A protein taxonomy based on secondary structure

Teresa Przytycka; Rajeev Aurora; George D. Rose

doi:10.1038/10728

A protein taxonomy based on secondary structure

Teresa Przytycka
, Rajeev Aurora
, George D. Rose

School of Medicine

Research output: Contribution to journal › Article › peer-review

89 Scopus citations

Abstract

Does a protein's secondary structure determine its three-dimensional fold? This question is tested directly by analyzing proteins of known structure and constructing a taxonomy based solely on secondary structure. The taxonomy is generated automatically, and it takes the form of a tree in which proteins with similar secondary structure occupy neighboring leaves, our tree is largely in agreement with results from the structural classification of proteins (SCOP), a multidimensional classification based on homologous sequences, full three-dimensional structure, information about chemistry and evolution, and human judgment. Our findings suggest a simple mechanism of protein evolution.

Original language	English (US)
Pages (from-to)	672-682
Number of pages	11
Journal	Nature Structural Biology
Volume	6
Issue number	7
DOIs	https://doi.org/10.1038/10728
State	Published - 1999

ASJC Scopus subject areas

Structural Biology
Biochemistry
Genetics

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10.1038/10728

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title = "A protein taxonomy based on secondary structure",

abstract = "Does a protein's secondary structure determine its three-dimensional fold? This question is tested directly by analyzing proteins of known structure and constructing a taxonomy based solely on secondary structure. The taxonomy is generated automatically, and it takes the form of a tree in which proteins with similar secondary structure occupy neighboring leaves, our tree is largely in agreement with results from the structural classification of proteins (SCOP), a multidimensional classification based on homologous sequences, full three-dimensional structure, information about chemistry and evolution, and human judgment. Our findings suggest a simple mechanism of protein evolution.",

author = "Teresa Przytycka and Rajeev Aurora and Rose, \{George D.\}",

note = "Funding Information: We thank R. Srinivasan, V. Murthy and P. Thiessen for helpful suggestions, and J. Cohen for providing access to his tree-construction program, Tande. We are particularly indebted to an anonymous referee for assistance in bringing this paper to fruition. Supported by the Sloan Foundation (T.P.) and the NIH (G.D.R.).",

year = "1999",

doi = "10.1038/10728",

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AU - Aurora, Rajeev

AU - Rose, George D.

N1 - Funding Information: We thank R. Srinivasan, V. Murthy and P. Thiessen for helpful suggestions, and J. Cohen for providing access to his tree-construction program, Tande. We are particularly indebted to an anonymous referee for assistance in bringing this paper to fruition. Supported by the Sloan Foundation (T.P.) and the NIH (G.D.R.).

PY - 1999

Y1 - 1999

N2 - Does a protein's secondary structure determine its three-dimensional fold? This question is tested directly by analyzing proteins of known structure and constructing a taxonomy based solely on secondary structure. The taxonomy is generated automatically, and it takes the form of a tree in which proteins with similar secondary structure occupy neighboring leaves, our tree is largely in agreement with results from the structural classification of proteins (SCOP), a multidimensional classification based on homologous sequences, full three-dimensional structure, information about chemistry and evolution, and human judgment. Our findings suggest a simple mechanism of protein evolution.

AB - Does a protein's secondary structure determine its three-dimensional fold? This question is tested directly by analyzing proteins of known structure and constructing a taxonomy based solely on secondary structure. The taxonomy is generated automatically, and it takes the form of a tree in which proteins with similar secondary structure occupy neighboring leaves, our tree is largely in agreement with results from the structural classification of proteins (SCOP), a multidimensional classification based on homologous sequences, full three-dimensional structure, information about chemistry and evolution, and human judgment. Our findings suggest a simple mechanism of protein evolution.

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JO - Nature Structural Biology

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ER -

A protein taxonomy based on secondary structure

Abstract

ASJC Scopus subject areas

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