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Title: Structure of the Mg-Chelatase Cofactor GUN4 Reveals a Novel Hand-Shaped Fold for Porphyrin Binding

Journal Article · · PLoS Biology (Online)
 [1];  [1];  [2];  [1];  [1];  [1]
  1. Salk Institute for Biological Studies, La Jolla, CA (United States)
  2. The Institut de Biologie Structurale, Grenoble (France)

In plants, the accumulation of the chlorophyll precursor Mg-protoporphyrin IX (Mg-Proto) in the plastid regulates the expression of a number of nuclear genes with functions related to photosynthesis. Analysis of the plastid-to-nucleus signaling activity of Mg-Proto in Arabidopsis thaliana led to the discovery of GUN4, a novel porphyrin-binding protein that also dramatically enhances the activity of Mg-chelatase, the enzyme that synthesizes Mg-Proto. GUN4 may also play a role in both photoprotection and the cellular shuttling of tetrapyrroles. Here we report a 1.78-Å resolution crystal structure of Synechocystis GUN4, in which the porphyrin-binding domain adopts a unique three dimensional fold with a ‘‘cupped hand’’ shape. Biophysical and biochemical analyses revealed the specific site of interaction between GUN4 and Mg-Proto and the energetic determinants for the GUN4 • Mg-Proto interaction. Our data support a novel protective function for GUN4 in tetrapyrrole trafficking. The combined structural and energetic analyses presented herein form the physical-chemical basis for understanding GUN4 biological activity, including its role in the stimulation of Mg-chelatase activity, as well as in Mg-Proto retrograde signaling.

Research Organization:
Salk Institute for Biological Studies, La Jolla, CA (United States)
Sponsoring Organization:
USDOE; National Institutes of Health (NIH); National Cancer Institute (NCI); National Science Foundation (NSF)
Grant/Contract Number:
0236027; CA54418
OSTI ID:
1627139
Journal Information:
PLoS Biology (Online), Vol. 3, Issue 5; ISSN 1545-7885
Publisher:
Public Library of ScienceCopyright Statement
Country of Publication:
United States
Language:
English

References (74)

