HHsearch alignment for GI: 254780916 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=90.33 E-value=1.5 Score=23.56 Aligned_cols=117 Identities=11% Similarity=0.103 Sum_probs=52.8
Q ss_pred EEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCC-----CCHHHHHCCCCCCCCCCCC----CCCCCCCCCC
Q ss_conf 048873277743679999998426754332101234655421-----0024331125555322111----0012344667
Q gi|254780916|r 164 IPIMIQGEFGVGKKRLSRFIHESGKRAFFPFFIVNCGMIDQD-----KIEKFLFGDVDLQTKNSAQ----FLGKFIEANG 234 (482)
Q Consensus 164 ~~vli~Ge~GtGK~~~A~~iH~~s~r~~~~fi~v~c~~~~~~-----~~e~~lFG~~~~~~~~~~~----~~g~~~~a~~ 234 (482)
T Consensus 4 ~kIvilG~~~~GKTsil~r~~~~~f~~~~pTiG~~~~~~~~~~~~~~~v~l~iwD-----taGqe~~r~l~~~Y~r~a~g 78 (183)
T cd04152 4 LHIVMLGLDSAGKTTVLYRLKFNEFVNTVPTKGFNTEKIKVSLGNSKGITFHFWD-----VGGQEKLRPLWKSYTRCTDG 78 (183)
T ss_pred EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEEEECCCCCEEEEEEEE-----CCCCCCCCEEHHHHHCCCCE
T ss_conf 9999999999988999999964986776870355789999961678667999997-----89873451008767467867
Q ss_pred CEEEECCCCHHHH-HHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHH
Q ss_conf 1475166420018-89998888776420011235532123431565214332111111233
Q gi|254780916|r 235 GTIVLEEPDALPL-AVQGRIYNFIETGKIEFFDSRGAIRLDVRLIFLTEKNLLPQVKSHVF 294 (482)
Q Consensus 235 Gtl~l~ei~~L~~-~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiIa~t~~~L~~~~~~g~f 294 (482)
T Consensus 79 ~i~V~D~td~~~~~~~~~~l~~~~~~~------~~~~~p---iliv~NK~Dl~~~~~~~ei 130 (183)
T cd04152 79 IVFVVDSVDVERMEEAKTELHKITRFS------ENQGVP---VLVLANKQDLPNALSVSEV 130 (183)
T ss_pred EEEEEECCCHHHHHHHHHHHHHHHHCC------CCCCCE---EEEEEECCCCCCCCCHHHH
T ss_conf 899996776889999999999997321------237962---9999866777668788999