Home LiteratureArticle Details
PMID: 15980259 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

D-GLYCERATE 3-KINASE, the last unknown enzyme in the photorespiratory cycle in Arabidopsis, belongs to a novel kinase family.

The Plant cell ·Vol. 17 ·No. 8 ·2005-08-00 ·Pages 2413-20

Boldt R, Edner C, Kolukisaoglu U, Hagemann M, Weckwerth W, Wienkoop S, Morgenthal K, Bauwe H

Abstract

D-GLYCERATE 3-KINASE (GLYK; EC 2.7.1.31) catalyzes the concluding reaction of the photorespiratory C2 cycle, an indispensable ancillary metabolic pathway to the photosynthetic C3 cycle that enables land plants to grow in an oxygen-containing atmosphere. Except for GLYK, all other enzymes that contribute to the C2 cycle are known by their primary structures, and the encoding genes have been identified. We have purified and partially sequenced this yet missing enzyme from Arabidopsis thaliana and identified it as a putative kinase-annotated single-copy gene At1g80380. The exclusive catalytic properties of the gene product were confirmed after heterologous expression in Escherichia coli. Arabidopsis T-DNA insertional knockout mutants show no GLYK activity and are not viable in normal air; however, they grow under elevated CO2, providing direct evidence of the obligatory nature of the ultimate step of the C2 cycle. The newly identified GLYK is both structurally and phylogenetically distinct from known glycerate kinases from bacteria and animals. Orthologous enzymes are present in other plants, fungi, and some cyanobacteria. The metabolic context of GLYK activity in fungi and cyanobacteria remains to be investigated.