The importance of porphyrin distortions for the ferrochelatase reaction journal February 2003
Regulation of light-harvesting chlorophyll-binding protein mRNA accumulation in Chlamydomonas reinhardi. Possible involvement of chlorophyll synthesis precursors. journal November 1984
Breakdown of thylakoid pigments by soluble proteins of developing chloroplasts journal March 1993
Development and validation of a genetic algorithm for flexible docking 1 1Edited by F. E. Cohen journal April 1997
Covariations in the nuclear chloroplast transcriptome reveal a regulatory master-switch journal May 2003
GUN4, a Regulator of Chlorophyll Synthesis and Intracellular Signaling journal February 2003
Dissection of Malonyl-Coenzyme A Decarboxylation from Polyketide Formation in the Reaction Mechanism of a Plant Polyketide Synthase journal February 2000
TspO as a Modulator of the Repressor/Antirepressor (PpsR/AppA) Regulatory System in Rhodobacter sphaeroides 2.4.1 journal November 2001
A Novel Mechanism for the Regulation of Photosynthesis Gene Expression by the TspO Outer Membrane Protein of Rhodobacter sphaeroides 2.4.1 journal July 1999
Crystallography & NMR System: A New Software Suite for Macromolecular Structure Determination journal September 1998
Pathways of intracellular communication: Tetrapyrroles and plastid-to-nucleus signaling journal June 2003
Travelling of proteins through membranes: translocation into chloroplasts journal September 2000
Amitrole treatment of etiolated barley seedlings leads to deregulation of tetrapyrrole synthesis and to reduced expression of Lhc and RbcS genes journal May 2001
Structural and mechanistic basis of porphyrin metallation by ferrochelatase journal March 2000
PROCHECK: a program to check the stereochemical quality of protein structures journal April 1993
Heme mediates derepression of Maf recognition element through direct binding to transcription repressor Bach1 journal June 2001
Improved methods for building protein models in electron density maps and the location of errors in these models journal March 1991
Interactions between porphyrins and mitochondrial benzodiazepine receptors journal March 1988
Solubilization and reconstitution of the mitochondrial benzodiazepine receptor journal April 1986
Determinants of catalytic activity with the use of purified I, D and H subunits of the magnesium protoporphyrin IX chelatase from Synechocystis PCC68031 journal September 1998
Touring protein fold space with Dali/FSSP journal January 1998
MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures journal October 1991
Biosynthesis of chlorophylls from protoporphyrin IX journal January 2003
UCSF Chimera?A visualization system for exploratory research and analysis journal January 2004
Signal transduction mutants of arabidopsis uncouple nuclear CAB and RBCS gene expression from chloroplast development journal September 1993
Chloroplast to nucleus communication triggered by accumulation of Mg-protoporphyrinIX journal January 2003
The gun4 gene is essential for cyanobacterial porphyrin metabolism journal July 2004
Chloroplast signalling in the light induction of nuclear HSP70 genes requires the accumulation of chlorophyll precursors and their accessibility to cytoplasm/nucleus journal November 2000
Mitochondrial Signaling journal April 2004
Measurement of ferrochelatase activity using a novel assay suggests that plastids are the major site of haem biosynthesis in both photosynthetic and non-photosynthetic cells of pea (Pisum sativum L.) journal February 2002
Maximum-likelihood density modification journal August 2000
Measurement of Heme Efflux and Heme Content in Isolated Developing Chloroplasts journal November 1990
The greening process in cress seedlings. V. Possible interference of chlorophyll precursors, accumulated after thujaplicin treatment, with light-regulated expression of Lhc genes journal December 1996
TPR proteins: the versatile helix journal December 2003
Molecular mechanism of heme signaling in yeast: the transcriptional activator Hap1 serves as the key mediator journal November 1999
The peripheral-type benzodiazepine receptor is functionally linked to Leydig cell steroidogenesis. journal March 1990
Chlorophyll precursors are signals of chloroplast origin involved in light induction of nuclear heat-shock genes journal December 1997
Pathways of plastid-to-nucleus signaling journal October 2001
Inactivation of Mg Chelatase during Transition from Anaerobic to Aerobic Growth in Rhodobacter capsulatus journal June 2003
TspO of Rhodobacter sphaeroides: A STRUCTURAL AND FUNCTIONAL MODEL FOR THE MAMMALIAN PERIPHERAL BENZODIAZEPINE RECEPTOR journal February 2000
Phosphoserine/threonine-binding domains journal April 2001
Contact-shifted resonances in the 1H NMR spectra of cytochrome b5 Resonance identification and spin density distribution in the heme group journal April 1976
Sequence Analysis of the Genome of the Unicellular Cyanobacterium Synechocystis sp. Strain PCC6803. II. Sequence Determination of the Entire Genome and Assignment of Potential Protein-coding Regions journal January 1996
Protoporphyrin IX binding and transport by recombinant mouse PBR journal November 2003
[20] Processing of X-ray diffraction data collected in oscillation mode book January 1997
Automated MAD and MIR structure solution journal April 1999
Characterization of the Binding of Deuteroporphyrin IX to the Magnesium Chelatase H Subunit and Spectroscopic Properties of the Complex journal July 2001
Protein folding and association: Insights from the interfacial and thermodynamic properties of hydrocarbons journal December 1991
Pathways of intracellular communication: Tetrapyrroles and plastid-to-nucleus signaling journal June 2003
UCSF Chimera?A visualization system for exploratory research and analysis journal January 2004
Protein folding and association: Insights from the interfacial and thermodynamic properties of hydrocarbons journal December 1991
Molecular mechanism of heme signaling in yeast: the transcriptional activator Hap1 serves as the key mediator journal November 1999
Travelling of proteins through membranes: translocation into chloroplasts journal September 2000
The importance of porphyrin distortions for the ferrochelatase reaction journal February 2003
Signal transduction mutants of arabidopsis uncouple nuclear CAB and RBCS gene expression from chloroplast development journal September 1993
Interactions between porphyrins and mitochondrial benzodiazepine receptors journal March 1988
Protoporphyrin IX binding and transport by recombinant mouse PBR journal November 2003
Regulation of protein synthesis by heme-regulated eIF-2α kinase journal March 1995
Interaction between the Bacterial Iron Response Regulator and Ferrochelatase Mediates Genetic Control of Heme Biosynthesis journal January 2002
Dissection of Malonyl-Coenzyme A Decarboxylation from Polyketide Formation in the Reaction Mechanism of a Plant Polyketide Synthase journal February 2000
Covariations in the nuclear chloroplast transcriptome reveal a regulatory master-switch journal May 2003
Biosynthesis of chlorophylls from protoporphyrin IX journal January 2003
Measurement of ferrochelatase activity using a novel assay suggests that plastids are the major site of haem biosynthesis in both photosynthetic and non-photosynthetic cells of pea (Pisum sativum L.) journal March 2002
Breakdown of thylakoid pigments by soluble proteins of developing chloroplasts journal March 1993
Determinants of catalytic activity with the use of purified I, D and H subunits of the magnesium protoporphyrin IX chelatase from Synechocystis PCC68031 journal September 1998
Chloroplast signalling in the light induction of nuclear HSP70 genes requires the accumulation of chlorophyll precursors and their accessibility to cytoplasm/nucleus journal November 2000
Chlorophyll precursors are signals of chloroplast origin involved in light induction of nuclear heat-shock genes journal December 1997
Arabidopsis genomes uncoupled 5 (GUN5) mutant reveals the involvement of Mg-chelatase H subunit in plastid-to-nucleus signal transduction journal February 2001
A Soluble Form of the First Extracellular Domain of Mouse Type 2β Corticotropin-releasing Factor Receptor Reveals Differential Ligand Specificity journal May 2003
Signaling the Unfolded Protein Response from the Endoplasmic Reticulum journal June 2004
Sequence Analysis of the Genome of the Unicellular Cyanobacterium Synechocystis sp. Strain PCC6803. II. Sequence Determination of the Entire Genome and Assignment of Potential Protein-coding Regions journal January 1996
Heme mediates derepression of Maf recognition element through direct binding to transcription repressor Bach1 journal June 2001
Touring protein fold space with Dali/FSSP journal January 1998
GUN4, a Regulator of Chlorophyll Synthesis and Intracellular Signaling journal February 2003

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Regulation and evolution of chlorophyll metabolism journal January 2008
Arabidopsis miR171-Targeted Scarecrow-Like Proteins Bind to GT cis-Elements and Mediate Gibberellin-Regulated Chlorophyll Biosynthesis under Light Conditions journal August 2014
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Porphyrins Promote the Association of GENOMES UNCOUPLED 4 and a Mg-chelatase Subunit with Chloroplast Membranes journal September 2009
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Comparative analysis of the Spirulina platensis subcellular proteome in response to low- and high-temperature stresses: uncovering cross-talk of signaling components journal July 2011
Identification and molecular characterization of the second Chlamydomonas gun4 mutant, gun4-II journal January 2013
Tetrapyrrole Signaling in Plants journal October 2016
A Suppressor Mutation Partially Reverts the xantha Trait via Lowered Methylation in the Promoter of Genomes Uncoupled 4 in Rice journal August 2019