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Table 1 Summary of the Hidden Markov Models (HMMs) used to screen for glycosyltransferases in the proteomes of Campylobacter jejuni NCTC 11168 and Lactobacillus rhamnosus GG

From: A network-based approach to identify substrate classes of bacterial glycosyltransferases

HMM group Description Database Reference
I Rossmann-fold domains SUPERFAMILY Ha et al., 2001 [16]
Egelund et al., 2004 [10]
Lairson et al., 2008 [3]
Hansen et al., 2010 [8]
II Sugar transferase SUPERFAMILY Egelund et al., 2004 [10]
Hansen et al., 2010 [8]
UDP-Glycosyltransferase SUPERFAMILY Egelund et al., 2004 [10]
Hansen et al., 2010 [8]
III Transglycosylase (PF00912) Pfam/CAZy Di Guilmi et al., 2003 [17]
Glycosyltransferase WecB/TagA/CpsF (PF03808) Pfam/CAZy Maldonado-Barragán et al., 2011 [18]
Bacterial sugar transferase (PF02397) Pfam Yoshida et al., 1998 [19]
Provencher et al., 2003 [21]
Oligosaccharyltransferase STT3 subunit (PF02516) Pfam/CAZy Baïet et al., 2011 [22]
DAD family (PF02109) Pfam Silberstein et al., 1995 [24]
OST3/OST6 family (PF04756) Pfam/CAZy Knauer et al., 1999 [23]
Glycosyltransferase family 25 (PF01755) Pfam/CAZy Campbell et al., 1997 [25]
Glycosyltransferase family 28 (PF04101) Pfam/CAZy Mengin-Lecreulx et al., 1991 [26]
Glycosyltransferase family 9 (PF01075) Pfam/CAZy Campbell et al., 1997 [25]
  1. HMM group: HMMs were grouped according to their expected specificity for glycosyltransferase activity in an increasing order. Description: description of the HMM. The Pfam model id is also provided. Database: source of the model. Reference: bibliographic citation supporting the inclusion of the corresponding HMM in the analysis.