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PTM Prediction

Introduction​

Post-translational modification (PTM) refers to a series of modifications after the completion of protein translation, including phosphorylation, glycosylation, ubiquitination, nitrosylation, methylation, acetylation, lipidization and proteolysis. These modifications play an important role in the stability, subcellular localization, activity regulation and signal transduction of proteins.

The PTM Prediction module of the Hermite ® platform provides the capability to predict protein post-translational modifications based on protein sequence. With the friendly operation interface, optimized algorithm and flexible cloud computing resources of Hermite platform, you can easily and quickly obtain the prediction information of protein post-translational modification.

The files required for this tutorial are as follows:

PTM.fasta

1. Entrance​

  • General menu bar on the left: Menu → Function → Biomacromolecule → PTM Prediction.

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  • The interface of 'PTM Prediction' (shown in the red box) appears on the right side, and the overall interface is as follows:

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2. Operation​

  • Import Sequence: Click 'Fasta File' and select the local file 'PTM.fasta'. After confirmation, the uploaded sequence information will be automatically displayed in the PTM Prediction window.

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  • Select PTM Properties: Select 'All';

  • Name the task as 'PTM' at 'Job Name';

  • Click 'Submit' to submit the task.

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3. Analysis of results​

3.1 Entrance​

  • In the left general menu bar, Job → find the task 'PTM' → click 'Show' in the Operation column to display the results of the task, as shown in the figure below.
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3.2 Results presentation​

  • The PTM Prediction Result interface shows the color labeling of different PTM types.

  • Check 'All' to display all PTM types and color them in the sequence.

  • Hover the mouse over the amino acid residue marked by the color dot to display the type and predictive value of the possible protein post-translational modification of the residue.

    For example, the seventh amino acid of Q96RR4 may be modified by O-linked glycosylation.

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  • Download: Click 'Download' on the right to download the PTM prediction result files of all input sequences, including the input sequence (.fasta format) and the PTM prediction result (.csv format).

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