GLUC Cleavage

Locate Glu-C acidic-residue cleavage sites with a caller Asp option.

Description

Glu-C site enumeration locates internal boundaries after glutamate, with an optional aspartate rule.

Glu-C site enumeration locates internal boundaries after glutamate, with an optional aspartate rule. The option makes the assumed specificity explicit.^[1]

Locate Glu-C acidic-residue cleavage sites with a caller Asp option.

When to use GLUC Cleavage

Use this tool to locate Glu-C acidic-residue cleavage sites with a caller Asp option.

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 GLUC Cleavage 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, cleaveAsp using the field table and calculation rules, then run the tool.
Read cleavagePositions, cleavageCount. 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
cleaveAsp	Cleave asp	boolean	Required

Enter a canonical sequence and boolean Asp option. Return ascending exclusive slice boundaries and count. Proline blocking is not applied.

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.

cut after internal E, and after internal D when cleaveAsp=true

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

Output field	Meaning	Value type
cleavagePositions	Cleavage positions	list of number
cleavageCount	Cleavage count	number

json

{
  "input": {
    "sequence": "AEDAEA",
    "cleaveAsp": true
  },
  "output": {
    "cleavagePositions": [
      2,
      3,
      5
    ],
    "cleavageCount": 3
  }
}

Limitations and assumptions

No digestion conditions, modifications, efficiency or missed cleavage is evaluated. Terminal residues do not create extra boundaries.

Numeric inputs must be finite. Follow the calculation-specific rules for overflow, underflow and exceptional cases. Extremely large text inputs are rejected. Missing required fields, extra fields, wrong value types and violations of the calculation rules are input errors.

Alternative or Complementary methods

Use LYSC Cleavage: Locate Lys-C cleavage sites after internal lysines. For a complementary task, use Protease Digest: Simulate sequence digestion from caller-specified cut and blocking residues.

References

GLUC Cleavage — tool.io

Similar or alternative tools

LYSC Cleavage
Locate Lys-C cleavage sites after internal lysines.
Protease Digest
Simulate sequence digestion from caller-specified cut and blocking residues.