Supplementary dataset for Enzyme promiscuous profiles for protein sequence and reaction annotation
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Recent advances in DNA sequencing technologies led to the accumulation of enormous quantities of genetic information available in public databases. This rapid growth of available biological datasets calls for quantitative analysis tools and concomitantly o ...
A key challenge in metabolic engineering is to find and to improve biosynthetic pathways that lead to the cellular production of a given industrial, pharmaceutical or specialty chemical compound. In many cases, the enzymatic reactions required for bio-prod ...
2017
Functional protein-protein interactions are crucial in most cellular processes. They enable multi-protein complexes to assemble and to remain stable, and they allow signal transduction in various pathways. Functional interactions between proteins result in ...
A recent study in BMC Evolutionary Biology shows that many of the open reading frames in mammalian Hox genes are more conserved than expected on the basis of their protein sequence. The presence of highly conserved DNA elements is thus not confined to the ...
A key challenge in metabolic engineering is to design novel or to improve existing biosynthetic pathways that lead to the cellular production of a given industrial or pharmaceutical compound. In many cases, the required enzymatic reactions for the biosynth ...
We previously introduced two new protein databases (trEST and trGEN) of hypothetical protein sequences predicted from EST and HTG sequences, respectively. Here, we present the updates made on these two databases plus a new database (trome), which uses alig ...
2004
Specific protein-protein interactions are crucial in the cell, both to ensure the formation and stability of multiprotein complexes and to enable signal transduction in various pathways. Functional interactions between proteins result in coevolution betwee ...
Proceedings of the National Academy of Sciences2016
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The amino acid sequence determines the individual protein three-dimensional structure and its functioning in an organism. Therefore, "reading" a protein sequence and determining its changes due to mutations or post-translational modifications is one of the ...
Springer-Verlag2012
Sequence motifs are of greater biological importance in nucleotide and protein sequences. The conserved occurrence of identical motifs represents the functional significance and helps to classify the biological sequences. In this paper, a new algorithm is ...
Springer Berlin Heidelberg2010
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Background: Protein variability can now be studied by measuring high-resolution tolerance-to-substitution maps and fitness landscapes in saturated mutational libraries. But these rich and expensive datasets are typically interpreted coarsely, restricting d ...
