This page enables you to number an antibody sequence or structure automatically using the Kabat or Chothia schemes, or the Martin scheme (as Chothia but with structurally correct numbering in the framework regions).

Number your sequence

Please enter the Light Chain or Heavy Chain amino acid sequence of your antibody (single letter code)

Select the numbering scheme you wish to apply:

	Kabat
	Chothia
	Martin (Chothia with structurally corrected framework indels)

Number your structure

Upload the PDB file:
Note! Your file must have the antibody chains as the first (or only) chains. Fc fragments will not be numbered
Select the numbering scheme:	Kabat Chothia Martin (Chothia with structurally corrected framework indels)
Output:	Label as LH   Label as AB
	To screen   To a PDB file

Apply numbering from your scripts

You may also access the numbering program directly from your scripts using our simple REST-style web-services interface.

Numbering sequences

To number a sequence use a URL of the form:
http://www.bioinf.org.uk/abs/abnum/abnum.cgi?plain=1&aaseq=sss&scheme=xxx
or by passing the parameters in POST format.

The fields in the URL are as follows:

You can download a sample Perl script that uses the web services-interface to Abnum.

Numbering structures

To number a structure you must pass parameters in POST format and use enctype="multipart/form-data". The URL is:
http://www.bioinf.org.uk/abs/abnum/abnumpdb.cgi

The fields in the URL are as follows:

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The numbering program was written by Abhinandan K. Raghavan, 2006-7. For more information, or if you publish work which has used this server, please see Abhinandan, K.R. and Martin, A.C.R. (2008) Analysis and improvements to Kabat and structurally correct numbering of antibody variable domains Molecular Immunology, 45, 3832-3839. [PDF as submitted] [http://dx.doi.org/10.1016/j.molimm.2008.05.022]