HMM Summary Page: TIGR01667

Functionintegral membrane protein, YccS/YhfK family
Trusted Cutoff467.80
Domain Trusted Cutoff467.80
Noise Cutoff302.50
Domain Noise Cutoff302.50
Isology Typesubfamily
HMM Length701
AuthorSelengut J
Entry DateSep 11 2002 10:33AM
Last ModifiedFeb 14 2011 3:27PM
CommentThis model represents two clades of putative transmembrane proteins including the E. coli YccS and YhfK proteins. The YccS hypothetical equivalog (TIGR01666) is found in beta and gamma proteobacteria, while the smaller YhfK group is only found in E. coli, Salmonella and Yersinia. TMHMM [1,2] on the 19 hits to this model shows a consensus of 11 transmembrane helices separated into two clusters, an N-terminal cluster of 6 and a central cluster of 5. This would indicate two non-membrane domains one on each side of the membrane
ReferencesRN [1] RM PMID: 11448883 RT Evaluation of methods for the prediction of membrane spanning regions. RA S. Moller, M.D.R. Croning, R. Apweiler. RL Bioinformatics, 17(7):646-653, July 2001. RN [2] RM PMID: 11152613 RT Predicting transmembrane protein topology with a hidden Markov model: Application to complete genomes. RA A. Krogh, B. Larsson, G. von Heijne, and E. L. L. Sonnhammer. RL Journal of Molecular Biology, 305(3):567-580