PTS1 Terminal Signal

Check a peroxisomal PTS1 terminus against caller-accepted tripeptides.

Description

A PTS1 terminal screen compares the C-terminal sequence with an explicitly supplied motif list.

A PTS1 terminal screen compares the C-terminal sequence with an explicitly supplied motif list. Accepted motifs are caller criteria rather than an embedded signal catalog.^[1]

Check a peroxisomal PTS1 terminus against caller-accepted tripeptides.

When to use PTS1 Terminal Signal

Use this tool to check a peroxisomal PTS1 terminus against caller-accepted tripeptides.

Prepare the canonical sequence, peptide assignments, fitted assay parameters or upstream measurements requested. Keep corresponding entries aligned, use the stated mass and signal units, and remove FASTA headers before entering sequence text.

How to use PTS1 Terminal Signal and understand its results

Prepare the canonical sequence, peptide assignments, fitted assay parameters or upstream measurements requested. Keep corresponding entries aligned, use the stated mass and signal units, and remove FASTA headers before entering sequence text.
Enter sequence, allowedTerminalMotifs using the field table and calculation rules, then run the tool.
Read terminalTrimer, matched. The explanation below defines the units, signs, ordering and any flags or placeholder values.
If the tool reports an input issue, correct the values and run it again. Apply the stated assumptions when interpreting a successfully returned result.

Input field	Meaning	Value type; see rules below	Requirement
sequence	Sequence	string	Required
allowedTerminalMotifs	Allowed terminal motifs	list of string	Required

Enter a canonical sequence and accepted terminal strings. Compare the final three residues, or the whole sequence if shorter, using exact case-sensitive list membership.

The shared sequence helper trims outer whitespace and uppercases the sequence. It requires at least one residue from ACDEFGHIKLMNPQRSTVWY. Internal whitespace, FASTA headers, ambiguous letters and modified-residue notation are rejected. Sequence indexes refer to the normalized sequence; individual tools may preserve original strings in their returned lists as explained above.

terminal=last three residues; matched=allowedTerminalMotifs includes terminal exactly

Units, indexing, boundary conditions and exceptional cases are defined in the calculation rules above.

Output field	Meaning	Value type
terminalTrimer	Terminal trimer	string
matched	Matched	boolean

json

{
  "input": {
    "sequence": "ASKL",
    "allowedTerminalMotifs": [
      "SKL",
      "AKL"
    ]
  },
  "output": {
    "terminalTrimer": "SKL",
    "matched": true
  }
}

Limitations and assumptions

Allowed motifs are not normalized or checked for tripeptide length. No import machinery, sequence accessibility or localization evidence is assessed.

Numeric inputs must be finite. Follow the calculation-specific rules for overflow, underflow and exceptional cases. Lists are limited to 100,000 entries; the rules above may require smaller limits. Extremely large text inputs are rejected. Missing required fields, extra fields, wrong value types and violations of the calculation rules are input errors. A successfully returned false flag is an evaluated outcome; its meaning is explained above.

Alternative or Complementary methods

Use KDEL Retention Signal: Detect a C-terminal KDEL ER retention signal. For a complementary task, use PDZ Terminal Motif: Classify the terminal tripeptide of a candidate PDZ-binding ligand.

References

PTS1 Terminal Signal — tool.io

Similar or alternative tools

KDEL Retention Signal
Detect a C-terminal KDEL ER retention signal.
PDZ Terminal Motif
Classify the terminal tripeptide of a candidate PDZ-binding ligand.