HHsearch alignment for GI: 254780484 and conserved domain: cd04121
>cd04121 Rab40 Rab40 subfamily. This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. 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 nucleotide d
Probab=99.55 E-value=4.6e-14 Score=99.99 Aligned_cols=158 Identities=13% Similarity=0.076 Sum_probs=87.0
Q ss_pred CCEEEEECCCCCCHHHHHHHHHCCCCEEEECCCCCEEEECCEEEEEEEEEEEECCCEEEEEECCHHHHHHHHHHHHHHHH
Q ss_conf 86899974899889899999738973798738884145212026655567850896499997600101112244789888
Q gi|254780484|r 29 PPEIAFSGRSNVGKSSLINILVNRKNLARTSNAPGRTQHLNFFVPKDFSNLKNNLPAMALVDMPGYGYARAPKKNVDSWG 108 (212)
Q Consensus 29 ~p~VaivG~~NvGKSSLiNaL~g~~~~a~~~~~p~tt~~~~~~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~ 108 (212)
T Consensus 6 ~~KivllGd~~VGKTsl~~r~~~~~f~~--~y~~Tig~~----~~~k~~~~~~~~v~l~iwDtaGqe~f~~l~~~y~--- 76 (189)
T cd04121 6 LLKFLLVGDSDVGKGEILASLQDGSTES--PYGYNMGID----YKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYS--- 76 (189)
T ss_pred EEEEEEECCCCCCHHHHHHHHHCCCCCC--CCCCCCCEE----EEEEEEEECCEEEEEEEECCCCCCCHHHHHHHHH---
T ss_conf 9999999989978999999997499789--868765379----8999999999999999981788622116789886---
Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCC--CCHHHHHHHHHH-CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 8998777766420000011223578--875454554321-0257532212222111102468999999999975313689
Q gi|254780484|r 109 GLIVRYLSERSTLRCVYLLIDCRHG--VKQIDQDVFSFL-DKKAVSYQIVLTKIDKLSPTTAQETLEKTKYLIRNYPTAH 185 (212)
Q Consensus 109 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~-~~~~~~~~~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~ 185 (212)
T Consensus 77 ----------r~a~~~ilvyDvt~~~Sf~~l~~w~~~i~~~~~~~p~iLVGNK~DL~~~r~V~--~ee~~~~A~~---~~ 141 (189)
T cd04121 77 ----------RGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAFKRQVA--TEQAQAYAER---NG 141 (189)
T ss_pred ----------HHCCCEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHCCCCC--HHHHHHHHHH---CC
T ss_conf ----------63370489822798899999999999999976898789961325503308899--9999999998---89
Q ss_pred CCEEEEECCCCCCHHHHHHHHHHHH
Q ss_conf 8689998888899899999999872
Q gi|254780484|r 186 PEVIPTSSVKRKGIEVLRKAILETI 210 (212)
Q Consensus 186 ~~i~~vSA~~g~Gi~eL~~~I~~~l 210 (212)
T Consensus 142 ~~f~EtSAk~g~nV~e~F~~l~~~i 166 (189)
T cd04121 142 MTFFEVSPLCNFNITESFTELARIV 166 (189)
T ss_pred CEEEEECCCCCCCHHHHHHHHHHHH
T ss_conf 9999960067939899999999999