MeSH Terms
Amino Acid Sequence Arabidopsis Proteins/chemistry,genetics,metabolism Base Sequence Cyanobacteria/enzymology DNA Primers Fungi/enzymology Kinetics Molecular Sequence Data Phosphotransferases (Alcohol Group Acceptor)/chemistry,genetics,metabolism Photosynthesis/physiology Plant Leaves/enzymology
Chemicals
Arabidopsis Proteins DNA Primers Phosphotransferases (Alcohol Group Acceptor) glycerate kinase
Authors & Affiliations
8 authors, click to expand affiliations / ORCID
Boldt Ralf
University of Rostock, Bioscience Institute, Plant Physiology Department, D-18051 Rostock, Germany.
Edner Christoph
Kolukisaoglu Uner
Hagemann Martin
Weckwerth Wolfram
Wienkoop Stefanie
Morgenthal Katja
Bauwe Hermann
References (32)
32 references, click to expand
  1. An early Arabidopsis demonstration. Resolving a few issues concerning photorespiration.
    Plant Physiol. 2001 Jan;125(1):20-4 PMID: 11154287
  2. Formation of serine and glyceric acid by the glycolate pathway.
    Arch Biochem Biophys. 1962 Jul;98:154-63 PMID: 14489659
  3. ChloroP, a neural network-based method for predicting chloroplast transit peptides and their cleavage sites.
    Protein Sci. 1999 May;8(5):978-84 PMID: 10338008
  4. Genome-wide insertional mutagenesis of Arabidopsis thaliana.
    Science. 2003 Aug 1;301(5633):653-7 PMID: 12893945
  5. Photorespiration during C 4 photosynthesis.
    Biochim Biophys Acta. 1971 May 11;234(2):270-82 PMID: 4327796
  6. TREECON for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment.
    Comput Appl Biosci. 1994 Sep;10(5):569-70 PMID: 7828077
  7. Genetic analysis of a chromosomal region containing genes required for assimilation of allantoin nitrogen and linked glyoxylate metabolism in Escherichia coli.
    J Bacteriol. 1999 Dec;181(24):7479-84 PMID: 10601204
  8. Predicting subcellular localization of proteins based on their N-terminal amino acid sequence.
    J Mol Biol. 2000 Jul 21;300(4):1005-16 PMID: 10891285
  9. Ribulose diphosphate carboxylase regulates soybean photorespiration.
    Nat New Biol. 1971 Mar 31;230(13):159-60 PMID: 5279476
  10. D-glycerate kinase deficiency as a cause of D-glyceric aciduria.
    FEBS Lett. 1989 Jan 30;243(2):127-31 PMID: 2537226
  11. Enzymatic formation of glyceryl and phosphoglyceryl methylthiol esters.
    J Biol Chem. 1956 Jul;221(1):171-80 PMID: 13345808
  12. Finding flexible patterns in unaligned protein sequences.
    Protein Sci. 1995 Aug;4(8):1587-95 PMID: 8520485
  13. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools.
    Nucleic Acids Res. 1997 Dec 15;25(24):4876-82 PMID: 9396791
  14. The glycine decarboxylase complex is not essential for the cyanobacterium Synechocystis sp. strain PCC 6803.
    Plant Biol (Stuttg). 2005 Jan;7(1):15-22 PMID: 15666206
  15. The genome sequence and structure of rice chromosome 1.
    Nature. 2002 Nov 21;420(6913):312-6 PMID: 12447438
  16. Cell-specific protein profiling in Arabidopsis thaliana trichomes: identification of trichome-located proteins involved in sulfur metabolism and detoxification.
    Phytochemistry. 2004 Jun;65(11):1641-9 PMID: 15276459
  17. Differential metabolic networks unravel the effects of silent plant phenotypes.
    Proc Natl Acad Sci U S A. 2004 May 18;101(20):7809-14 PMID: 15136733
  18. The value of mutants unable to carry out photorespiration.
    Photosynth Res. 1988 Apr;16(1-2):155-76 PMID: 24430997
  19. Process for the integrated extraction, identification and quantification of metabolites, proteins and RNA to reveal their co-regulation in biochemical networks.
    Proteomics. 2004 Jan;4(1):78-83 PMID: 14730673
  20. DTASelect and Contrast: tools for assembling and comparing protein identifications from shotgun proteomics.
    J Proteome Res. 2002 Jan-Feb;1(1):21-6 PMID: 12643522
  21. Evolution of enzymatic activities in the enolase superfamily: characterization of the (D)-glucarate/galactarate catabolic pathway in Escherichia coli.
    Biochemistry. 1998 Oct 13;37(41):14369-75 PMID: 9772162
  22. Glycerate kinase from leaves of C3 plants.
    Arch Biochem Biophys. 1983 Jul 1;224(1):332-41 PMID: 6307152
  23. Studies on the purification and properties of D-glyceric acid kinase of liver.
    J Biol Chem. 1957 Apr;225(2):949-58 PMID: 13416296
  24. The substrate specificity, kinetics, and mechanism of glycerate-3-kinase from spinach leaves.
    Arch Biochem Biophys. 1985 Jan;236(1):185-94 PMID: 2981505
  25. Phosphoglycolate production catalyzed by ribulose diphosphate carboxylase.
    Biochem Biophys Res Commun. 1971 Nov 5;45(3):716-22 PMID: 4331471
  26. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana.
    Nature. 2000 Dec 14;408(6814):796-815 PMID: 11130711
  27. Two forms of D-glycerate kinase in Escherichia coli.
    J Bacteriol. 1969 Mar;97(3):1227-33 PMID: 4887503
  28. Linking protein fractionation with multidimensional monolithic reversed-phase peptide chromatography/mass spectrometry enhances protein identification from complex mixtures even in the presence of abundant proteins.
    Rapid Commun Mass Spectrom. 2004;18(6):643-50 PMID: 15052571
  29. Purification and properties of D-glycerate 3-kinase from Escherichia coli.
    J Biol Chem. 1966 Feb 10;241(3):568-72 PMID: 5325263
  30. The unique features of glycolytic pathways in Archaea.
    Biochem J. 2003 Oct 15;375(Pt 2):231-46 PMID: 12921536
  31. Crystal structure of the YGR205w protein from Saccharomyces cerevisiae: close structural resemblance to E. coli pantothenate kinase.
    Proteins. 2004 Mar 1;54(4):776-83 PMID: 14997573
  32. Fixation of O(2) during Photorespiration: Kinetic and Steady-State Studies of the Photorespiratory Carbon Oxidation Cycle with Intact Leaves and Isolated Chloroplasts of C(3) Plants.
    Plant Physiol. 1978 Dec;62(6):954-67 PMID: 16660647
Article Info
Journal
The Plant cell
Abbr.
Plant Cell
ISSN
1040-4651
Published
2005-08-00
Epub
2005-00-24
Pages
2413-20
Language
English
Region
England
NLM ID
9208688
PMCID
PMC1182498
Subset
IM
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: [email protected]