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