User:Flolauck/draft SFLD
| Content | |
|---|---|
| Description | Enzyme Function Classification |
| Contact | |
| Research center | University of California, San Francisco |
| Laboratory | Babbitt Laboratory |
| Primary citation | Pegg et.al. (2006) [1] |
| Access | |
| Website | http://sfld.rbvi.ucsf.edu/ |
The Structure-Function Linkage Database (SFLD) is a tool for the investigation of protein sequence, structure, and function. It implements a hierarchical classification of enzymes based on sequence-structure features to chemical reactions. It also allows to classify a given protein sequence into this hierarchy and find related enzymes.
Description
[edit]The Structure-Function Linkage Database (SFLD) links evolutionarily related sequences and structures from mechanistically diverse superfamilies of enzymes to their chemical reactions. It correlates conserved active site residues with specific partial reactions that all members of a superfamily perform. In particular, it aims to provide explicit information concerning how a given protein, or family of proteins, delivers chemical functionality.
The SFLD can classify a sequence into the nearest superfamily and retrieve the associated sequences, structures, and chemical reactions of even diverse relatives. Furthermore, the SFLD provides sequence-similarity networks that are used to infer function of a sequence by viewing it in the context of curated proteins at the superfamily and family level.
Project
[edit]The SFLD is developed by the Babbitt Laboratory in collaboration with the UCSF Resource for Biocomputing, Visualization, and Informatics.
The SFLD serves as a analysis and archive site for superfamilies targeted by the Enzyme Function Initiative (EFI, www.enzymefunction.org), an NIH Glue Grant created to develop a robust sequence/structure‑based strategy for facilitating discovery of functions of unknown enzymes discovered in genome projects.
See also
[edit]References
[edit]- ^ Pegg, S. C.; Brown, S. D.; Ojha, S.; Seffernick, J.; Meng, E. C.; Morris, J. H.; Chang, P. J.; Huang, C. C.; Ferrin, T. E.; Babbitt, P. C. (Feb 28). "Leveraging enzyme structure-function relationships for functional inference and experimental design: the structure-function linkage database". Biochemistry. 45 (8): 2545–55. doi:10.1021/bi052101l. PMID 16489747.
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