HHsearch alignment for GI: 254780725 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=95.98 E-value=0.12 Score=29.30 Aligned_cols=112 Identities=14% Similarity=0.222 Sum_probs=76.0
Q ss_pred CCCEEEECCCCC--CCHHHHHHHHHCCCCCCCCC-CCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCHHHHHH
Q ss_conf 288899738888--89899999862012543578-776889999999999998198767538999565898752005999
Q gi|254780725|r 274 IFPLVILDVPHV--WNSWTQEVLTLSDKVVITTS-LDLAGLRNSKNLIDVLKKLRPADKPPYLVLNQVKTPKKPEISISD 350 (427)
Q Consensus 274 ~yd~VIiD~p~~--~~~~~~~~L~~AD~vviV~~-p~~~slr~a~~ll~~l~~~~~~~~~~~iVlNr~~~~~~~~i~~~~ 350 (427)
T Consensus 54 ~v~l~iwDtaGqe~f~~l~~~y~r~a~~~ilvyDvt~~~Sf~~l~~w~~~i~~~~~~-~p~iLVGNK~DL~~~r~V~~e- 131 (189)
T cd04121 54 RVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPG-VPKILVGNRLHLAFKRQVATE- 131 (189)
T ss_pred EEEEEEECCCCCCCHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHHHCCC-CCEEEEEECCCHHHCCCCCHH-
T ss_conf 999999817886221167898866337048982279889999999999999997689-878996132550330889999-
Q ss_pred HHHHHCCCEEEEECCCHHHHHHHHHCCCCEEEECCCC--HHHHHHHHHHHHHHCCC
Q ss_conf 9998489537990687999999884796189888999--89999999999985221
Q gi|254780725|r 351 FCAPLGITPSAIIPFDGAVFGMSANSGKMIHEVDPKS--AIANLLVDFSRVLMGRV 404 (427)
Q Consensus 351 ~~~~lg~~~~~~IP~D~~~~~~A~~~G~pi~e~~p~s--~~a~~~~~La~~i~gr~ 404 (427)
T Consensus 132 -----------------e~~~~A~~~~~~f~EtSAk~g~nV~e~F~~l~~~il~~~ 170 (189)
T cd04121 132 -----------------QAQAYAERNGMTFFEVSPLCNFNITESFTELARIVLMRH 170 (189)
T ss_pred -----------------HHHHHHHHCCCEEEEECCCCCCCHHHHHHHHHHHHHHHC
T ss_conf -----------------999999988999999600679398999999999999865