2CBR

CELLULAR RETINOIC ACID BINDING PROTEIN I IN COMPLEX WITH A RETINOBENZOIC ACID (AM80)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.230 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structures of cellular retinoic acid binding proteins I and II in complex with synthetic retinoids.

Chaudhuri, B.N.Kleywegt, G.J.Broutin-L'Hermite, I.Bergfors, T.Senn, H.Le Motte, P.Partouche, O.Jones, T.A.

(1999) Acta Crystallogr.,Sect.D 55: 1850-1857

  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Retinoids play important roles in diverse cellular processes including growth, cell differentiation and vision. Many natural and synthetic retinoids are used as drugs in dermatology and oncology. A large amount of data has been accumulated on the cel ...

    Retinoids play important roles in diverse cellular processes including growth, cell differentiation and vision. Many natural and synthetic retinoids are used as drugs in dermatology and oncology. A large amount of data has been accumulated on the cellular activity of different synthetic retinoids. They are stabilized and transported inside the cell cytoplasm by binding and transport proteins, such as cellular retinol-binding proteins and cellular retinoic acid binding proteins (CRABPs). The structures of human CRABP II in complex with two different synthetic retinoids, Ro13-6307 and Ro12--7310 (at 2.1 and 2.0 A resolution, respectively) and of bovine CRABP I in complex with a retinobenzoic acid, Am80 (at 2.8 A resolution) are described. The binding affinities of human CRABP I and II for the retinoids studied here have been determined. All these compounds have comparable binding affinities (nanomolar range) for both CRABPs. Apart from the particular interactions of the carboxylate group of the retinoids with specific protein groups, each structure reveals characteristic interactions. Studying the atomic details of the interaction of retinoids with retinoid-binding proteins facilitates the understanding of the kinetics of retinoid trafficking inside the cytoplasm.


    Related Citations: 
    • Lipid-Binding Proteins: A Family of Fatty Acid and Retinoid Transport Proteins
      Banaszak, L.,Winter, N.,Xu, Z.,Bernlohr, D.A.,Cowan, S.W.
      (1994) Adv.Protein Chem. 45: 89
    • Crystallisation and Preliminary X-Ray Analysis of Recombinant Bovine Cellular Retinoic Acid-Binding Protein
      Bergfors, T.,Kleywegt, G.J.,Jones, T.A.
      (1994) Acta Crystallogr.,Sect.D 50: 370
    • Crystal Structure of Cellular Retinoic-Acid-Binding Proteins I and II in Complex with All-Trans-Retinoic Acid and a Synthetic Retinoid
      Kleywegt, G.J.,Bergfors, T.,Senn, H.,Le Motte, P.,Gsell, B.,Shudo, K.,Jones, T.A.
      (1994) Structure 2: 1241


    Organizational Affiliation

    Department of Cell Biology, Uppsala University, Biomedical Center, Box 596, SE-751 24, Uppsala, Sweden.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (CRABP-I)
A
136Bos taurusMutation(s): 0 
Gene Names: CRABP1
Find proteins for P62964 (Bos taurus)
Go to Gene View: CRABP1
Go to UniProtKB:  P62964
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
A80
Query on A80

Download SDF File 
Download CCD File 
A
4-[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbamoyl]benzoic acid
C22 H25 N O3
MUTNCGKQJGXKEM-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
A80IC50: 140 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.230 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 133.500α = 90.00
b = 133.500β = 90.00
c = 40.570γ = 120.00
Software Package:
Software NamePurpose
SCALAdata scaling
DENZOdata reduction
CNSrefinement
CCP4data scaling
AMoREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-12-21
    Type: Initial release
  • Version 1.1: 2008-04-26
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2011-10-05
    Type: Non-polymer description