Antibodies

Sequence data

Access the software

• KabatMan simple queries (Information)
• KabatMan full queries (Information)
• SeqTest Test your sequence (Information)
• Chothia Canonicals (Information)
• Human subgroups (Information)
• Assess humanness (Information)
• Numbering (Information)

Information

KabatMan

Query the KabatMan database using a point and click interface or using the KabatMan query language. KabatMan is a computer-searchable version of the Kabat antibody sequence data from the Sequences of Immunological Interest book. The KabatMan program is described in the paper: Martin (1996) Accessing the Kabat Antibody Sequence Database by Computer PROTEINS: Structure, Function and Genetics, 25, 130-133.

SeqTest

SeqTest allows you to test your antibody sequence against the Kabat database to identify any unusual features which may result from cloning artifacts or sequencing errors. The sequence you supply is aligned with a consensus sequence in order to apply the standard Kabat numbering and each residue is checked against KabatMan. Unusual residues are reported.

Chothia canonical assignment

Identify the Chothia canonical class assignments for an antibody sequence. When no canonical exists, the program will also identify the most similar class and show which residues cause the mismatch.

Human subgroup assignment

Identify sub-class groupings for human light or heavy chain sequences.

Assess humanness

Takes an antibody (protein) sequence and compares it with a set of known human sequences. Shows you the similarity Z-score compared with a distribution of scores for human and mouse sequences.

Abnum: Apply numbering

Takes a light or heavy chain antibody (protein) sequence and applies Kabat, Chothia, or 'enhanced Chothia' numbering. The server uses a new and very reliable method for applying numbering based on profiles which identify anchor points at the ends of the frameworks. The enhanced Chothia numbering scheme corrects indel sites in framework regions as well as CDRs.