Finding an average core structure: Application to the globins

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Citation: Russ B. Altman and Mark Gerstein. (1995) Finding an average core structure: Application to the globins. In KSL-95-17, February,1995.

Publication techreport ( Edit )
type Technical Report
bibtype techreport
Bibtex basics
author Russ B. Altman and Mark Gerstein
title Finding an average core structure: Application to the globins
number KSL-95-17
institution Knowledge Systems, AI Laboratory
address Stanford, CA, USA
year 1995
month February
Bibtex more
note Medical Computer Science
Access Paper
abstract We present a procedure for automatically identifying from a set of aligned protein structures a subset of atoms with only a small amount of structural variation, i.e., a core. We apply this procedure to the globin family of proteins. Based purely on the results of the procedure, we show that the globin fold can be divided into two parts. The part with greater structural variation consists of the residues near the heme (the F helix and parts of the G and H helices), and the part with lesser structural variation (the core)forms a structural framework similar to that of the repressor protein (A, B,and E helices and remainder of the G and H helices). Such a division is consistent with many other structural and biochemical findings. In addition,we find further partitions within the core that may have biological significance. Finally, using the structural core of the globin family as a reference point, we have compared structural variation to sequence variation and shown that a core definition based on sequence conservation does not necessarily agree with one based on structural similarity.

KSL Technical Report ID: KSL-95-17
Facts about Finding an average core structure: Application to the globinsRDF feed
Abstract We present a procedure for automatically i … We present a procedure for automatically identifying from a set of aligned protein structures a subset of atoms with only a small amount of structural variation, i.e., a core. We apply this procedure to the globin family of proteins. Based purely on the results of the procedure, we show that the globin fold can be divided into two parts. The part with greater structural variation consists of the residues near the heme (the F helix and parts of the G and H helices), and the part with lesser structural variation (the core)forms a structural framework similar to that of the repressor protein (A, B,and E helices and remainder of the G and H helices). Such a division is consistent with many other structural and biochemical findings. In addition,we find further partitions within the core that may have biological significance. Finally, using the structural core of the globin family as a reference point, we have compared structural variation to sequence variation and shown that a core definition based on sequence conservation does not necessarily agree with one based on structural similarity. e with one based on structural similarity.
Address Stanford, CA, USA  +
Author Russ B. Altman and Mark Gerstein  +
Bibtype techreport  +
Has author Russ B. Altman and Mark Gerstein  +
Has identifier KSL-95-17  +
Has publishing details February,1995  +
Has title Finding an average core structure: Application to the globins  +
Has where published KSL-95-17  +
Has year 1995  +
Institution Knowledge Systems, AI Laboratory  +
Ksl tr id KSL-95-17  +
Month February  +
Note Medical Computer Science
Number KSL-95-17  +
Process note NO  +
Title Finding an average core structure: Application to the globins  +
Year 1995  +
Retrieved from "http://tw.rpi.edu/wiki/Finding_an_average_core_structure:_Application_to_the_globins"
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