HHsearch alignment for GI: 254780941 and conserved domain: cd04152
>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.
Probab=99.74 E-value=3.4e-17 Score=131.12 Aligned_cols=160 Identities=18% Similarity=0.157 Sum_probs=99.2
Q ss_pred CCEEEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCEEEEEE-EEEEECCEEEEEEECCCCHHHCCCCCCCCCCHHHHHH
Q ss_conf 121899833899868899999868920210588886021278-9997399489999879840101235753210023455
Q gi|254780941|r 21 RSGCVALVGATNAGKSTLVNRFVGAKVSIVTHKVQTTRSIVR-GIVSEKESQIVFLDTPGIFNAKDSYHKLMIRLSWSTI 99 (311)
Q Consensus 21 ksg~VaivG~pN~GKSTL~N~l~g~~vsivS~k~~TTr~~i~-gi~~~~~~qiifvDTPG~~~~~~~l~~~~~~~~~~~l 99 (311)
T Consensus 2 ~~~kIvilG~~~~GKTsil~r~~~~~f~~~~pTiG~~~~~~~~~~~~~~~v~l~iwDtaGq--------e~~r~l~~~Y~ 73 (183)
T cd04152 2 QSLHIVMLGLDSAGKTTVLYRLKFNEFVNTVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQ--------EKLRPLWKSYT 73 (183)
T ss_pred CEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEEEECCCCCEEEEEEEECCCC--------CCCCEEHHHHH
T ss_conf 6799999999999889999999649867768703557899999616786679999978987--------34510087674
Q ss_pred HHHHHHCCCCHHHHHHHCC-HHHHHHHH----HHCCCCCEEEEEECCCHHH---HHHHHHHH--HHHHCCCCCCCCCCCC
Q ss_conf 5532100110000100000-00122345----4428720257872110104---34578888--6410012334311000
Q gi|254780941|r 100 KHADIVCLVVDSHRELKVN-IHDLLKEI----AKRSSRLILILNKIDCVKP---ERLLEQAE--IANKLVFIEKTFMVSA 169 (311)
Q Consensus 100 ~~aDiil~VvDa~~~~~~~-~~~il~~l----~~~~~p~IiVlNKiDlv~~---~~l~~~~~--~~~~~~~~~~i~~ISA 169 (311)
T Consensus 74 r~a~g~i~V~D~td~~~~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~~~~ei~~~l~l~~~~~~~~-~~i~~tSA 152 (183)
T cd04152 74 RCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNALSVSEVEKLLALHELSASTP-WHVQPACA 152 (183)
T ss_pred CCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCC-CEEEEEEC
T ss_conf 67867899996776889999999999997321237962999986677766878899999971999866699-89997279
Q ss_pred CCCCCHHHHHHHHHHHCCCC
Q ss_conf 13874267899999836622
Q gi|254780941|r 170 TKGHGCDDVLNYLCSTLPLA 189 (311)
Q Consensus 170 k~g~Gid~L~~~L~~~lpe~ 189 (311)
T Consensus 153 ~tG~gI~e~f~~L~~~i~~r 172 (183)
T cd04152 153 IIGEGLQEGLEKLYEMILKR 172 (183)
T ss_pred CCCCCHHHHHHHHHHHHHHH
T ss_conf 97969899999999999999