CDR Annotation
1 Introduction
CDR Annotation is an antibody numbering and annotation module used to number the variable region (Fv) of antibody sequences, accurately marking the specific locations of the framework region (Framework Region, FWR) and the complementarity determining region (Complementarity Determining Region, CDR). It supports the IMGT2, Kabat3, Chothia4, Martin5, AHo and Wolfguy schemes. When multiple sequences are input at once, you can analyze sequence variations and conservation by viewing the sequence visualization and amino acid frequency plots.
2 Parameters
- Antibody Sequences: Antibody amino acid sequences, supporting multiple sequences.
- Numbering Scheme: Antibody numbering scheme, supporting IMGT, Kabat, Chothia, Martin, AHo and Wolfguy.
3 Results Explanation
The table contains the following fields：
| Field Name | Description |
|---|---|
| Chain Type | The chain type of the most significant aligned. |
| Scheme | The numbering scheme used to number the sequence. |
| FWR1 AA | Amino acids of the FWR1 region. |
| CDR1 AA | Amino acids of the CDR1 region. |
| FWR2 AA | Amino acids of the FWR2 region. |
| CDR2 AA | Amino acids of the CDR2 region. |
| FWR3 AA | Amino acids of the FWR3 region. |
| CDR3 AA | Amino acids of the CDR3 region. |
| FWR4 AA | Amino acids of the FWR4 region. |
Chart: Visualization of the numbered and annotated sequences, including FV, CDR1, CDR2, and CDR3 amino acid frequency LOGO plots.
Figure 1. Visualization chart of CDR Annotation example.
4 Reference
[1] James Dunbar, Charlotte M. Deane, ANARCI: antigen receptor numbering and receptor classification, Bioinformatics, Volume 32, Issue 2, January 2016, Pages 298–300. https://doi.org/10.1093/bioinformatics/btv552
[2] Lefranc, M. P., & Lefranc, G. (2001). The IMGT unique numbering for immunoglobulin and T cell receptor variables and constant domains. Immunology Today, 22(8), 373-376. https://doi.org/10.1016/s0145-305x(02)00039-3
[3] Kabat, E. A., Wu, T. T., & Bilofsky, H. (1976). Unweighted groupings of amino acid residues in immunoglobulin variable and constant regions. In Kabat, E. A., & Mayer, M. M. (Eds.), Structural Concepts in Immunology and Immunochemistry (2nd ed., Vol. 1, pp. 1-66). Holt, Rinehart and Winston, New York.
[4] Chothia, C., & Lesk, A. M. (1987). Canonical structures for the hypervariable regions of immunoglobulins. Journal of Molecular Biology, 196(2), 901-917. https://doi.org/10.1016/0022-2836(87)90412-8
[5] Martin, A. C., & Thornton, J. M. (1996). Structural families in loops of homologous proteins: automatic classification, modelling and application to antibodies. Journal of Molecular Biology, 263(4), 800-815. https://doi.org/10.1006/jmbi.1996.0617