HUT = HIP + HAPTIC2 + HEPTAD

HIP: HAPTIC2/HEPTAD Input Preprocessor

Use HIP to prepare input sequence data for HAPTIC2 and HEPTAD.

Minimum excluded hydrophobic residue (ACFILMV) run length:
Minimum excluded order-promoting residue (CFHILMNVWY) run length:
Excluded amino-acid residue/s:
A (ALA) C (CYS) D (ASP) E (GLU) F (PHE)
G (GLY) H (HIS) I (ILE) K (LYS) L (LEU)
M (MET) N (ASN) P (PRO) Q (GLN) R (ARG)
S (SER) T (THR) V (VAL) W (TRP) Y (TYR)
Excluded amino-acid residue/s in sequence motifs:
Glycosylated N in NXS or NXT where X is any residue except P
Input peptidic sequence data (FASTA format):

Notes:

  1. Minimum excluded hydrophobic residue (ACFILMV) run length is the size of the smallest hydrophobic blob whose residues are deemed inaccessible for binding by paratopes.
  2. Minimum excluded order-promoting residue (CFHILMNVWY) run length is the size of the shortest ordered sequence segment whose residues are deemed inaccessible for binding by paratopes.
  3. Excluded amino-acid residues may be those deemed problematic in view of chemical reactivity (e.g., susceptibility to oxidative damage, as in the case of methionine).
  4. Canonical N-glycosylation of asparagine is expected only for surface and secreted protein antigens of eukaryotes (versus prokaryotes).
  5. HIP output represents excluded residues using lower-case single-letter codes (e.g., 'a' versus 'A'), which are neglected by HAPTIC2 and HEPTAD for generation of candidate epitopes.