Query Features BMT

There are multiple query sequence formats in the Biomolecule Toolkit to filter both natural and unnatural sequences.
Natural analogue sequences are entered by 1-letter codes, unnatural sequences are entered by multi-letter codes using dot separators between the building blocks.

Example for natural sequence query: SEQUENCE
Example for unnatural sequence query: S.dE.Q.U.dE.N.C.dE

Note: the searches in Biomolecule Toolkit are case-insensitive (e.g. dS is equal to ds)

Available wildcards
‘N’ for nucleic acid sequences
‘X’ for amino acid sequences
‘*’ for 1, 2… n residues in nucleic acid or amino acid sequences

Note: oligonucleotide backbone modifications cannot be queried currently.

Table 1. Single residue wildcards (amino acid sequences)

Query sequence

Target sequence

HCAYKAMGNMAMCAQRTPY (wild type)

HCAYAAMGNMAMCAQRTPY (mutation)

HCAYKAMGNMAMCAQRTPYK (insertion)

HCAYKAMGNMAMCAQRTPY (deletion)

HCAYXAMGNMAMCAQRTPY

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/no.png

images/download/attachments/13109958/no.png

Table 2. Multi-residue wildcards (amino acid sequences)

Query sequence

Target sequence

HCAYKAMGNMAMCAQRTPY (wild type)

HCA K KAMGNMAMCAQRTPY (mutation)

HCAYKAMGN K MAMCAQRTPY (insertion)

HCAYKAMGNM A MCAQRTPY (deletion)

HCAYK AYK AMGNMAMCAQRTPY (duplication)

HCAY*QRTPY

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/no.png

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/yes.png

HCAY*MGNM*QRTPY

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/no.png

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/yes.png

HCAY*MA*QRTPY

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/no.png

images/download/attachments/13109958/yes.png

HCAXKAM*QRTPY

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/yes.png

images/download/attachments/13109958/no.png