HHsearch alignment for GI: 254780263 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=98.87  E-value=1.2e-08  Score=72.61  Aligned_cols=143  Identities=17%  Similarity=0.192  Sum_probs=88.2

Q ss_pred             EEEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCCEEE--EEEEEEEC--CCEEEEEEECCCCHHHHHH
Q ss_conf             2799999046898878999999876444200131268686986292063--78999821--9908999847873024677
Q gi|254780263|r   12 SLGLSTIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITIA--TAHVSYET--DKRFYSHIDCPGHADYVKN   87 (392)
Q Consensus        12 ~~ni~~iGhvd~GKSTL~~~L~~~~~~~~~~~~~~D~~~~E~~rGiTi~--~~~~~~~~--~~~~i~iiD~PGH~~f~~~   87 (392)
T Consensus         2 ~~Kiv~lGd~~VGKTsli~r~~~~------------~F~~~~~--~Tig~d~~~k~i~v~~~~v~l~iwDtaG~e~~~~s   67 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAG------------RFPERTE--ATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKS   67 (170)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCC------------CCCCCCC--CCEEEEEEEEEEEECCEEEEEEEEECCCCHHHHHH
T ss_conf             699999997997799999999539------------8899878--86307878999999999999999977885305677


Q ss_pred             HHHH-HHCCCCEEEEECCCCCCCCCHHHHH----HHHHH----CCCCCEEEEECCCCCCCCHHHHHHCCCCCCEEEEEEE
Q ss_conf             9877-4002331452012344332106778----88863----1876023310023335612221101232100111014
Q gi|254780263|r   88 MITG-ATQADGAILVCAAEDGPKPQTREHI----LLARQ----IGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHK  158 (392)
Q Consensus        88 mi~g-~~~~D~ailvVda~~G~~~QT~eh~----~l~~~----lgi~~iIv~iNKmD~v~~~~~~~~i~~~i~~~l~~~~  158 (392)
T Consensus        68 ~~~~~~~~a~~~ilvydvt~~---~Sf~~~~~w~~~i~~~~~~~~~p-~vlVGNK~DL~~~r~---Vs~~e~~~~a~~~-  139 (170)
T cd04115          68 MVQHYYRNVHAVVFVYDVTNM---ASFHSLPSWIEECEQHSLPNEVP-RILVGNKCDLREQIQ---VPTDLAQRFADAH-  139 (170)
T ss_pred             HHHHHHCCCCEEEEEEECCCH---HHHHHHHHHHHHHHHHCCCCCCC-EEEEEECCCCHHHCC---CCHHHHHHHHHHC-
T ss_conf             789984577357999504747---67999999999999865888997-999999821341178---7999999999977-


Q ss_pred             EEEEEECCCCEEEEEEECCCC
Q ss_conf             532210233114676411444
Q gi|254780263|r  159 YSDDTPIIRGSALCALQGTNK  179 (392)
Q Consensus       159 ~~~~~pii~~sa~~g~~~~n~  179 (392)
T Consensus       140 ---~~~~~E~SAK~~~~~~nV  157 (170)
T cd04115         140 ---SMPLFETSAKDPSENDHV  157 (170)
T ss_pred             ---CCEEEEECCCCCCCCCCH
T ss_conf             ---999999888998517088