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User talk:Warren Wakarchuk

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Revision as of 00:43, 14 December 2009 by Daniil Naumoff (talk | contribs)

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Dear Warren,

I would like to pay your attention on some data about GH101 family:

You have written, that 'the recently solved 3D structure of SpGH101 reveals that this protein surprisingly shares some structural features with GH13 alpha-amylases', but it is not so surprising. According to PSI-BLAST searches, GH101 is related to GH13, GH31 and many other (β/α)₈-barrel glycoside hydrolases [1, 2].
According to BLAST searches, the seventh domain of SpGH101 and BlGH101 belongs to family NEW3 of the functionally uncharacterized domains [3].
Six subfamilies have been recognized in GH101 family [4, 5].

References:

1. D.G. Naumoff and M. Carreras. 2009. PSI Protein Classifier: a new program automating PSI-BLAST search results. Molecular Biology (Engl Transl). V.43. N.4. P.652-664.

2. D.G. Naumoff. 2008. The GH31 family of glycoside hydrolases: subfamily structure and evolutionary connections. The Sixth International Conference on Bioinformatics of Genome Regulation and Structure. June 22-28, 2008. Novosibirsk. Russia. P.169.

3. D.G. Naumoff. 2004. Phylogenetic analysis of α-galactosidases of the GH27 family. Molecular Biology (Engl Transl). V.38. N.3. P.388-399.

4. D.G. Naumoff. 2009. Sequence analysis of endo-α-N-acetylgalactosaminidases and their homologues. Proceedings of the International Moscow Conference on Computational Molecular Biology (MCCMB’09). July 20-23, 2009. Moscow. Russia. P.251-252.

5. D.G. Naumoff. 2009. Sequence analysis of endo-α-N-acetylgalactosaminidases (Abstracts of 20th International Symposium on Glycoconjugates Glycans "GLYCO XX", November 29 – December 4, 2009, San Juan, Puerto Rico, USA). Glycoconjugate Journal. V.26. N.7. P.847.

--Daniil Naumoff 11:36, 10 December 2009 (UTC)

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