HHsearch alignment for GI: 254780264 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=98.61 E-value=1e-06 Score=61.90 Aligned_cols=115 Identities=21% Similarity=0.284 Sum_probs=76.1
Q ss_pred HEEEEEEECCCCCCHHHHHHHHHHHCCCCCCCCEECCCCEECCCHHHHHHHCCCEEEEEEEEEECCCCCCCEEEEEEECC
Q ss_conf 25279998687889778999999980873214220179561378088987085376407999960777871389998179
Q gi|254780264|r 9 DSRNFGIMAHIDAGKTTTTERILYYAGKSHKIGEVHDGSATMDWMEQEQERGITITSASTTVFWPGRDGGQKKLTIIDTP 88 (701)
Q Consensus 9 ~iRNv~iiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~g~~~~D~~~~E~eRgITi~ss~~sl~~~~~~~~~~~iNlIDTP 88 (701)
T Consensus 5 y~~KivllGd~~VGKTsl~~r~~~--~~f~~------~--y~~------Tig~~~~~k~~~--~---~~~~v~l~iwDta 63 (189)
T cd04121 5 YLLKFLLVGDSDVGKGEILASLQD--GSTES------P--YGY------NMGIDYKTTTIL--L---DGRRVKLQLWDTS 63 (189)
T ss_pred EEEEEEEECCCCCCHHHHHHHHHC--CCCCC------C--CCC------CCCEEEEEEEEE--E---CCEEEEEEEECCC
T ss_conf 899999999899789999999974--99789------8--687------653798999999--9---9999999998178
Q ss_pred CCCCCHHHHHHHHHHHCEEEEEEECCCCCCHHHHHHH-HHHH--HCCCCEEEEECCCCC
Q ss_conf 8755289999999860456999955888883479999-9998--739978999817676
Q gi|254780264|r 89 GHVDFTMEVERSIRVTDGAIALLDSNAGVEPQTETVW-RQAD--KYSVPRVIFCNKMDK 144 (701)
Q Consensus 89 GH~DF~~Ev~~aL~~~DgailvVDa~eGv~~qT~~vl-r~~~--~~~lp~ilvINKiDr 144 (701)
T Consensus 64 Gqe~f~~l~~~y~r~a~~~ilvyDvt~~~Sf~~l~~w~~~i~~~~~~~p~iLVGNK~DL 122 (189)
T cd04121 64 GQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHL 122 (189)
T ss_pred CCCCHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCH
T ss_conf 86221167898866337048982279889999999999999997689878996132550