HHsearch alignment for GI: 254780233 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=99.09  E-value=1.6e-09  Score=81.76  Aligned_cols=154  Identities=14%  Similarity=0.119  Sum_probs=100.6

Q ss_pred             CEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCEECCCCHHHHHCCCEEEEEEEEEEECCEEEEEECCCCCCCCHHHH
Q ss_conf             14999854689877889999998396142322000003885779870960646799999899799997289875407999
Q gi|254780233|r   20 RNIAIIAHVDHGKTTLVDELLKQSGVFRDNQRVSERVMDCNDLEKERGITILAKVTSIVWNDVRINIVDTPGHADFGGEV   99 (624)
Q Consensus        20 RNiaIiaHvDhGKTTL~d~LL~~sG~~~~~~~v~~~vmD~~~~EreRGITI~a~~~~~~~~~~~iNiiDTPGH~DF~gEV   99 (624)
T Consensus         7 ~KivllGd~~VGKTsl~~r~~--~~~f~~~y~~------------Tig~~~~~k~~~~~~~~v~l~iwDtaGqe~f~~l~   72 (189)
T cd04121           7 LKFLLVGDSDVGKGEILASLQ--DGSTESPYGY------------NMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIF   72 (189)
T ss_pred             EEEEEECCCCCCHHHHHHHHH--CCCCCCCCCC------------CCCEEEEEEEEEECCEEEEEEEECCCCCCCHHHHH
T ss_conf             999999989978999999997--4997898687------------65379899999999999999998178862211678


Q ss_pred             HHHHHHHCEEEEEEECCCCCCHHHH---HHHHHHH---HCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCHHHCC
Q ss_conf             9998742178999976878864789---9999999---729978999975436674025689999988862267301104
Q gi|254780233|r  100 ERILCMVESVVVLVDAAEGPMPQTK---FVVGKAL---KIGLRPIVVVNKVDRSDARADEVINEVFDLFSALDATDAQLD  173 (624)
Q Consensus       100 er~l~~~DgaiLvVdA~eGv~~QT~---~vl~~A~---~~~l~~IvvINKiDr~~a~~~~v~~ei~dlf~~l~a~de~ld  173 (624)
T Consensus        73 ~~y~r~a~~~ilvyDvt~~---~Sf~~l~~w~~~i~~~~~~~p~iLVGNK~DL~~~r~-V~~ee~~~~A~-------~~~  141 (189)
T cd04121          73 RSYSRGAQGIILVYDITNR---WSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAFKRQ-VATEQAQAYAE-------RNG  141 (189)
T ss_pred             HHHHHHCCCEEEEECCCCH---HHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHCCC-CCHHHHHHHHH-------HCC
T ss_conf             9886633704898227988---999999999999999768987899613255033088-99999999999-------889


Q ss_pred             HHHHHHHHHCCEECCCCCCCCCCCCHHHHHHHHCCC
Q ss_conf             266887886591646742233486413555321024
Q gi|254780233|r  174 FPILYGSGRFGWMSDSSDGSRDQGMVPLLNLIVDHV  209 (624)
Q Consensus       174 ~Pv~~~Sa~~G~~~~~~~~~~~~gl~~Lld~Ii~~i  209 (624)
T Consensus       142 ~~f~EtSAk~g-----------~nV~e~F~~l~~~i  166 (189)
T cd04121         142 MTFFEVSPLCN-----------FNITESFTELARIV  166 (189)
T ss_pred             CEEEEECCCCC-----------CCHHHHHHHHHHHH
T ss_conf             99999600679-----------39899999999999