HHsearch alignment for GI: 254780945 and conserved domain: cd04491
>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating
Probab=96.05 E-value=0.059 Score=34.93 Aligned_cols=67 Identities=15% Similarity=0.274 Sum_probs=49.5
Q ss_pred EEEEEEEEEEEEC-C----CCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEE-EEEEECCCEEEEEC
Q ss_conf 9999998975421-5----898338999981893699999518878998732898889999-89973187799977
Q gi|254780945|r 71 TITGYISQHSSFQ-L----QKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVT-GKIKKLKNRIIMVH 140 (700)
Q Consensus 71 ti~g~V~~~~~~~-~----~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vs-GKv~~~~~~~qi~h 140 (700)
T Consensus 1 ~v~~~V~~~~~~r~f~~dg~~~~v~~~~i~D~TG~ir~t~W~~~--~-~~~l~~Gd~v~i~~~~v~~~~g~~el~~ 73 (82)
T cd04491 1 SVEGKVLSISEPREFTRDGSEGKVQSGLVGDETGTIRFTLWDEK--A-ADDLEPGDVVRIENAYVREFNGRLELSV 73 (82)
T ss_pred CEEEEEEECCCCEEEEECCCEEEEEEEEEECCCCEEEEEEECCC--C-CCCCCCCCEEEEEEEEEEEECCEEEEEE
T ss_conf 98999998778879973997689999999989987999996874--4-4555899999996899988899799998