In this section
@article{Nicholas:2001:10.1046/j.1432-1033.2001.01893.x,
author = {Nicholas, HB and Arst, HN and Caddick, MX},
doi = {10.1046/j.1432-1033.2001.01893.x},
journal = {European Journal of Biochemistry},
pages = {414--419},
title = {Evaluating low level sequence identities},
url = {http://dx.doi.org/10.1046/j.1432-1033.2001.01893.x},
volume = {268},
year = {2001}
}
TY - JOUR
AB - <jats:p>A review published several years ago [Hawkins, A.R. & Lamb, H.K. (1995) <jats:italic>Eur. J. Biochem</jats:italic>. <jats:bold>232</jats:bold>, 7–18] proposed that genetic, biochemical and physiological data can override sequence comparison in the determination of homology in instances where structural information is unavailable. Their lead example was the hypothesis that the transcriptional activator protein for quinate catabolism in <jats:italic>Aspergillus nidulans</jats:italic>, QUTA, is derived from the pentafunctional AROM protein by a gene duplication followed by cleavage [Hawkins, A.R., Lamb, H.K., Moore, J.D. & Roberts, C.F. (1993) <jats:italic>Gene</jats:italic><jats:bold>136</jats:bold>, 49–54]. We tested this hypothesis by a sensitive combination of positionspecific logodds scoring matrix methods. The positionspecific logodds scoring matrices were derived from a large number of 3dehydroquinate synthase and 5<jats:italic>enol</jats:italic>pyruvylshikimate3phosphate synthase domains that were proposed to be the domains from the AROM protein that gave rise to the transcriptional activator protein for quinate metabolism. We show that the degree and pattern of similarity between these positionspecific logodds scoring matrices and the transcriptional activator protein for quinate catabolism in <jats:italic>A. nidulans</jats:italic> is that expected for random sequences of the same composition. This level of similarity provides no support for the suggested gene duplication and cleavage. The lack of any trace of evidence for homology following a comprehensive sequence analysis indicates that the homology hypothesis is without foundation, underlining the necessity to accept only similarity of sequence and/or structure as evidence of evolutionary relatedness. Further, QUTA is homologous throughout its entire length
AU - Nicholas,HB
AU - Arst,HN
AU - Caddick,MX
DO - 10.1046/j.1432-1033.2001.01893.x
EP - 419
PY - 2001///
SN - 0014-2956
SP - 414
TI - Evaluating low level sequence identities
T2 - European Journal of Biochemistry
UR - http://dx.doi.org/10.1046/j.1432-1033.2001.01893.x
UR - https://doi.org/10.1046/j.1432-1033.2001.01893.x
VL - 268
ER -
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