3BSZ

Crystal structure of the transthyretin-retinol binding protein-Fab complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.38 Å
  • R-Value Free: 0.312 
  • R-Value Work: 0.239 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural and mutational analyses of protein-protein interactions between transthyretin and retinol-binding protein.

Zanotti, G.Folli, C.Cendron, L.Alfieri, B.Nishida, S.K.Gliubich, F.Pasquato, N.Negro, A.Berni, R.

(2008) Febs J. 275: 5841-5854

  • DOI: 10.1111/j.1742-4658.2008.06705.x
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Transthyretin is a tetrameric binding protein involved in the transport of thyroid hormones and in the cotransport of retinol by forming a complex in plasma with retinol-binding protein. In the present study, we report the crystal structure of a macr ...

    Transthyretin is a tetrameric binding protein involved in the transport of thyroid hormones and in the cotransport of retinol by forming a complex in plasma with retinol-binding protein. In the present study, we report the crystal structure of a macromolecular complex, in which human transthyretin, human holo-retinol-binding protein and a murine anti-retinol-binding protein Fab are assembled according to a 1 : 2 : 2 stoichiometry. The main interactions, both polar and apolar, between retinol-binding protein and transthyretin involve the retinol hydroxyl group and a limited number of solvent exposed residues. The relevance of transthyretin residues in complex formation with retinol-binding protein has been examined by mutational analysis, and the structural consequences of some transthyretin point mutations affecting protein-protein recognition have been investigated. Despite a few exceptions, in general, the substitution of a hydrophilic for a hydrophobic side chain in contact regions results in a decrease or even a loss of binding affinity, thus revealing the importance of interfacial hydrophobic interactions and a high degree of complementarity between retinol-binding protein and transthyretin. The effect is particularly evident when the mutation affects an interacting residue present in two distinct subunits of transthyretin participating simultaneously in two interactions with a retinol-binding protein molecule. This is the case of the amyloidogenic I84S replacement, which abolishes the interaction with retinol-binding protein and is associated with an altered retinol-binding protein plasma transport in carriers of this mutation. Remarkably, some of the residues in mutated human transthyretin that weaken or abolish the interaction with retinol-binding protein are present in piscine transthyretin, consistent with the lack of interaction between retinol-binding protein and transthyretin in fish.


    Related Citations: 
    • The structure of human retinol-binding protein (RBP) with its carrier protein transthyretin reveals an interaction with the carboxy terminus of RBP.
      Naylor, H.M.,Newcomer, M.E.
      (1999) Biochemistry 38: 2647
    • Crystallization and preliminary X-ray data for the human transthyretin-retinol-binding protein (RBP) complex bound to an anti-RBP Fab.
      Malpeli, G.,Zanotti, G.,Gliubich, F.,Rizzotto, A.,Nishida, S.K.,Folli, C.,Berni, R.
      (1999) ACTA CRYSTALLOGR.,SECT.D 55: 276
    • Structure of a complex of two plasma proteins: transthyretin and retinol-binding protein.
      Monaco, H.L.,Rizzi, M.,Coda, A.
      (1995) Science 268: 1039


    Organizational Affiliation

    Department of Chemical Sciences and Institute of Biomolecular Chemistry-CNR, University of Padua, Italy. giuseppe.zanotti@unipd.it




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Transthyretin
A, B, C, D
127Homo sapiensGene Names: TTR (PALB)
Find proteins for P02766 (Homo sapiens)
Go to Gene View: TTR
Go to UniProtKB:  P02766
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Plasma retinol-binding protein
E, F
176Homo sapiensGene Names: RBP4
Find proteins for P02753 (Homo sapiens)
Go to Gene View: RBP4
Go to UniProtKB:  P02753
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Fab fragment heavy chain
L, M
215N/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Fab fragment light chain
H, N
215N/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
RTL
Query on RTL

Download SDF File 
Download CCD File 
E, F
RETINOL
C20 H30 O
FPIPGXGPPPQFEQ-OVSJKPMPSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.38 Å
  • R-Value Free: 0.312 
  • R-Value Work: 0.239 
  • Space Group: C 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 159.620α = 90.00
b = 223.180β = 90.00
c = 121.430γ = 90.00
Software Package:
Software NamePurpose
AMoREphasing
MOSFLMdata reduction
CNSrefinement
SCALAdata scaling
MAR345dtbdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-11-11
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2013-09-18
    Type: Derived calculations