HHsearch alignment for GI: 254780648 and conserved domain: cd04157
>cd04157 Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A
Probab=99.82 E-value=1.9e-20 Score=143.84 Aligned_cols=151 Identities=17% Similarity=0.270 Sum_probs=102.5
Q ss_pred CEEEEECCCCCCCEEEEEECCCCCHHHHHHHCCCEECCE----EEEECCEEEEEECCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf 112442167775303541014540121211000000102----6632986899822642124731167751234433333
Q gi|254780648|r 161 DIGIIGLPNAGKSTFLASVTRAKPKIADYPFTTLYPNLG----IVKEGYKEFILADIPGIIKNAHQGAGIGDRFLKHTER 236 (335)
Q Consensus 161 DVglVG~PNaGKSTLln~ls~ak~kIa~ypFTT~~P~lG----vv~~~~~~~~i~D~PGlIegA~~~~glG~~FLrhIer 236 (335)
T Consensus 1 ~Il~lGl~~sGKTtil~~l~~~~~~~-----~~~~pT~G~~~~~~~~~~~~~~iwD~~G~----~~~r~lw~---~y~~~ 68 (162)
T cd04157 1 NILVVGLDNSGKTTIINQLKPENAQS-----QIIVPTVGFNVESFEKGNLSFTAFDMSGQ----GKYRGLWE---HYYKN 68 (162)
T ss_pred CEEEECCCCCCHHHHHHHHHCCCCCC-----CCCCCCCCEEEEEEEECCEEEEEEECCCC----CCCCHHHH---HHHCC
T ss_conf 99999999998899999997289875-----64168507578999839988999985887----44205589---87056
Q ss_pred HHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHC--CCCEEEEEECCCCCCHHHHHHHHHHHH----HHCCCCEEEEECC
Q ss_conf 5788752022221101346667899877766750--598899997465899889999999999----8629948999888
Q gi|254780648|r 237 THVLLHIVSALEENVQAAYQCILDELSAYNSELR--KKIEIVGLSQIDTVDSDTLARKKNELA----TQCGQVPFEFSSI 310 (335)
Q Consensus 237 ~~vLl~VVD~s~~d~~~~~~~I~~EL~~y~~~L~--~Kp~IIVlNKiDl~~~e~~~~~~~~l~----~~~~~~vi~ISA~ 310 (335)
T Consensus 69 ~~~iI~VvDssd~~~~~~~~~~l~~ll~-~~~~~~~~~PiLI~~NK~D~~~~~~~~ei~~~l~l~~~~~~~~~i~~~SA~ 147 (162)
T cd04157 69 IQGIIFVIDSSDRLRLVVVKDELELLLN-HPDIKHRRVPILFFANKMDLPDALTAVKITQLLGLENIKDKPWHIFASNAL 147 (162)
T ss_pred CCEEEEEEECCCHHHHHHHHHHHHHHHH-CHHHCCCCCEEEEEEECCCCCCCCCHHHHHHHHCHHHHCCCCEEEEEEECC
T ss_conf 7448999707638889999999999971-765517984599998147788999999999885866524896499997897
Q ss_pred CCCCHHHHHHHHHH
Q ss_conf 78899999999999
Q gi|254780648|r 311 TGHGIPQILECLHD 324 (335)
Q Consensus 311 tg~GI~eL~~~I~e 324 (335)
T Consensus 148 tG~Gi~e~f~WL~~ 161 (162)
T cd04157 148 TGEGLDEGVQWLQA 161 (162)
T ss_pred CCCCHHHHHHHHHC
T ss_conf 89798999999865