HHsearch alignment for GI: 254780321 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=1.5e-11 Score=97.02 Aligned_cols=158 Identities=20% Similarity=0.171 Sum_probs=105.1
Q ss_pred CEEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCEEECCCHHHHHHCCEEEEEEEEEEEECCCCCEEEEEEEECCCCCH
Q ss_conf 31799980138987788999999829805444431130586779871950523279999743788438999961787300
Q gi|254780321|r 11 IRNFSIVAHIDHGKSTLADRFIQHCRGLTEREMSSQVLDNMDIERERGITIKAQTVRLNYTSTDAKDYQLNLIDTPGHVD 90 (606)
Q Consensus 11 IRN~~IiaHvDhGKTTL~d~lL~~tg~i~~~~~~~~vlD~~~~EreRGITIka~~~~~~~~~~~~~~y~iNlIDTPGH~D 90 (606)
T Consensus 6 ~~KivllGd~~VGKTsl~~r~~--~~~f~~~y~~-T----------ig~~~~~k~~-----~~~~~~v~l~iwDtaGqe~ 67 (189)
T cd04121 6 LLKFLLVGDSDVGKGEILASLQ--DGSTESPYGY-N----------MGIDYKTTTI-----LLDGRRVKLQLWDTSGQGR 67 (189)
T ss_pred EEEEEEECCCCCCHHHHHHHHH--CCCCCCCCCC-C----------CCEEEEEEEE-----EECCEEEEEEEECCCCCCC
T ss_conf 9999999989978999999997--4997898687-6----------5379899999-----9999999999981788622
Q ss_pred HHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH---CCCCEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 27999999973026899998687886558999999997---099679983267887532113388877555322321000
Q gi|254780321|r 91 FTYEVSRSLSACEGSLLVVDATQGVEAQTLANVYQAID---NNHEIITVLNKADLPSADPDRVKKQIEETIGISTEDALL 167 (606)
Q Consensus 91 F~~EV~r~l~a~dgaiLvVdA~~Gvq~QT~~~~~~A~~---~~l~~I~viNKiD~~~A~~e~v~~ei~~~~g~~~~~ii~ 167 (606)
T Consensus 68 f~~l~~~y~r~a~~~ilvyDvt~~~Sf~~l~~w~~~i~~~~~~~p~iLVGNK~DL~~~r-~V~~ee~~~~A~~~~~~f~E 146 (189)
T cd04121 68 FCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAFKR-QVATEQAQAYAERNGMTFFE 146 (189)
T ss_pred HHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHCC-CCCHHHHHHHHHHCCCEEEE
T ss_conf 11678988663370489822798899999999999999976898789961325503308-89999999999988999999
Q ss_pred HHHHCCCCCCHHHHHHHHHH
Q ss_conf 11100223200678776321
Q gi|254780321|r 168 VSAKTGEGIPLLLERIVQQL 187 (606)
Q Consensus 168 vSAktG~GV~~LLd~Iv~~i 187 (606)
T Consensus 147 tSAk~g~nV~e~F~~l~~~i 166 (189)
T cd04121 147 VSPLCNFNITESFTELARIV 166 (189)
T ss_pred ECCCCCCCHHHHHHHHHHHH
T ss_conf 60067939899999999999