1OJH

Crystal structure of NblA from PCC 7120


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.182 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal Structure of Nbla from Anabaena Sp. Pcc 7120, a Small Protein Playing a Key Role in Phycobilisome Degradation.

Bienert, R.Baier, K.Volkmer, R.Lockau, W.Heinemann, U.

(2006) J.Biol.Chem. 281: 5216

  • DOI: 10.1074/jbc.M507243200

  • PubMed Abstract: 
  • Cyanobacterial light-harvesting complexes, the phycobilisomes, are proteolytically degraded when the organisms are starved for combined nitrogen, a process referred to as chlorosis or bleaching. Gene nblA, present in all phycobilisome-containing orga ...

    Cyanobacterial light-harvesting complexes, the phycobilisomes, are proteolytically degraded when the organisms are starved for combined nitrogen, a process referred to as chlorosis or bleaching. Gene nblA, present in all phycobilisome-containing organisms, encodes a protein of about 7 kDa that plays a key role in phycobilisome degradation. The mode of action of NblA in this degradation process is poorly understood. Here we presented the 1.8-A crystal structure of NblA from Anabaena sp. PCC 7120. In the crystal, NblA is present as a four-helix bundle formed by dimers, the basic structural units. By using pull-down assays with immobilized NblA and peptide scanning, we showed that NblA specifically binds to the alpha-subunits of phycocyanin and phycoerythrocyanin, the main building blocks of the phycobilisome rod structure. By site-directed mutagenesis, we identified amino acid residues in NblA that are involved in phycobilisome binding. The results provided evidence that NblA is directly involved in phycobilisome degradation, and the results allowed us to present a model that gives insight into the interaction of this small protein with the phycobilisomes.


    Related Citations: 
    • Expression of Two Nbla-Homologous Genes is Required for Phycobilisome Degradation in Nitrogen-Starved Synechocystis Sp. Pcc6803
      Baier, K.,Nicklisch, S.,Grundner, C.,Reinecke, J.,Lockau, W.
      (2001) Fems Microbiol.Lett. 195: 35
    • A Small Polypeptide Triggers Complete Degradation of Light-Harvesting Phycobiliproteins in Nutrient-Deprived Cyanobacteria
      Collier, J.L.,Grossmann, A.R.
      (1994) Embo J. 13: 1039


    Organizational Affiliation

    Crystallography Group, Max-Delbrück Center for Molecular Medicine, D-13125 Berlin.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NBLA
A, B, C, D, E, F, G, H, I, J, K, L
65Nostoc sp. (strain PCC 7120 / UTEX 2576)Gene Names: nblA
Find proteins for Q8YNP7 (Nostoc sp. (strain PCC 7120 / UTEX 2576))
Go to UniProtKB:  Q8YNP7
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D, E, F, G, H, I, J, K, L
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.182 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 43.176α = 90.00
b = 95.918β = 97.05
c = 104.835γ = 90.00
Software Package:
Software NamePurpose
SOLVEphasing
XSCALEdata scaling
REFMACrefinement
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-07-15
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance
  • Version 1.2: 2011-08-03
    Type: Database references, Derived calculations, Non-polymer description, Other, Refinement description, Structure summary