The Goodman Faculty of Life Sciences, Nanotechnology Building, Bar-Ilan University, Ramat Gan 52900, Israel.
Nucleic Acids Res. 2012 Jul;40(Web Server issue):W521-4. doi: 10.1093/nar/gks480. Epub 2012 Jun 6.
Antibodies are capable of specifically recognizing and binding antigens. Identification of the antigen-binding site, commonly dubbed paratope, is of high importance both for medical and biological applications. To date, the identification of antigen-binding regions (ABRs) relies on tools for the identification of complementarity-determining regions (CDRs). However, we have shown that up to 22% of the residues that actually bind the antigen fall outside the traditionally defined CDRs. The Paratome web server predicts the ABRs of an antibody, given its amino acid sequence or 3D structure. It is based on a set of consensus regions derived from a structural alignment of a non-redundant set of all known antibody-antigen complexes. Given a query sequence or structure, the server identifies the regions in the query antibody that correspond to the consensus ABRs. An independent set of antibody-antigen complexes was used to test the server and it was shown to correctly identify at least 94% of the antigen-binding residues. The Paratome web server is freely available at http://www.ofranlab.org/paratome/.
抗体能够特异性地识别和结合抗原。鉴定抗原结合位点（通常称为表位）对于医学和生物学应用都非常重要。迄今为止，抗原结合区域（ABR）的鉴定依赖于鉴定互补决定区（CDR）的工具。然而，我们已经表明，实际上与抗原结合的残基中有高达 22%位于传统定义的 CDR 之外。Paratome 网络服务器根据抗体的氨基酸序列或 3D 结构预测其 ABR。它基于一组源自所有已知抗体-抗原复合物的非冗余结构比对的共识区域。对于查询序列或结构，服务器会识别查询抗体中与共识 ABR 相对应的区域。使用一组独立的抗体-抗原复合物来测试服务器，结果表明它能够正确识别至少 94%的抗原结合残基。Paratome 网络服务器可免费在 http://www.ofranlab.org/paratome/ 获取。
