• bioinf.org.uk
• Main antibody pages

Antibody Engineering Lab Manual

This page provides a set of links to tools described in my chapter entitled "Protein sequence and structure analysis of antibody variable domains" in the Springer Antibody Engineering Lab Manual.

Introduction

Linking sequence and structure

• The Kabat numbering scheme
• The Chothia numbering scheme
• The Abhinandan (Updated Chothia) numbering scheme
• The IMGT numbering scheme
• The AHo numbering scheme

CDR definitions

• CDR definitions

Procedures

Accessing Kabat sequence data

• Abysis
• The Kabat Database
• US download site
• UK download site
• KabatMan
• Subim download

Accessing IMGT sequence data

• Abysis
• The EBI IMGT site
• The main IMGT server
• Nucleotide sequence analysis tools

Accessing antibody structure data

• Abysis
• SACS
• The PDB

Assigning subgroups

• Subim human subgroup assignment

Identifying the CDRs

• CDR rules

Screening new antibody sequences

• SeqTest

Assigning canonicals

• Canonicals

Modelling antibodies

• WAM
• Rosetta Antibody
• MODELLER
• SwissModel