1TYP

SUBSTRATE INTERACTIONS BETWEEN TRYPANOTHIONE REDUCTASE AND N1-GLUTATHIONYLSPERMIDINE DISULPHIDE AT 0.28-NM RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Work: 0.148 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Substrate interactions between trypanothione reductase and N1-glutathionylspermidine disulphide at 0.28-nm resolution.

Bailey, S.Smith, K.Fairlamb, A.H.Hunter, W.N.

(1993) Eur.J.Biochem. 213: 67-75


  • PubMed Abstract: 
  • The enzyme trypanothione reductase has been identified as a prime target for the rational design of inhibitors which may have clinical use in the treatment of tropical diseases caused by the genera Trypanosoma and Leishmania. To aid the design or ide ...

    The enzyme trypanothione reductase has been identified as a prime target for the rational design of inhibitors which may have clinical use in the treatment of tropical diseases caused by the genera Trypanosoma and Leishmania. To aid the design or identification of new inhibitors of this enzyme we have elucidated the structural detail of a trypanothione reductase complexed with one of the naturally occurring substrates, N1-glutathionylspermidine disulphide, by single-crystal X-ray diffraction methods at 0.28-nm resolution. The model for the Crithidia fasciculata enzyme-substrate complex has an R-factor of 14.8% and root-mean-square deviations of 0.0015 nm and 3.3 degrees on bond lengths and angles respectively. Hydrogen bonding and van der Waals interactions between the enzyme and substrate are dominated by the amino acid side chains. The substrate binds in a rigid active site such that one glutathione moiety is in a V-shape, the other in an extended conformation. One spermidine moiety binds closely to a hydrophobic patch in the active site formed by a tryptophan and a methionine. Distances between the methionine S delta and the terminal N of this spermidine suggest that a hydrogen bond may supplement the hydrophobic interactions in this part of the active site.


    Related Citations: 
    • A Large Increase in Enzyme-Substrate Affinity by Protein Engineering
      Wilkinson, A.J.,Fersht, A.R.,Blow, D.M.,Carter, P.,Winter, G.
      (1984) Nature 307: 187
    • Initiating a Crystallographic Study of Trypanothione Reductase
      Hunter, W.N.,Smith, K.,Derewenda, Z.,Harrop, S.J.,Habash, J.,Islam, M.S.,Helliwell, J.R.,Fairlamb, A.H.
      (1990) J.Mol.Biol. 216: 235
    • Crystal Structures of Two Viral Peptides in Complex with Murine Mhc Class I H-2KB
      Fremont, D.H.,Matsumura, M.,Stura, E.A.,Peterson, P.A.,Wilson, I.A.
      (1992) Science 257: 919
    • Active Site of Trypanothione Reductase: A Target for Rational Drug Design
      Hunter, W.N.,Bailey, S.,Habash, J.,Harrop, S.J.,Helliwell, J.R.,Abogye-Kwarteng, T.,Smith, K.,Fairlamb, A.H.
      (1992) J.Mol.Biol. 227: 322


    Organizational Affiliation

    Department of Chemistry, University of Manchester, England.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TRYPANOTHIONE REDUCTASE
A, B
487Crithidia fasciculataMutation(s): 0 
Gene Names: TPR
EC: 1.8.1.12
Find proteins for P39040 (Crithidia fasciculata)
Go to Gene View: TPR
Go to UniProtKB:  P39040
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FAD
Query on FAD

Download SDF File 
Download CCD File 
A, B
FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
 Ligand Interaction
NAP
Query on NAP

Download SDF File 
Download CCD File 
A, B
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE
C21 H28 N7 O17 P3
XJLXINKUBYWONI-NNYOXOHSSA-N
 Ligand Interaction
GSH
Query on GSH

Download SDF File 
Download CCD File 
A, B
GLUTATHIONE
C10 H17 N3 O6 S
RWSXRVCMGQZWBV-WDSKDSINSA-N
 Ligand Interaction
SPD
Query on SPD

Download SDF File 
Download CCD File 
A, B
SPERMIDINE
N-(2-AMINO-PROPYL)-1,4-DIAMINOBUTANE; PA(34)
C7 H19 N3
ATHGHQPFGPMSJY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Work: 0.148 
  • Space Group: P 41
Unit Cell:
Length (Å)Angle (°)
a = 128.800α = 90.00
b = 128.800β = 90.00
c = 92.500γ = 90.00
Software Package:
Software NamePurpose
X-PLORphasing
X-PLORmodel building
X-PLORrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1994-01-31
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance