6BHO

Green Light-Absorbing State of NpR6012g4, a Red/Green Cyanobacteriochrome


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Correlating structural and photochemical heterogeneity in cyanobacteriochrome NpR6012g4.

Lim, S.Yu, Q.Gottlieb, S.M.Chang, C.W.Rockwell, N.C.Martin, S.S.Madsen, D.Lagarias, J.C.Larsen, D.S.Ames, J.B.

(2018) Proc Natl Acad Sci U S A 115: 4387-4392

  • DOI: 10.1073/pnas.1720682115
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Phytochrome photoreceptors control plant growth, development, and the shade avoidance response that limits crop yield in high-density agricultural plantings. Cyanobacteriochromes (CBCRs) are distantly related photosensory proteins that control cyanob ...

    Phytochrome photoreceptors control plant growth, development, and the shade avoidance response that limits crop yield in high-density agricultural plantings. Cyanobacteriochromes (CBCRs) are distantly related photosensory proteins that control cyanobacterial metabolism and behavior in response to light. Photoreceptors in both families reversibly photoconvert between two photostates via photoisomerization of linear tetrapyrrole (bilin) chromophores. Spectroscopic and biochemical studies have demonstrated heterogeneity in both photostates, but the structural basis for such heterogeneity remains unclear. We report solution NMR structures for both photostates of the red/green CBCR NpR6012g4 from Nostoc punctiforme In addition to identifying structural changes accompanying photoconversion, these structures reveal structural heterogeneity for residues Trp655 and Asp657 in the red-absorbing NpR6012g4 dark state, yielding two distinct environments for the phycocyanobilin chromophore. We use site-directed mutagenesis and fluorescence and absorbance spectroscopy to assign an orange-absorbing population in the NpR6012g4 dark state to the minority configuration for Asp657. This population does not undergo full, productive photoconversion, as shown by time-resolved spectroscopy and absorption spectroscopy at cryogenic temperature. Our studies thus elucidate the spectral and photochemical consequences of structural heterogeneity in a member of the phytochrome superfamily, insights that should inform efforts to improve photochemical or fluorescence quantum yields in the phytochrome superfamily.


    Related Citations: 
    • 1H, 13C, and 15N chemical shift assignments of cyanobacteriochrome NpR6012g4 in the green-absorbing photoproduct state.
      Lim, S., Yu, Q., Rockwell, N.C., Martin, S.S., Lagarias, J.C., Ames, J.B.
      (2016) Biomol NMR Assign 10: 157

    Organizational Affiliation

    Department of Chemistry, University of California, Davis, CA 95616; jclagarias@ucdavis.edu dlarsen@ucdavis.edu jbames@ucdavis.edu.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Methyl-accepting chemotaxis sensory transducer with phytochrome sensor
A
180Nostoc punctiforme PCC 73102Mutation(s): 0 
Gene Names: Npun_R6012
Find proteins for B2IU14 (Nostoc punctiforme (strain ATCC 29133 / PCC 73102))
Go to UniProtKB:  B2IU14
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CYC
Query on CYC

Download CCD File 
A
PHYCOCYANOBILIN
C33 H40 N4 O6
VXTXPYZGDQPMHK-GMXXPEQVSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 
  • OLDERADO: 6BHO Olderado

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Department of Energy (DOE, United States)United StatesBES DE-FG02-09ER16117

Revision History 

  • Version 1.0: 2018-04-18
    Type: Initial release
  • Version 1.1: 2018-04-25
    Changes: Data collection, Database references
  • Version 1.2: 2018-05-09
    Changes: Data collection, Database references, Source and taxonomy
  • Version 1.3: 2019-12-04
    Changes: Author supporting evidence, Data collection