5A2O

Crystal structure of the nitrate transporter NRT1.1 from Arabidopsis thaliana in complex with nitrate.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.71 Å
  • R-Value Free: 0.328 
  • R-Value Work: 0.287 

wwPDB Validation 3D Report Full Report


This is version 2.0 of the entry. See complete history

Literature

Molecular Basis of Nitrate Uptake by the Plant Nitrate Transporter Nrt1.1.

Parker, J.L.Newstead, S.

(2014) Nature 507: 68

  • DOI: 10.1038/nature13116
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The NRT1/PTR family of proton-coupled transporters are responsible for nitrogen assimilation in eukaryotes and bacteria through the uptake of peptides. However, in most plant species members of this family have evolved to transport nitrate as well as ...

    The NRT1/PTR family of proton-coupled transporters are responsible for nitrogen assimilation in eukaryotes and bacteria through the uptake of peptides. However, in most plant species members of this family have evolved to transport nitrate as well as additional secondary metabolites and hormones. In response to falling nitrate levels, NRT1.1 is phosphorylated on an intracellular threonine that switches the transporter from a low-affinity to high-affinity state. Here we present both the apo and nitrate-bound crystal structures of Arabidopsis thaliana NRT1.1, which together with in vitro binding and transport data identify a key role for His 356 in nitrate binding. Our data support a model whereby phosphorylation increases structural flexibility and in turn the rate of transport. Comparison with peptide transporters further reveals how the NRT1/PTR family has evolved to recognize diverse nitrogenous ligands, while maintaining elements of a conserved coupling mechanism within this superfamily of nutrient transporters.


    Organizational Affiliation

    Department of Biochemistry, University of Oxford, Oxford OX1 3QU, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NITRATE TRANSPORTER 1.1
A, B
590Arabidopsis thalianaMutation(s): 0 
Gene Names: NPF6.3 (CHL1, NRT1, NRT1.1)
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
Major Facilitator Superfamily (MFS) Transporters
Protein: 
NRT1.1 nitrate transporter, apo form
Find proteins for Q05085 (Arabidopsis thaliana)
Go to UniProtKB:  Q05085
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NO3
Query on NO3

Download SDF File 
Download CCD File 
A, B
NITRATE ION
N O3
NHNBFGGVMKEFGY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.71 Å
  • R-Value Free: 0.328 
  • R-Value Work: 0.287 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 121.830α = 90.00
b = 123.590β = 90.00
c = 153.620γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
BUSTERrefinement
Aimlessdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-06-17
    Type: Initial release
  • Version 2.0: 2019-02-27
    Type: Atomic model, Data collection, Experimental preparation, Other