4GW9

Structure of a bacteriophytochrome and light-stimulated protomer swapping with a gene repressor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.200 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structure of a bacteriophytochrome and light-stimulated protomer swapping with a gene repressor.

Bellini, D.Papiz, M.Z.

(2012) Structure 20: 1436-1446

  • DOI: 10.1016/j.str.2012.06.002
  • Primary Citation of Related Structures:  
  • Also Cited By: 5OY5

  • PubMed Abstract: 
  • Phytochromes are photoreceptors in phototropic organisms that respond to light conditions by changing interactions between a response regulator and DNA. Bacterial phytochromes (BphPs) comprise an input photosensory core domain (PCD) and an output tra ...

    Phytochromes are photoreceptors in phototropic organisms that respond to light conditions by changing interactions between a response regulator and DNA. Bacterial phytochromes (BphPs) comprise an input photosensory core domain (PCD) and an output transducing domain (OTD). We report the structure of a BphP containing both PCD and the majority of its OTD, and demonstrate interaction with its cognate repressor. The OTD of RpBphP1, from Rhodopseudomonas palustris, is composed of a PAS/PAC domain and, to our knowledge, a hitherto unrecognized two-helix output sensor (HOS) domain. Unlike canonical BphPs, it does not transmit phosphorelay signals but forms a complex with the transcriptional repressor RpPpsR2 on photoconversion with far-red light. We show that HOS is essential for complex formation and that the anti-parallel dimer geometry is crucial in achieving HOS domain activation and protomer swapping under the control of light. These results provide insights into the steps taken by a two-component signaling system.


    Organizational Affiliation

    Institute of Integrative Biology, Biosciences Building, University of Liverpool, Crown Street, Liverpool L69 7ZB, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
bacteriophytochrome
A, B, C, D
655Rhodopseudomonas palustris (strain TIE-1)Mutation(s): 0 
Find proteins for B3Q7C0 (Rhodopseudomonas palustris (strain TIE-1))
Go to UniProtKB:  B3Q7C0
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BLA
Query on BLA

Download SDF File 
Download CCD File 
A, B, C, D
BILIVERDINE IX ALPHA
C33 H34 N4 O6
GWZYPXHJIZCRAJ-SRVCBVSDSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.200 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 102.940α = 90.00
b = 146.870β = 101.17
c = 139.550γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
SHARPphasing
GDAdata collection
SCALAdata scaling
XDSdata reduction
xia2data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2012-09-01 
  • Released Date: 2012-09-26 
  • Deposition Author(s): Bellini, D., Papiz, M.Z.
  • This entry supersedes: 4EHO

Revision History 

  • Version 1.0: 2012-09-26
    Type: Initial release