HHsearch alignment for GI: 254780809 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=99.41 E-value=2.2e-12 Score=105.66 Aligned_cols=136 Identities=17% Similarity=0.183 Sum_probs=95.3
Q ss_pred CCEEEECCCCCCHHHHHHHHHCCHHCCCCCCCCCC-EEECCCCCCCCCE--EEEEEECCHHCCCCHHHHHHHHHHHHHHH
Q ss_conf 30243114663188899998552000234546872-1100012456835--89995081000241035666678889985
Q gi|254780809|r 220 YKIVILGHSNAGKSSLFNALAKKDVAIVTDIPGTT-RDVLTIDLDLEGY--LVKISDTAGIRETDDIVEKEGIKRTFLEV 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 7 ~KivllGd~~VGKTsl~~r~~~~~f--~~~y~~Tig~~~~~k~~~~~~~~v~l~iwDtaGqe~f~--------~l~~~y~ 76 (189)
T cd04121 7 LKFLLVGDSDVGKGEILASLQDGST--ESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFC--------TIFRSYS 76 (189)
T ss_pred EEEEEECCCCCCHHHHHHHHHCCCC--CCCCCCCCCEEEEEEEEEECCEEEEEEEECCCCCCCHH--------HHHHHHH
T ss_conf 9999999899789999999974997--89868765379899999999999999998178862211--------6789886
Q ss_pred HHHCCEEECCCCCCHHHHHH-----------HCCCCCCCCCCCCCCCCCCCHH-------------HHHHHHHHHHHHHH
Q ss_conf 03011020135898566343-----------1289853222233344654200-------------00013333232358
Q gi|254780809|r 297 ENADLILLLKEINSKKEISF-----------PKNIDFIFIGTKSDLYSTYTEE-------------YDHLISSFTGEGLE 352 (440)
Q Consensus 297 ~~aDlil~v~D~~~~~~~~~-----------~~~~~~i~V~NK~Dl~~~~~~~-------------~~~~ISaktg~Gi~ 352 (440)
T Consensus 77 r~a~~~ilvyDvt~~~Sf~~l~~w~~~i~~~~~~~p~iLVGNK~DL~~~r~V~~ee~~~~A~~~~~~f~EtSAk~g~nV~ 156 (189)
T cd04121 77 RGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNIT 156 (189)
T ss_pred HHCCCEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHCCCCCHHHHHHHHHHCCCEEEEECCCCCCCHH
T ss_conf 63370489822798899999999999999976898789961325503308899999999999889999996006793989
Q ss_pred HHHHHHHHHHHHH
Q ss_conf 9999999996322
Q gi|254780809|r 353 ELINKIKSILSNK 365 (440)
Q Consensus 353 ~L~~~I~~~l~~~ 365 (440)
T Consensus 157 e~F~~l~~~il~~ 169 (189)
T cd04121 157 ESFTELARIVLMR 169 (189)
T ss_pred HHHHHHHHHHHHH
T ss_conf 9999999999986