinol-binding protein (CRBP) types (CRBP I, II, and III) with distinct tissue distributions and retinoid binding properties have been structurally characterized thus far. A human binding protein, whose mRNA is expressed primarily in ...

    Three cellular retinol-binding protein (CRBP) types (CRBP I, II, and III) with distinct tissue distributions and retinoid binding properties have been structurally characterized thus far. A human binding protein, whose mRNA is expressed primarily in kidney, heart, and transverse colon, is shown here to be a CRBP family member (human CRBP IV), according to amino acid sequence, phylogenetic analysis, gene structure organization, and x-ray structural analysis. Retinol binding to CRBP IV leads to an absorption spectrum distinct from a typical holo-CRBP spectrum and is characterized by an affinity (K(d) = approximately 200 nm) lower than those for CRBP I, II, and III, as established in direct and competitive binding assays. As revealed by mutagenic analysis, the presence in CRBP IV of His(108) in place of Gln(108) is not responsible for the unusual holo-CRBP IV spectrum. The 2-A resolution crystal structure of human apo-CRBP IV is very similar to those of other structurally characterized CRBPs. The side chain of Tyr(60) is present within the binding cavity of the apoprotein and might affect the interaction with the retinol molecule. These results indicate that human CRBP IV belongs to a clearly distinct CRBP subfamily and suggest a relatively different mode of retinol binding for this binding protein.


    Related Citations: 
    • Crystal structures of holo and apo-cellular retinol-binding protein II
      Winter, N.S.,Bratt, J.M.,Banaszak, L.J.
      (1993) J.Mol.Biol. 230: 1247
    • Identification, Retinoid Binding and X-Ray Analysis of a Human Retinol-Binding Protein
      Folli, C.,Calderone, V.,Ottonello, S.,Bolchi, A.,Zanotti, G.,Stoppini, M.,Berni, R.
      (2001) Proc.Natl.Acad.Sci.USA 98: 3710
    • Crystallographic studies on a family of cellular lipophilic transport proteins. Refinement of P2 myelin protein and the structure determination and refinement of cellular retinol-binding protein in complex with all-trans-retinol.
      Cowan, S.W.,Newcomer, M.E.,Jones, T.A.
      (1993) J.Mol.Biol. 230: 1225


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, University of Parma, Italy.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Retinol-binding protein IV, cellular
A
133Homo sapiensGene Names: RBP7
Find proteins for Q96R05 (Homo sapiens)
Go to Gene View: RBP7
Go to UniProtKB:  Q96R05
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.230 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 34.053α = 90.00
b = 57.186β = 104.03
c = 67.939γ = 90.00
Software Package:
Software NamePurpose
CCP4data scaling
AMoREphasing
SCALAdata scaling
CNSrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-01-14
    Type: Initial release
  • Version 1.1: 2008-04-28
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance