1KGI

Rat transthyretin (also called prealbumin) complex with 3,3',5,5'-tetraiodothyroacetic acid (t4ac)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.207 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Complex of rat transthyretin with tetraiodothyroacetic acid refined at 2.1 and 1.8 A resolution.

Muziol, T.Cody, V.Luft, J.R.Pangborn, W.Wojtczak, A.

(2001) Acta Biochim.Pol. 48: 877-884

  • Primary Citation of Related Structures:  1KED

  • PubMed Abstract: 
  • The crystal structure of rat transthyretin (rTTR) complex with 3,5,3',5'-tetraiodothyroacetic acid (T4Ac) was determined at 1.8 A resolution with low temperature synchrotron data collected at CHESS. The structure was refined to R = 0.207 and Rfree = ...

    The crystal structure of rat transthyretin (rTTR) complex with 3,5,3',5'-tetraiodothyroacetic acid (T4Ac) was determined at 1.8 A resolution with low temperature synchrotron data collected at CHESS. The structure was refined to R = 0.207 and Rfree = 0.24 with the use of 8-1.8 A data. The additional 8000 reflections from the incomplete 2.1-1.8 data shell, included in the refinement, reduced the Rfree index by 1.3%. Structure comparison with the model refined against the complete 8-2.1 A data revealed no differences in the ligand orientation and the conformation of the polypeptide chain in the core regions. However, the high-resolution data included in the refinement improved the model in the flexible regions poorly defined with the lower resolution data. Also additional sixteen water molecules were found in the difference map calculated with the extended data. The structure revealed both forward and reverse binding of tetraiodothyroacetic acid in one binding site and two modes of forward ligand binding in the second site, with the phenolic iodine atoms occupying different sets of the halogen binding pockets.


    Related Citations: 
    • STRUCTURE OF RAT (rTTR) TRANSTHYRETIN COMPLEX WITH THYROXINE AT 2.5 A RESOLUTION: FIRST NON-BIASED INS INTO THYROXINE BINDING REVEALS DIFFERENT HORMONE ORIENTATION IN TWO BINDING SITES
      Wojtczak, A.,Cody, V.,Luft, J.,Pangborn, W.
      (2001) Acta Crystallogr.,Sect.D 57: 1061
    • Mechanism of Molecular Recognition. Structural Aspects of 3,3'-Diiodo-L-Thyronine Binding to Human Serum Transthyretin
      Wojtczak, A.,Luft, J.,Cody, V.
      (1992) J.Biol.Chem. 267: 353
    • Structure of New Polymorphic Monoclinic Form of Hum Transthyretin at 3A Resolution Reveals a Mixed Comp between Unliganded and T4-Bound Tetramers of Ttr
      Wojtczak, A.,Neumann, P.,Cody, V.
      (2001) Acta Crystallogr.,Sect.D 57: 957
    • Structural Aspects of Inotropic Bipyridine Binding. Crystal Structure Determination to 1.9 A of the Human Serum Transthyretin-Milrinone Complex
      Wojtczak, A.,Luft, J.R.,Cody, V.
      (1993) J.Biol.Chem. 268: 6202
    • Structures of Human Transthyretin Complexed with Thyroxine at 2.0 A Resolution and 3',5'-Dinitro-N-Acetyl-L-Thyronine at 2.2 A Resolution
      Wojtczak, A.,Cody, V.,Luft, J.R.,Pangborn, W.
      (1996) Acta Crystallogr.,Sect.D 52: 758


    Organizational Affiliation

    Institute of Chemistry, Nicolaus Copernicus University, ToruĊ„, Poland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TRANSTHYRETIN
A, B, C, D
127Rattus norvegicusGene Names: Ttr (Tt)
Find proteins for P02767 (Rattus norvegicus)
Go to UniProtKB:  P02767
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
T4A
Query on T4A

Download SDF File 
Download CCD File 
C, D
3,3',5,5'-TETRAIODOTHYROACETIC ACID
C14 H8 I4 O4
PPJYSSNKSXAVDB-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.207 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 81.510α = 90.00
b = 81.510β = 90.00
c = 160.238γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement
HAMLIN/UCSDdata collection
HAMLIN/UCSDdata reduction
UCSDdata reduction
HAMLINdata reduction
CNSphasing
UCSDdata scaling
HAMLINdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-11-27
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance