HHsearch alignment for GI: 254780648 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=1.5e-14  Score=108.08  Aligned_cols=153  Identities=15%  Similarity=0.118  Sum_probs=109.8

Q ss_pred             EEEEECCCCCCCEEEEEECCCCCHHHHHHHCCCEECCE------EEEECC--EEEEEECCCCCCCCCCCCCCCHHHHHH-
Q ss_conf             12442167775303541014540121211000000102------663298--689982264212473116775123443-
Q gi|254780648|r  162 IGIIGLPNAGKSTFLASVTRAKPKIADYPFTTLYPNLG------IVKEGY--KEFILADIPGIIKNAHQGAGIGDRFLK-  232 (335)
Q Consensus       162 VglVG~PNaGKSTLln~ls~ak~kIa~ypFTT~~P~lG------vv~~~~--~~~~i~D~PGlIegA~~~~glG~~FLr-  232 (335)
T Consensus         5 iv~lGd~~VGKTsli~r~~~~~F-~~~~-----~~Tig~d~~~k~i~v~~~~v~l~iwDtaG~e~-------~~~s~~~~   71 (170)
T cd04115           5 IIVIGDSNVGKTCLTYRFCAGRF-PERT-----EATIGVDFRERTVEIDGERIKVQLWDTAGQER-------FRKSMVQH   71 (170)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCC-CCCC-----CCCEEEEEEEEEEEECCEEEEEEEEECCCCHH-------HHHHHHHH
T ss_conf             99999799779999999953988-9987-----88630787899999999999999997788530-------56777899


Q ss_pred             HHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHH-HHHHHHHHHHHCCCCEEEEECC-
Q ss_conf             33335788752022221101346667899877766750598899997465899889-9999999998629948999888-
Q gi|254780648|r  233 HTERTHVLLHIVSALEENVQAAYQCILDELSAYNSELRKKIEIVGLSQIDTVDSDT-LARKKNELATQCGQVPFEFSSI-  310 (335)
Q Consensus       233 hIer~~vLl~VVD~s~~d~~~~~~~I~~EL~~y~~~L~~Kp~IIVlNKiDl~~~e~-~~~~~~~l~~~~~~~vi~ISA~-  310 (335)
T Consensus        72 ~~~~a~~~ilvydvt~~~Sf~~~~~w~~~i~~~~~~-~~~p~vlVGNK~DL~~~r~Vs~~e~~~~a~~~~~~~~E~SAK~  150 (170)
T cd04115          72 YYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLP-NEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKD  150 (170)
T ss_pred             HHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHCCC-CCCCEEEEEECCCCHHHCCCCHHHHHHHHHHCCCEEEEECCCC
T ss_conf             845773579995047476799999999999986588-8997999999821341178799999999997799999988899


Q ss_pred             --CCCCHHHHHHHHHHHHHH
Q ss_conf             --788999999999999985
Q gi|254780648|r  311 --TGHGIPQILECLHDKIFS  328 (335)
Q Consensus       311 --tg~GI~eL~~~I~e~L~~  328 (335)
T Consensus       151 ~~~~~nV~~~F~~la~~i~~  170 (170)
T cd04115         151 PSENDHVEAIFMTLAHKLKS  170 (170)
T ss_pred             CCCCCCHHHHHHHHHHHHCC
T ss_conf             85170889999999999609