HHsearch alignment for GI: 254780545 and conserved domain: COG3829
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms].
Probab=98.46 E-value=4.2e-07 Score=70.38 Aligned_cols=210 Identities=30% Similarity=0.432 Sum_probs=114.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEECCCCCHHHHHHHHHHHCCC---CCCEECCCHHHHH-
Q ss_conf 225698898528899999999987433567664201233311003787425888999974246---9970205857886-
Q gi|254780545|r 143 GSVTFKDVAGVDEAKEDLQEIVDFLCDPQKFKRLGGRIPHGVLLVGPPGTGKTLLARAVAGEA---NVPFFTISGSDFV- 218 (647)
Q Consensus 143 ~~v~f~dv~g~~~~k~~~~~~v~~l~~~~~~~~~g~~~p~g~ll~GppGtGKTlla~a~a~e~---~~~f~~~~~s~~~- 218 (647)
T Consensus 240 a~y~f~~Iig~S~~m~~~~~~----------akr~A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe 309 (560)
T COG3829 240 AKYTFDDIIGESPAMLRVLEL----------AKRIAKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPE 309 (560)
T ss_pred CCCCHHHHCCCCHHHHHHHHH----------HHHHCCCCCCEEEECCCCCCHHHHHHHHHHCCCCCCCCEEEEECCCCCH
T ss_conf 536610020589999999999----------9863389982899537886689999998744843479807876433888
Q ss_pred ----HHHHH------CCHHH--HHHHHHHHHHHCCHHEEHHHHHHHHCCCCCCCCCCCHHHHHH-HHHHHHHH--CCCCC
Q ss_conf ----44420------33245--999999998737801206323564144557898862688988-99899853--03235
Q gi|254780545|r 219 ----ELFVG------VGASR--VRDMFEQAKNNSPCIVFVDEIDAVGRHRGIGLGGGNDEREQT-LNQLLVEM--DGFES 283 (647)
Q Consensus 219 ----~~~~g------~g~~~--vr~lf~~a~~~~p~iifiDeida~~~~r~~~~~~~~~e~~~~-ln~ll~~m--dg~~~ 283 (647)
T Consensus 310 ~LlESELFGye~GAFTGA~~~GK~GlfE~A~---gGTLFLDEIgempl---------~---LQaKLLRVLQEkei~rvG~ 374 (560)
T COG3829 310 TLLESELFGYEKGAFTGASKGGKPGLFELAN---GGTLFLDEIGEMPL---------P---LQAKLLRVLQEKEIERVGG 374 (560)
T ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCCEEECC---CCEEEEHHHCCCCH---------H---HHHHHHHHHHHCEEEECCC
T ss_conf 8888887276776424644579976054416---98377123203998---------9---9999999875353785378
Q ss_pred C----CCEEEEEECCCCCCCCHHHCCCCCCCC-------EEEECHHHHHHHHH-H--H-----HHHHCCC----C-CCCC
Q ss_conf 7----782999962981008833316564231-------41000134788999-9--9-----9985488----7-7732
Q gi|254780545|r 284 S----EGVILIAATNRPDVLDAALLRPGRFDR-------QITVPNPDIVGREH-I--L-----MVHSRNV----P-LAPN 339 (647)
Q Consensus 284 ~----~~v~vi~aTn~~~~lD~al~RpgRfd~-------~i~~~~P~~~~r~~-i--~-----~~~~~~~----~-~~~~ 339 (647)
T Consensus 375 t~~~~vDVRIIAATN~nL---~~~i~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~v~~ls~~ 451 (560)
T COG3829 375 TKPIPVDVRIIAATNRNL---EKMIAEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKFSRRYGRNVKGLSPD 451 (560)
T ss_pred CCCEEEEEEEEECCCCCH---HHHHHCCCCHHHHEEEECEEEECCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCHH
T ss_conf 875356789994257589---99986396165530030401114777233820189999999999998728876668999
Q ss_pred CCHHHHHHHHHCCCH--HHHHHHHHHHHHHHHHHHCCCCCHHHHH-HHH
Q ss_conf 110245441203798--9999999998764553202421045689-997
Q gi|254780545|r 340 VILKTIARGTPGFSG--ADLRNLVNEAALMAARRNRRLVTMQEFE-DAK 385 (647)
Q Consensus 340 ~d~~~la~~t~g~sg--Adi~~~~~eAa~~a~r~~~~~i~~~dl~-~A~ 385 (647)
T Consensus 452 a-~~~L~~y--~WPGNVRELeNviER~v~~~--~~~~~I~~~~lp~~~l 495 (560)
T COG3829 452 A-LALLLRY--DWPGNVRELENVIERAVNLV--ESDGLIDADDLPAFAL 495 (560)
T ss_pred H-HHHHHHC--CCCCHHHHHHHHHHHHHHCC--CCCCEEEHHHCCHHHH
T ss_conf 9-9999868--99960999999999998106--8866222522620231