HHsearch alignment for GI: 254780941 and conserved domain: cd04115
>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine
Probab=99.56 E-value=1e-13 Score=108.54 Aligned_cols=154 Identities=18% Similarity=0.228 Sum_probs=99.8
Q ss_pred EEEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCEE--EEEEEEEEECC--EEEEEEECCCCHHHCCCCCCCCCCHHHHH
Q ss_conf 189983389986889999986892021058888602--12789997399--48999987984010123575321002345
Q gi|254780941|r 23 GCVALVGATNAGKSTLVNRFVGAKVSIVTHKVQTTR--SIVRGIVSEKE--SQIVFLDTPGIFNAKDSYHKLMIRLSWST 98 (311)
Q Consensus 23 g~VaivG~pN~GKSTL~N~l~g~~vsivS~k~~TTr--~~i~gi~~~~~--~qiifvDTPG~~~~~~~l~~~~~~~~~~~ 98 (311)
T Consensus 3 ~Kiv~lGd~~VGKTsli~r~~~~~F~---~~~~~Tig~d~~~k~i~v~~~~v~l~iwDtaG~e~----~~~s---~~~~~ 72 (170)
T cd04115 3 FKIIVIGDSNVGKTCLTYRFCAGRFP---ERTEATIGVDFRERTVEIDGERIKVQLWDTAGQER----FRKS---MVQHY 72 (170)
T ss_pred EEEEEECCCCCCHHHHHHHHHCCCCC---CCCCCCEEEEEEEEEEEECCEEEEEEEEECCCCHH----HHHH---HHHHH
T ss_conf 99999997997799999999539889---98788630787899999999999999997788530----5677---78998
Q ss_pred HHHHHHHCCCCHHHHHHHCC-HHHHHHHHHH----CCCCCEEEEEECCCHHHHHH-HHHHHHHHHCCCCCCCCCCCCC--
Q ss_conf 55532100110000100000-0012234544----28720257872110104345-7888864100123343110001--
Q gi|254780941|r 99 IKHADIVCLVVDSHRELKVN-IHDLLKEIAK----RSSRLILILNKIDCVKPERL-LEQAEIANKLVFIEKTFMVSAT-- 170 (311)
Q Consensus 99 l~~aDiil~VvDa~~~~~~~-~~~il~~l~~----~~~p~IiVlNKiDlv~~~~l-~~~~~~~~~~~~~~~i~~ISAk-- 170 (311)
T Consensus 73 ~~~a~~~ilvydvt~~~Sf~~~~~w~~~i~~~~~~~~~p~vlVGNK~DL~~~r~Vs~~e~~~~a~~~~-~~~~E~SAK~~ 151 (170)
T cd04115 73 YRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHS-MPLFETSAKDP 151 (170)
T ss_pred HCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCHHHCCCCHHHHHHHHHHCC-CEEEEECCCCC
T ss_conf 45773579995047476799999999999986588899799999982134117879999999999779-99999888998
Q ss_pred -CCCCHHHHHHHHHHHCC
Q ss_conf -38742678999998366
Q gi|254780941|r 171 -KGHGCDDVLNYLCSTLP 187 (311)
Q Consensus 171 -~g~Gid~L~~~L~~~lp 187 (311)
T Consensus 152 ~~~~nV~~~F~~la~~i~ 169 (170)
T cd04115 152 SENDHVEAIFMTLAHKLK 169 (170)
T ss_pred CCCCCHHHHHHHHHHHHC
T ss_conf 517088999999999960