Closed loops of TIM barrel protein fold |
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Authors: | Frenkel Zakhar M Trifonov Edward N |
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Institution: | Genome Diversity Center, Institute of Evolution, University of Haifa, Haifa 31905, Israel. zfrenkel@yahoo.com |
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Abstract: | The closed loops within the proteins of the TIM-barrel fold family are analyzed and compared sequence- and structure-wise. The size distribution of the closed loops of the TIM-barrels confirms universal preference to the standard size of 25-30 residues. 3D structural RMSD comparisons of the closed loops and presentation of their sequences in binary form suggest that the TIM-barrel proteins are built from descendants of several types of basic closed loop prototypes. Comparison of these prototypes points to a likely common ancestor--the alpha helix containing closed loops of 28 amino acids. The presumed ancestor is characterized by specific binary consensus sequence. |
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