HHsearch alignment for GI: 254780877 and conserved domain: COG3829

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms].
Probab=97.50  E-value=0.0019  Score=46.90  Aligned_cols=206  Identities=25%  Similarity=0.369  Sum_probs=115.0

Q ss_pred             CCCCCCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHH----------HHCCCCCHHHCCCEEEEEEH
Q ss_conf             9853333357899999996336--77786689528874077799999998----------73489984445743788731
Q gi|254780877|r  175 GKLDPVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASR----------IINGDIPESLKGKRLMALDM  242 (853)
Q Consensus       175 GkLDPVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~----------i~~~~vp~~l~~~~i~~ld~  242 (853)
T Consensus       242 y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~LlESELFGye~  321 (560)
T COG3829         242 YTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPETLLESELFGYEK  321 (560)
T ss_pred             CCHHHHCCCCHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHHCCCC
T ss_conf             66100205899999999999863389982899537886689999998744843479807876433888888888727677


Q ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHC-------------CCCEE
Q ss_conf             35421745420245458999999860799769996362773026665543358888765312-------------46604
Q gi|254780877|r  243 GALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLA-------------RGELH  309 (853)
Q Consensus       243 ~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~La-------------rG~l~  309 (853)
T Consensus       322 GAF-TGA~~~GK-----~GlfE~---A~gG-TLFLDEIgemp------l~L-QaKLLR-VLQEkei~rvG~t~~~~vDVR  383 (560)
T COG3829         322 GAF-TGASKGGK-----PGLFEL---ANGG-TLFLDEIGEMP------LPL-QAKLLR-VLQEKEIERVGGTKPIPVDVR  383 (560)
T ss_pred             CCC-CCCCCCCC-----CCCEEE---CCCC-EEEEHHHCCCC------HHH-HHHHHH-HHHHCEEEECCCCCCEEEEEE
T ss_conf             642-46445799-----760544---1698-37712320399------899-999999-875353785378875356789


Q ss_pred             EEEEECHHHHHHHHHCCH---HHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCC-
Q ss_conf             899744899999730011---1320231111157776789999999789865414961015899999863332024576-
Q gi|254780877|r  310 CIGATTLDEYRKYIEKDP---ALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRF-  385 (853)
Q Consensus       310 ~IgaTT~~Eyrk~iEkD~---Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~-  385 (853)
T Consensus       384 IIAATN-~nL~~~i~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~F---------------l~k~s~~~~~~v~~  447 (560)
T COG3829         384 IIAATN-RNLEKMIAEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYF---------------LDKFSRRYGRNVKG  447 (560)
T ss_pred             EEECCC-CCHHHHHHCCCCHHHHEEEECEEEECCCCCCCCCCHHHHHHHHH---------------HHHHHHHCCCCCCC
T ss_conf             994257-58999986396165530030401114777233820189999999---------------99999872887666


Q ss_pred             CHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Q ss_conf             74778999999999875410222145788799999744
Q gi|254780877|r  386 LPDKAIDLMDEASARVRMQIDTKPEVLDELDRRIICLK  423 (853)
Q Consensus       386 lPDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l~  423 (853)
T Consensus       448 ls~~a~~~L---------~~y~WPGNVRELeNviER~v  476 (560)
T COG3829         448 LSPDALALL---------LRYDWPGNVRELENVIERAV  476 (560)
T ss_pred             CCHHHHHHH---------HHCCCCCHHHHHHHHHHHHH
T ss_conf             899999999---------86899960999999999998