Open Access Open Badges Research article

Bioinformatics in crosslinking chemistry of collagen with selective cross linkers

Radhakrishnan Narayana Swamy1, A Gnanamani1*, Sangeetha Shanmugasamy2, Ramesh Kumar Gopal2 and Asit Baran Mandal1

Author Affiliations

1 Microbiology Division, Central Leather Research Institute (CSIR, NewDelhi). Adyar, Chennai 600 020, Tamil Nadu, India

2 AU-KBC, Research Centre, MIT Campus of Anna University, Chennai, India

For all author emails, please log on.

BMC Research Notes 2011, 4:399  doi:10.1186/1756-0500-4-399

Published: 12 October 2011



Identifying the molecular interactions using bioinformatics tools before venturing into wet lab studies saves the energy and time considerably. The present study summarizes, molecular interactions and binding energy calculations made for major structural protein, collagen of Type I and Type III with the chosen cross-linkers, namely, coenzyme Q10, dopaquinone, embelin, embelin complex-1 & 2, idebenone, 5-O-methyl embelin, potassium embelate and vilangin.


Molecular descriptive analyses suggest, dopaquinone, embelin, idebenone, 5-O-methyl embelin, and potassium embelate display nil violations. And results of docking analyses revealed, best affinity for Type I (- 4.74 kcal/mol) and type III (-4.94 kcal/mol) collagen was with dopaquinone.


Among the selected cross-linkers, dopaquinone, embelin, potassium embelate and 5-O-methyl embelin were the suitable cross-linkers for both Type I and Type III collagen and stabilizes the collagen at the expected level.