HHsearch alignment for GI: 254780263 and conserved domain: cd04161

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.
Probab=98.98  E-value=1.8e-09  Score=77.75  Aligned_cols=140  Identities=24%  Similarity=0.261  Sum_probs=85.9

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCCEEEEEEEEEECCCEEEEEEECCCCHHHHHHHHHHHHC
Q ss_conf             99990468988789999998764442001312686869862920637899982199089998478730246779877400
Q gi|254780263|r   15 LSTIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQ   94 (392)
Q Consensus        15 i~~iGhvd~GKSTL~~~L~~~~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~iiD~PGH~~f~~~mi~g~~~   94 (392)
T Consensus         2 ililGLd~aGKTTil~~l~~~~---------~------~~~~PT~G~~~~~~~~~~~~l~~~DlgG~~~~R~lW~~Y~~~   66 (167)
T cd04161           2 LLTVGLDNAGKTTLVSALQGEI---------P------KKVAPTVGFTPTKLRLDKYEVCIFDLGGGANFRGIWVNYYAE   66 (167)
T ss_pred             EEEEEECCCCHHHHHHHHCCCC---------C------CCCCCCCCCCEEEEEECCEEEEEEECCCCHHHHHHHHHHCCC
T ss_conf             8999008998899999982899---------8------765087773179999899999999899877888999987347


Q ss_pred             CCCEEEEECCCC-CCCCCHHHHHHHH----HHCCCCCEEEEECCCCCCCC---HHHHHHCCCCCCEEEEEEEEEEEEECC
Q ss_conf             233145201234-4332106778888----63187602331002333561---222110123210011101453221023
Q gi|254780263|r   95 ADGAILVCAAED-GPKPQTREHILLA----RQIGISSIVVYMNKVDAVDD---DELLDISEYEIRDLLKEHKYSDDTPII  166 (392)
Q Consensus        95 ~D~ailvVda~~-G~~~QT~eh~~l~----~~lgi~~iIv~iNKmD~v~~---~~~~~~i~~~i~~~l~~~~~~~~~pii  166 (392)
T Consensus        67 ~~gIIfVVDssD~~rl~eak~~L~~lL~~~~l~~~P-iLIlaNKqDl~~a~~~~ei~~~L--~L~~l~~~~--~~~~~I~  141 (167)
T cd04161          67 AHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKP-ILVLANKQDKKNALLGADVIEYL--SLEKLVNEN--KSLCHIE  141 (167)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHCCHHHCCCE-EEEEEECCCCCCCCCHHHHHHHH--CCHHHCCCC--CCEEEEE
T ss_conf             765799985575889999999999996588778995-99998865761589999999881--974240899--8637999


Q ss_pred             CCEEEEEE
Q ss_conf             31146764
Q gi|254780263|r  167 RGSALCAL  174 (392)
Q Consensus       167 ~~sa~~g~  174 (392)
T Consensus       142 ~csA~tG~  149 (167)
T cd04161         142 PCSAIEGL  149 (167)
T ss_pred             ECEEECCC
T ss_conf             57644488