Hypothetical protein References

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REFERENCES

Evolution:

  • Thompson, J.D., Higgins, D.G. and Gibson, T.J. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignments through sequence weighting, position specific gap penalties and weight matrix choice. Nucl. Acids Res. 22: 4673-4680.
  • Tamura, K., Dudley, J., Nei, M. and Kumar, S. (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24:1596-1599.
  • Strimmer, K. and von Haeseler, A. (1996) Quartet puzzling: A quartet maximum likelihood method for reconstructing tree topologies. Mol. Biol. Evol. 13: 964-969


Function

  • Turner, M., Woodberry, T., Hafner L.M., & Giffard, P.M., (1999), The bspA Locus of Lactobacillus fermentum BR11 Encodes an L-Cystine Uptake System, Journal of Bacteriology, 181(7): 2192-2198.
  • Ryu, K.S., Kim, C., Kim, I., Yoo, S., Choi, B.S. and Park, C. (2004) NMR Application Probes a Novel and Ubiquitous Family of Enzymes That Alter Monosaccharide Configuration. J. Biol. Chem., 279(17): 25544-25548.
  • Park, D., Ryu, K.S., Choi, D., Kwak, J. and Park, C. (2007) Characterization and role of fucose mutarotase in mammalian cells. Glycobiology. 17(9):955-962
  • Igarashi Y, Aoki KF, Mamitsuka H, Kuma K, and Kanehisa M, 2004. ‘The Evolutionary Repertoires of the Eukaryotic-Type ABC Transporters in Terms of the Phylogeny of ATP-binding Domains in Eukaryotes and Prokaryotes’, Molecular Biology and Evolution, vol. 21 no. 11, pp. 2149-2160.
  • Jensen et al. (2009) "STRING 8--a global view on proteins and their functional interactions in 630 organisms." Nucleic Acids Res. 37(Database issue):D412-6. Epub 2008 Oct 21.
  • Laskowski R A, Watson J D, Thornton J M (2005). ProFunc: a server for predicting protein function from 3D structure. Nucleic Acids Res., 33, W89-W93.

Structure

  • Dundas J., Ouyang Z., Tseng T., Binkowski A., Turpaz Y., & Liang J. (2006). CASTp: computed atas of surface topography of proteins with structural and topographical mapping of functionally annotated residues. Nucl. Acids Res., 34:W116-W118.
  • Holm L., & Sander C. (1993). Protein Structure Comparison by Alignment of Distance Matrices (Dali ver. 2.0). J.Mol.Biol , 233 (1), 123-138.
  • Humphrey, W., Dalke, A., & Schulten, K. (1996). VMD - Visual Molecular Dynamics. J. Molec. Graphics , 14 (1), 33-38.
  • Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). SCOP: a structural classification of proteins database for the investigation of sequences and structures. J. Mol. Biol. 247, 536-540
  • RCSB. (2009). RCSB PDB : Structure Explorer - 1ogd. Retrieved 06 05, 2009, from RCSB Protein Data Bank:
  • Kim M., Shin J., Lee W., Lee H. & Oh B. (2003) “Crystal Structures of RbsD Leading to the Identification of Cytoplasmic Sugar-binding Proteins with a Novel Folding Architecture” J. Biol. Chem. 278(30) pp. 28173–28180.
  • Roberts, E., Eargle, J., Wright, D., & Luthey-Schulten, Z. (2006). MultiSeq: Unifying sequence and structure data for evolutionary analysis. BMC Bioinformatics , 7 (382), 1-11.
  • Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332.
  • Wallace A C, Laskowski R A & Thornton J M (1995). LIGPLOT: A program to generate schematic diagrams of protein-ligand interactions. Prot. Eng., 8, 127-134.


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