HHsearch alignment for GI: 254780217 and conserved domain: COG3829
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms].
Probab=95.11 E-value=0.079 Score=34.36 Aligned_cols=136 Identities=18% Similarity=0.182 Sum_probs=75.2
Q ss_pred CCCCCHHHHCCHHHHHHHHHHHHHC-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHH
Q ss_conf 5587565610929999999999982-889816631179898889999999999817799886431210126788679999
Q gi|254780217|r 6 FDPVYNQRLFGHEDIEKFLSQYYCS-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQM 84 (347)
Q Consensus 6 ~~p~~~~~i~G~~~~~~~L~~~~~~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i 84 (347)
T Consensus 239 ~a~y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH----~~S~R~~~PFIaiNCaAiP--e~Ll 312 (560)
T COG3829 239 KAKYTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIH----NLSPRANGPFIAINCAAIP--ETLL 312 (560)
T ss_pred CCCCCHHHHCCCCHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHH----HCCCCCCCCEEEEECCCCC--HHHH
T ss_conf 453661002058999999999998633899828995378866899999987----4484347980787643388--8888
Q ss_pred HC---CCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC----
Q ss_conf 67---89875453001000101342123237887554431022211112103532205542400014567776630----
Q gi|254780217|r 85 AS---HALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP---- 157 (347)
Q Consensus 85 ~~---~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP---- 157 (347)
T Consensus 313 ESELFGye~GAFT-G---A~~~GK~G-------------lfE~--A~gG--TLFLDEIgempl~LQaKLLRVLQEkei~r 371 (560)
T COG3829 313 ESELFGYEKGAFT-G---ASKGGKPG-------------LFEL--ANGG--TLFLDEIGEMPLPLQAKLLRVLQEKEIER 371 (560)
T ss_pred HHHHHCCCCCCCC-C---CCCCCCCC-------------CEEE--CCCC--EEEEHHHCCCCHHHHHHHHHHHHHCEEEE
T ss_conf 8887276776424-6---44579976-------------0544--1698--37712320399899999999875353785
Q ss_pred -------CCCCCEEEEEC
Q ss_conf -------34341676504
Q gi|254780217|r 158 -------PQKVLFILISH 168 (347)
Q Consensus 158 -------p~~t~fiLit~ 168 (347)
T Consensus 372 vG~t~~~~vDVRIIAATN 389 (560)
T COG3829 372 VGGTKPIPVDVRIIAATN 389 (560)
T ss_pred CCCCCCEEEEEEEEECCC
T ss_conf 378875356789994257