Protein INDEX

The Protein Society http //www.faseb.org/protein/index.html (An extensive list of Web resources for protein scientists.)... 

Anderson NG, Anderson L. The human protein index. Clin Chem 28 739-748, 1982. Blake CCF, Johnson LN. Protein structure. Trends Biochem Sci April 147-151, 1987. Branden C, Tooze J. Introduction to Protein Structure. New York Garland, 1991. 

Kersey, P. )., Duarte, )., Williams, A., Karavidopoulou, Y, Birney, E., Apweiler, R. (2004). The International Protein Index an integrated database for proteomics experiments. Proteomics 4, 1985-1988. 

Reactive nitrogen species (RNS) and reactive oxygen species (ROS) can react with proteins leading to oxidatively modified proteins indexed by protein carbonyls and... 

Currently, neither defined performance criteria nor external proficiency testing is available for 2-D laboratories. The absence of such criteria results in an overall lack of standardization that adversely affects Interlaboratory data comparison, which is essential to conduct a large multicenter project such as the Human Protein Index."... 

Figure 6.6. Genomic information-driven drug discovery. The Initial Gene Index and Initial Protein Index are mined in a variety of ways to identify ligand-binding sites. These in turn can act as templates for structure-based design [Refs in 567].

Anderson, N. G., A. Matheson, and N. L. Anderson. 2001, Back to the future the human protein index (HPI) and the agenda for post-proteomic biology. Proteomics 1 3-12. 

Based on International Protein Index (IPI) human sequence database via... 

The UniProt Archive (UniParc) provides a stable, comprehensive, nonredundant sequence collection by storing the complete body of publicly available protein sequence data. Although most protein sequence data are derived from the translation of DDBJ/EMBL/GenBank sequences, primary protein sequence data are also submitted directly to UniProt or derived from the PDB entries. The Archive also captures protein sequence data from other sources such as Ensemble, International Protein Index (IPI), NCBI-RefSeq, FlyBase, and WormBase. Each protein sequence is assigned to a unique UniParc identifier (UPI ) and represented only once in the Archive. In UniParc, the... 

IPI (International Protein Index) with comprehensive protein sets for certain higher metazoan species. 

The application of this method to the determination of the protein index is described on p. 540. 

In principle the protein index expresses a relationship between the Brdidka denaturation reaction in Co solution and the Brdiika filtrate reaction in Co " solution. The authors of this index, Muller and Davis, recommend the following procedure ... 

Figure 35. Example of protein index examination. Wave heights are measured from the appropriate heights of diffusion current of cobalt. (Cobalt waves not recorded.)...

International Protein Index database for the species studied (available online at http //www.ebi.ac. uk/IPI) and its sequence-reversed version with the Mascot (Matrix Science, Boston, MA) search algorithm. Equivalent search software (Proteome Discoverer [Thermo Fisher Scientific], Protein Prospector [http //prospector.ucsf.edu/prospector/ mshome.htm], Phenyx [GeneBio, Geneva, Switzerland], XlTandem [http //www.thegpm.org/tandem/], etc.) may also be used. 

Mascot (Matrix Science) search algorithm and the International Protein Index (available online at http //www.ebi.ac.uk/IPI), or similar database. The search against the normal database combined with the corresponding reversed or randomized database is an excellent vahdation method for MS/MS searches of large data sets. 

Ball V and Ramsden J J 1998 Buffer dependence of refractive Index Increments of protein solutions Biopolymers 46 489-92... 

The factor 1 - p/p2 cannot be too close to zero, nor can the refractive index of the polymer and the solvent be too similar. These additional considerations limit the choice of solvents for a synthetic polymer, while their values are optimal for aqueous protein solutions. 

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