HHsearch alignment for GI: 254780809 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=99.35  E-value=6.5e-12  Score=102.47  Aligned_cols=135  Identities=19%  Similarity=0.274  Sum_probs=92.8

Q ss_pred             CCEEEECCCCCCHHHHHHHHHCCHHCCCCCCCCCC-EEECCCCCCCCC--EEEEEEECCHHCCCCHHHHHHHHHHHHHHH
Q ss_conf             30243114663188899998552000234546872-110001245683--589995081000241035666678889985
Q gi|254780809|r  220 YKIVILGHSNAGKSSLFNALAKKDVAIVTDIPGTT-RDVLTIDLDLEG--YLVKISDTAGIRETDDIVEKEGIKRTFLEV  296 (440)
Q Consensus       220 ~~v~i~G~pN~GKSSL~N~L~~~~~aIVs~~~GTT-RD~i~~~~~i~g--~~~~l~DTaGir~t~d~IE~~GI~ra~~~i  296 (440)
T Consensus         3 ~Kiv~lGd~~VGKTsli~r~~~~~F--~~~~~~Tig~d~~~k~i~v~~~~v~l~iwDtaG~e~~~-------~s~~~~~~   73 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCAGRF--PERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFR-------KSMVQHYY   73 (170)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCCCC--CCCCCCCEEEEEEEEEEEECCEEEEEEEEECCCCHHHH-------HHHHHHHH
T ss_conf             9999999799779999999953988--99878863078789999999999999999778853056-------77789984


Q ss_pred             HHHCCEEECCCCCCHHHHHH-------------HCCCCCCCCCCCCCCCCCCCHH-------------HHHHHHHH---H
Q ss_conf             03011020135898566343-------------1289853222233344654200-------------00013333---2
Q gi|254780809|r  297 ENADLILLLKEINSKKEISF-------------PKNIDFIFIGTKSDLYSTYTEE-------------YDHLISSF---T  347 (440)
Q Consensus       297 ~~aDlil~v~D~~~~~~~~~-------------~~~~~~i~V~NK~Dl~~~~~~~-------------~~~~ISak---t  347 (440)
T Consensus        74 ~~a~~~ilvydvt~~~Sf~~~~~w~~~i~~~~~~~~~p~vlVGNK~DL~~~r~Vs~~e~~~~a~~~~~~~~E~SAK~~~~  153 (170)
T cd04115          74 RNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSE  153 (170)
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCHHHCCCCHHHHHHHHHHCCCEEEEECCCCCCC
T ss_conf             57735799950474767999999999999865888997999999821341178799999999997799999988899851


Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             3235899999999963
Q gi|254780809|r  348 GEGLEELINKIKSILS  363 (440)
Q Consensus       348 g~Gi~~L~~~I~~~l~  363 (440)
T Consensus       154 ~~nV~~~F~~la~~i~  169 (170)
T cd04115         154 NDHVEAIFMTLAHKLK  169 (170)
T ss_pred             CCCHHHHHHHHHHHHC
T ss_conf             7088999999999960