HHsearch alignment for GI: 254780809 and conserved domain: cd01878

>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=100.00  E-value=2.8e-34  Score=257.65  Aligned_cols=173  Identities=32%  Similarity=0.434  Sum_probs=141.0

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHH--HHHHHCC-CEEEECCCCCCHHHHHHHHHCCHHCCCCCCCCCCEEECCCCCC
Q ss_conf             325888864010001121233322345--5432023-0243114663188899998552000234546872110001245
Q gi|254780809|r  187 FSSKEVLNDILFLKNDISSHISQGKLG--EIIRNGY-KIVILGHSNAGKSSLFNALAKKDVAIVTDIPGTTRDVLTIDLD  263 (440)
Q Consensus       187 ~~~~~~~~~i~~i~~~l~~ll~~~~~~--~~l~~g~-~v~i~G~pN~GKSSL~N~L~~~~~aIVs~~~GTTRD~i~~~~~  263 (440)
T Consensus         6 ~~~~~i~~ri~~l~~~l~k~~~~~~~~r~~r~~~g~p~VaivG~PNvGKSTLlN~L~g~~-~~v~~~~~tT~d~~~~~i~   84 (204)
T cd01878           6 TDRRLIRERIAKLRRELEKVKKQRELQRRRRKRSGIPTVALVGYTNAGKSTLFNALTGAD-VYAEDQLFATLDPTTRRLR   84 (204)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHCCC-CEEECCCCCCCCCEEEEEE
T ss_conf             999999999999999999999999999888774599879998899998999999994899-6341567764576366899


Q ss_pred             C-CCEEEEEEECCH-HCCC-CHHHHHHHHHHHHHHHHHHCCEEECCCCCCHHHHH-------H-----HCCCCCCCCCCC
Q ss_conf             6-835899950810-0024-10356666788899850301102013589856634-------3-----128985322223
Q gi|254780809|r  264 L-EGYLVKISDTAG-IRET-DDIVEKEGIKRTFLEVENADLILLLKEINSKKEIS-------F-----PKNIDFIFIGTK  328 (440)
Q Consensus       264 i-~g~~~~l~DTaG-ir~t-~d~IE~~GI~ra~~~i~~aDlil~v~D~~~~~~~~-------~-----~~~~~~i~V~NK  328 (440)
T Consensus        85 ~~~~~~i~l~DT~G~i~~~p~~lie~--~~~tle~i~~AD~il~vvD~s~~~~~~~~~~~~~~l~~l~~~~k~~i~V~NK  162 (204)
T cd01878          85 LPDGREVLLTDTVGFIRDLPHQLVEA--FRSTLEEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNK  162 (204)
T ss_pred             ECCCCEEEEEECCCCCCCCCHHHHHH--HHHHHHHHHHCCEEEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEEC
T ss_conf             56997799983686446783789999--9999999973989999997998536677999999999806555760788867


Q ss_pred             CCCCCCCCH--------HHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             334465420--------0000133332323589999999996
Q gi|254780809|r  329 SDLYSTYTE--------EYDHLISSFTGEGLEELINKIKSIL  362 (440)
Q Consensus       329 ~Dl~~~~~~--------~~~~~ISaktg~Gi~~L~~~I~~~l  362 (440)
T Consensus       163 iDl~~~~~~~~~~~~~~~~~i~ISA~~g~Gid~L~~~I~e~L  204 (204)
T cd01878         163 IDLLDDEELEERLEAGRPDAVFISAKTGEGLDELLEAIEELL  204 (204)
T ss_pred             CCCCCCHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             047995758999970899879998868949999999999559