Sequence Analysis and Three-dimensional Structure modeling of Pyruvate Orthophosphate Dikinase from Echinochloa crusgalli var frumentacea(Roxb.)W.F.Wight

Abstract

Abstract: 【OBJECTIVE】The PPDK gene had been cloned from many plants. The research on its protein structure has not been studied. This paper analyses Echinochloa crusgalli var frumentacea(Roxb.)W.F.Wight’s PPDK sequence by bioinformatics and model its three-dimension structure.【METHOD】Sequence analysis of Pyruvate orthophosphate dikinase from [Echinochloa crusgalli var frumentacea(Roxb.)W.F.Wight] was conducted by bioinformatics tools such as DNAstar，Vector NTI and SignalP etc.【RESULTS】The results show that Pyruvate orthophosphate dikinase from [Echinochloa crusgalli var frumentacea(Roxb.)W.F.Wight] in this study had higher similarity with higher plant’s PPDK, contained 17 transmemberane regions but no signal peptide and its secondary structure was composed of many alpha regions,turns regions and few beta regions.Based on the primary and secondary structure analysis of PPDK, Three-dimensional structure of PPDK was developed by homology modeling methods.【CONCLUSION】Pyruvate orthophosphate dikinase from [Echinochloa crusgalli var frumentacea(Roxb.)W.F.Wight] had higher similarity with higher plant’s PPDK, contained 17 transmemberane regions but no signal peptide.The three-dimension structure exhibit homotetramer.

CLC Number:

Chen Weiguo,Yang Jinwen,Wang Jiliang,Wang Jinming. Sequence Analysis and Three-dimensional Structure modeling of Pyruvate Orthophosphate Dikinase from Echinochloa crusgalli var frumentacea(Roxb.)W.F.Wight[J]. Chinese Agricultural Science Bulletin, 2007, 23(12): 73-73.

References

[1] Hatch MD, Slack CR.A new enzyme for the interconversion of pyruvate and phosphoenolpyruvate and its role in the C4 dicarboxylic acid pathway of photosynthesis. Biochem J,1968,106:141-146.
[2] Cooper RA, Kornberg HL. The direct synthesis of phosphoenolpyruvate from pyruvate by Escherichia coli. Proc R Soc Lond B Biol Sci 1967,168:263-280.
[3] Pocalyko DJ, Carroll LJ, Martin BM,et al. Analysis of sequence homologies in plant and bacterial pyruvate phosphate dikinase,enzyme I of the bacterial phosphoenolpyruvate:sugar phosphotransferase system and other PEP-utilising enzymes.Identification of potential catalytic and regulatory motif.. Biochemistry 1990,29:10757-10765.
[4] Bruderer T, Wehrli C, Kohler P.Cloning and characterisation of the gene encoding pyruvate phosphate dikinase from Giardia duodenalis. Mol Biochem Parasitol.1996,77:225-233.
[5] Ap Rees T. Hill SA. Metabolic control analysis of plant metabolism. Plant Cell Environ, 1994, 17:587-599.
[6] Trevanion SJ, Furbank RT, Ashton AR. NADP-malate dehydrogenase in the C4 plant Flaveria bidentis. Cosense suppression of activity in mesophyll and bundle-sheath cells and consequences for photosynthesis. Plant Physiol., 1997, 113:1153-1165.
[7] Sheen J. Molecular mechanisms underlying the differential expression_ of maize pyruvate,orthosphate dikinase genes. Plant Cell, 1991,3(3):225-245.
[8] Mastsuoka M, Ozeki Y, Yamamoto N, et al. Primary structure of maize pyruvate orthophosphate dikinase as deduced from cDNA sequence. J Biol Chem. 1988.263:11080-11083.
[9] Rosche E, Westhoff P. Genomic structure and expression of the pyruvate, orthophosphate dikinase gene of the dicotyledonous C4 plant Flaveria trinervia(Asteraceae). Plant Mol Biol 1995,29:663-678.
[10] Glackin CA, Grula JW. Organ specific transcripts of different size and abundance derive from the same pyruvate orthophosphate dikinase gene in maize. Proc Natl Acad Sci USA. 1990,87:3004-3008.