KMAD: knowledge-based multiple sequence alignment for intrinsically disordered proteins.
Bioinformatics
; 32(6): 932-6, 2016 03 15.
Article
en En
| MEDLINE
| ID: mdl-26568635
ABSTRACT
UNLABELLED Intrinsically disordered proteins (IDPs) lack tertiary structure and thus differ from globular proteins in terms of their sequence-structure-function relations. IDPs have lower sequence conservation, different types of active sites and a different distribution of functionally important regions, which altogether make their multiple sequence alignment (MSA) difficult. The KMAD MSA software has been written specifically for the alignment and annotation of IDPs. It augments the substitution matrix with knowledge about post-translational modifications, functional domains and short linear motifs. RESULTS:
MSAs produced with KMAD describe well-conserved features among IDPs, tend to agree well with biological intuition, and are a good basis for designing new experiments to shed light on this large, understudied class of proteins. AVAILABILITY AND IMPLEMENTATION KMAD web server is accessible at http//www.cmbi.ru.nl/kmad/ A standalone version is freely available. CONTACT vriend@cmbi.ru.nl.
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1
Colección:
01-internacional
Banco de datos:
MEDLINE
Asunto principal:
Alineación de Secuencia
Idioma:
En
Revista:
Bioinformatics
Asunto de la revista:
INFORMATICA MEDICA
Año:
2016
Tipo del documento:
Article