Understanding the behavioural difference of PPCA among its homologs in C7 family towards recognition of DXCA

2015/09/17 by Suvankar Ghosh, Ghosh, Suvankar, Shankar K. Ghosh +9
Environmental Science · Physics and Astronomy · #Biomolecules (q-bio.BM) #FOS: Biological sciences #Microbial Community Ecology and Physiology #Microbial Fuel Cells and Bioremediation #Origins and Evolution of Life

paper · pdf · doi:10.48550/arxiv.1608.09009

openalex publication_date 2015/09/17 · openalex created_date 2016/09/16 · openalex updated_date 2026/07/28

Abstract

Among all the proteins of Periplasmic C type cytochrome A (PPCA) family obtained from cytochrome C7 found in Geobacter sulfurreducens, PPCA protein can interact with Deoxycholate (DXCA), while its other homologs do not, as observed from the crystal structures. Utilizing the concept of 'structure-function relationship', an effort has been initiated towards understanding the driving force for recognition of DXCA exclusively by PPCA among its homologs. Further, a combinatorial analysis of the binding sequences (contiguous sequence of amino acid residues of binding locations) is performed to build graph-theoretic models, which show that PPCA differs from its homologues. Analysis of the results suggests that the underlying impetus of recognition of DXCA by PPCA is embedded in its primary sequence and 3D conformation.

Citations

• Dictionary of protein secondary structure: Pattern recognition of hydrogen‐bonded and geometrical features
• Basic local alignment search tool

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