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PhosphoSitePlus, 2014: mutations, PTMs and recalibrations.

Hornbeck PV, Zhang B, Murray B, Kornhauser JM, Latham V, Skrzypek E - Nucleic Acids Res. (2014)

Bottom Line: Two new downloads are available from PSP.The 'Regulatory sites' dataset includes curated information about modification sites that regulate downstream cellular processes, molecular functions and protein-protein interactions.PTMVars include 18 548 phosphorlyation sites, 3412 ubiquitylation sites, 2316 acetylation sites, 685 methylation sites and 245 succinylation sites.

View Article: PubMed Central - PubMed

Affiliation: Cell Signaling Technology, 3 Trask Lane, Danvers, MA 01923, USA phornbeck@cellsignal.com.

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Related in: MedlinePlus

Comparison of the % of amino acid divergence (Y axis) of phosphorylation sites (pSer/pThr/pTyr) with varying numbers of associated hits (X axis). Ser, Thr or Tyr variants were excluded from counting. A total of 203,161 human/mouse and 148,441 mouse/rat phosphorylation sites were compared. The inset indicates the number of phosphosites included in each comparison. Blue, fraction of amino acid substitutions between human phosphosites and orthologous mouse residues; red, fraction of amino acid substitutions between mouse phosphosites and orthologous rat residues.
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Figure 3: Comparison of the % of amino acid divergence (Y axis) of phosphorylation sites (pSer/pThr/pTyr) with varying numbers of associated hits (X axis). Ser, Thr or Tyr variants were excluded from counting. A total of 203,161 human/mouse and 148,441 mouse/rat phosphorylation sites were compared. The inset indicates the number of phosphosites included in each comparison. Blue, fraction of amino acid substitutions between human phosphosites and orthologous mouse residues; red, fraction of amino acid substitutions between mouse phosphosites and orthologous rat residues.

Mentions: To test the possibility that 'low-hitters' are non-functional vis-a-vis critical signaling networks, we measured the amount of evolutionary divergence of phosphorylation sites (Ser, Thr and Tyr) between human and mouse, and between mouse and rat, reasoning that sites that play no functional role within cell signaling networks will diverge more quickly than sites that are functional nodes within cellular communication systems. Phosphosites were sorted into 5 bins according to the number of ‘hits’ (i.e., the number of records in which they were reported) from 1 to >100 (Figure 3). A total of 203 161 human-mouse and 148 441 mouse-rat pairs were tested. In both sets of pairs, the divergence is highest for sites with only 1 hit (20.6% and 8.8% for the human/mouse and the mouse/rat pairs, respectively), and lowest for the sites with >100 hits (5.4% and 3.0% for the human/mouse and the mouse/rat pairs, respectively). These results demonstrate that the more frequently sites are observed, the more likely they are to be conserved.


PhosphoSitePlus, 2014: mutations, PTMs and recalibrations.

Hornbeck PV, Zhang B, Murray B, Kornhauser JM, Latham V, Skrzypek E - Nucleic Acids Res. (2014)

Comparison of the % of amino acid divergence (Y axis) of phosphorylation sites (pSer/pThr/pTyr) with varying numbers of associated hits (X axis). Ser, Thr or Tyr variants were excluded from counting. A total of 203,161 human/mouse and 148,441 mouse/rat phosphorylation sites were compared. The inset indicates the number of phosphosites included in each comparison. Blue, fraction of amino acid substitutions between human phosphosites and orthologous mouse residues; red, fraction of amino acid substitutions between mouse phosphosites and orthologous rat residues.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4383998&req=5

Figure 3: Comparison of the % of amino acid divergence (Y axis) of phosphorylation sites (pSer/pThr/pTyr) with varying numbers of associated hits (X axis). Ser, Thr or Tyr variants were excluded from counting. A total of 203,161 human/mouse and 148,441 mouse/rat phosphorylation sites were compared. The inset indicates the number of phosphosites included in each comparison. Blue, fraction of amino acid substitutions between human phosphosites and orthologous mouse residues; red, fraction of amino acid substitutions between mouse phosphosites and orthologous rat residues.
Mentions: To test the possibility that 'low-hitters' are non-functional vis-a-vis critical signaling networks, we measured the amount of evolutionary divergence of phosphorylation sites (Ser, Thr and Tyr) between human and mouse, and between mouse and rat, reasoning that sites that play no functional role within cell signaling networks will diverge more quickly than sites that are functional nodes within cellular communication systems. Phosphosites were sorted into 5 bins according to the number of ‘hits’ (i.e., the number of records in which they were reported) from 1 to >100 (Figure 3). A total of 203 161 human-mouse and 148 441 mouse-rat pairs were tested. In both sets of pairs, the divergence is highest for sites with only 1 hit (20.6% and 8.8% for the human/mouse and the mouse/rat pairs, respectively), and lowest for the sites with >100 hits (5.4% and 3.0% for the human/mouse and the mouse/rat pairs, respectively). These results demonstrate that the more frequently sites are observed, the more likely they are to be conserved.

Bottom Line: Two new downloads are available from PSP.The 'Regulatory sites' dataset includes curated information about modification sites that regulate downstream cellular processes, molecular functions and protein-protein interactions.PTMVars include 18 548 phosphorlyation sites, 3412 ubiquitylation sites, 2316 acetylation sites, 685 methylation sites and 245 succinylation sites.

View Article: PubMed Central - PubMed

Affiliation: Cell Signaling Technology, 3 Trask Lane, Danvers, MA 01923, USA phornbeck@cellsignal.com.

Show MeSH
Related in: MedlinePlus