Emergence of protein fold families through rational design
نویسندگان
چکیده
منابع مشابه
Emergence of Protein Fold Families through Rational Design
Diverse proteins with similar structures are grouped into families of homologs and analogs, if their sequence similarity is higher or lower, respectively, than 20%-30%. It was suggested that protein homologs and analogs originate from a common ancestor and diverge in their distinct evolutionary time scales, emerging as a consequence of the physical properties of the protein sequence space. Alth...
متن کاملCorrection: Emergence of Protein Fold Families through Rational Design
Feng Ding, Nikolay V. Dokholyan DOI: 10.1371/journal.pcbi.0020085 In PLoS Computational Biology, volume 2, issue 7: The references to the figure parts in the legend of figure 3 were incorrect. The correct caption is as follows: Figure 3. The Sequence Identity for the Constructed Homologous Structures Three different protein folds are studied: HPR domain (A,D), ROSSMAN fold (B,E), and SH3 domain...
متن کاملLearning generative models for protein fold families.
We introduce a new approach to learning statistical models from multiple sequence alignments (MSA) of proteins. Our method, called GREMLIN (Generative REgularized ModeLs of proteINs), learns an undirected probabilistic graphical model of the amino acid composition within the MSA. The resulting model encodes both the position-specific conservation statistics and the correlated mutation statistic...
متن کاملStructure Learning for Generative Models of Protein Fold Families
Statistical models of the amino acid composition of the proteins within a fold family are widely used in science and engineering. Existing techniques for learning probabilistic graphical models from multiple sequence alignments either make strong assumptions about the conditional independencies within the model (e.g., HMMs), or else use sub-optimal algorithms to learn the structure and paramete...
متن کاملThe FSSP database of structurally aligned protein fold families.
FSSP (families of structurally similar proteins) is a database of structural alignments of proteins in the Protein Data Bank (PDB). The database currently contains an extended structural family for each of 330 representative protein chains. Each data set contains structural alignments of one search structure with all other structurally significantly similar proteins in the representative set (r...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: PLoS Computational Biology
سال: 2005
ISSN: 1553-734X,1553-7358
DOI: 10.1371/journal.pcbi.0020085.eor