HHsearch alignment for GI: 254780787 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=99.37 E-value=1.8e-12 Score=103.33 Aligned_cols=149 Identities=19% Similarity=0.203 Sum_probs=98.5
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEECCCEE--EEE-----CCCCEEEEEECCCHHHHHHHHHHHHHCCCCEE
Q ss_conf 89862368504467778864222100123100012149--995-----17843888851661578999866642068059
Q gi|254780787|r 386 VTIMGHVDHGKTSLLDAIRKADVAKGEIGGITQHIGAY--QVA-----YQGKNITFLDTPGHAAFYEMRARGARVTDIAV 458 (884)
Q Consensus 386 v~v~ghvd~GKt~lld~~r~~~~~~~e~ggitq~iga~--~~~-----~~~~~~~~iDtPGh~~f~~~r~rg~~~~d~~i 458 (884)
T Consensus 6 IvilG~~~~GKTsil~r~~~~~f~-----~~~pTiG~~~~~~~~~~~~~~~v~l~iwDtaGqe~~r~l~~~Y~r~a~g~i 80 (183)
T cd04152 6 IVMLGLDSAGKTTVLYRLKFNEFV-----NTVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIV 80 (183)
T ss_pred EEEECCCCCCHHHHHHHHHCCCCC-----CCCCCCCEEEEEEEEECCCCCEEEEEEEECCCCCCCCEEHHHHHCCCCEEE
T ss_conf 999999999889999999649867-----768703557899999616786679999978987345100876746786789
Q ss_pred EEEECCCCC-CHHHHHHH----HHHHHCCCCEEEECCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEEEEECCCCCC
Q ss_conf 999836674-02357778----9899709941561233124433200022100001320001234740363110024774
Q gi|254780787|r 459 LVLAADEEI-MPQAIESI----NHAKAADVSIIVAINKIDKLGADPQKVRMSLLKHDVFVESMGGDILDVEISAKNNLNL 533 (884)
Q Consensus 459 lvv~~~~g~-~~qt~e~~----~~~~~~~~p~iva~nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 (884)
T Consensus 81 ~V~D~td~~~~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~~~~ei~~~l~l~~~--~~~~~~~i~~tSA~tG~gI 158 (183)
T cd04152 81 FVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNALSVSEVEKLLALHEL--SASTPWHVQPACAIIGEGL 158 (183)
T ss_pred EEEECCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHH--HCCCCCEEEEEECCCCCCH
T ss_conf 99967768899999999999973212379629999866777668788999999719998--6669989997279979698
Q ss_pred CCCCCCHH
Q ss_conf 11221000
Q gi|254780787|r 534 DKLLDAIL 541 (884)
Q Consensus 534 ~~~~~~~~ 541 (884)
T Consensus 159 ~e~f~~L~ 166 (183)
T cd04152 159 QEGLEKLY 166 (183)
T ss_pred HHHHHHHH
T ss_conf 99999999