ColBuilder

• Verfasst von: Obarska-Kosinska, Agnieszka [VerfasserIn]
• Verfasst von: Rennekamp, Benedikt [VerfasserIn]
• Verfasst von: Ünal, Aysecan [VerfasserIn]
• Verfasst von: Gräter, Frauke [VerfasserIn]
• Titel: ColBuilder
• Titelzusatz: a server to build collagen fibril models
• Verf.angabe: Agnieszka Obarska-Kosinska, Benedikt Rennekamp, Aysecan Ünal, and Frauke Gräter
• E-Jahr: 2021
• Jahr: 13 July 2021
• Umfang: 6 S.
• Fussnoten: Gesehen am 10.11.2021
• Titel Quelle: Enthalten in: Biophysical journal
• Ort Quelle: Cambridge, Mass. : Cell Press, 1960
• Jahr Quelle: 2021
• Band/Heft Quelle: 120(2021), 17, Seite 3544-3549
• ISSN Quelle: 1542-0086
• DOI: doi:10.1016/j.bpj.2021.07.009
• Datenträger: Online-Ressource
• Sprache: eng
• K10plus-PPN: 1777152534

Abstract

Type I collagen is the main structural component of many tissues in the human body. It provides excellent mechanical properties to connective tissue and acts as a protein interaction hub. There is thus a wide interest in understanding the properties and diverse functions of type I collagen at the molecular level. A precondition is an atomistic collagen I structure as it occurs in native tissue. To this end, we built full-atom models of cross-linked collagen fibrils by integrating the low-resolution structure of collagen fibril available from x-ray fiber diffraction with high-resolution structures of short collagen-like peptides from x-ray crystallography and mass spectrometry data. We created a Web resource of collagen models for 20 different species with a large variety of cross-link types and localization within the fibril to facilitate structure-based analyses and simulations of type I collagen in health and disease. To easily enable simulations, we provide parameters of the modeled cross-links for an Amber force field. The repository of collagen models is available at https://colbuilder.h-its.org.