3ZFJ

N-terminal domain of pneumococcal PhtD protein with bound Zn(II)


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 1000 
  • Conformers Submitted: 20 
  • Selection Criteria: TOTAL ENERGY 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

New Insights Into Histidine Triad Proteins: Solution Structure of a Streptococcus Pneumoniae Phtd Domain and Zinc Transfer to Adcaii.

Bersch, B.Bougault, C.Roux, L.Favier, A.Vernet, T.Durmort, C.

(2013) Plos One 8: 81168

  • DOI: 10.1371/journal.pone.0081168

  • PubMed Abstract: 
  • Zinc (Zn(2+)) homeostasis is critical for pathogen host colonization and invasion. Polyhistidine triad (Pht) proteins, located at the surface of various streptococci, have been proposed to be involved in Zn(2+) homeostasis. The phtD gene, coding for ...

    Zinc (Zn(2+)) homeostasis is critical for pathogen host colonization and invasion. Polyhistidine triad (Pht) proteins, located at the surface of various streptococci, have been proposed to be involved in Zn(2+) homeostasis. The phtD gene, coding for a Zn(2+)-binding protein, is organized in an operon with adcAII coding for the extracellular part of a Zn(2+) transporter. In the present work, we investigate the relationship between PhtD and AdcAII using biochemical and structural biology approaches. Immuno-precipitation experiments on purified membranes of Streptococcus pneumoniae (S. pneumoniae) demonstrate that native PhtD and AdcAII interact in vivo confirming our previous in vitro observations. NMR was used to demonstrate Zn(2+) transfer from the Zn(2+)-bound form of a 137 amino acid N-terminal domain of PhtD (t-PhtD) to AdcAII. The high resolution NMR structure of t-PhtD shows that Zn(2+) is bound in a tetrahedral site by histidines 83, 86, and 88 as well as by glutamate 63. Comparison of the NMR parameters measured for apo- and Zn(2+)-t-PhtD shows that the loss of Zn(2+) leads to a diminished helical propensity at the C-terminus and increases the local dynamics and overall molecular volume. Structural comparison with the crystal structure of a 55-long fragment of PhtA suggests that Pht proteins are built from short repetitive units formed by three β-strands containing the conserved HxxHxH motif. Taken together, these results support a role for S. pneumoniae PhtD as a Zn(2+) scavenger for later release to the surface transporter AdcAII, leading to Zn(2+) uptake.


    Related Citations: 
    • Biochemical Characterization of the Histidine Triad Protein Phtd as a Cell Surface Zinc-Binding Protein of Pneumococcus.
      Loisel, E.,Chimalapati, S.,Bougault, C.,Imberty, A.,Gallet, B.,Di Guilmi, A.M.,Brown, J.,Vernet, T.,Durmort, C.
      (2011) Biochemistry 50: 3551


    Organizational Affiliation

    Institut de Biologie Structurale, Université Grenoble Alpes, Grenoble, France ; Institut de Biologie Structurale, Direction des Sciences du Vivant, Commissariat à l'Energie Atomique et aux Energies Alternatives, Grenoble, France ; Institut de Biologie Structurale, Centre National de la Recherche Scientifique, Grenoble, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PNEUMOCOCCAL HISTIDINE TRIAD PROTEIN D
A
138Streptococcus pneumoniae serotype 2 (strain D39 / NCTC 7466)Mutation(s): 0 
Gene Names: phtD
Find proteins for A0A0H2ZP82 (Streptococcus pneumoniae serotype 2 (strain D39 / NCTC 7466))
Go to UniProtKB:  A0A0H2ZP82
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 1000 
  • Conformers Submitted: 20 
  • Selection Criteria: TOTAL ENERGY 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-11-20
    Type: Initial release
  • Version 1.1: 2013-12-18
    Type: Database references