HHsearch alignment for GI: 254780824 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=94.44  E-value=0.11  Score=30.87  Aligned_cols=84  Identities=12%  Similarity=0.089  Sum_probs=51.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHH---HCCCCCCEEEEEEECCCCHHHHHCCCHHHHCC--CCEE
Q ss_conf             999878786889999999976078885302452020110---03788608999865178977753058367508--9789
Q gi|254780824|r   36 LTLSGDLGSGKSFLARSIIRFLMHDDALEVLSPTFTLVQ---LYDASIPVAHFDFYRLSSHQEVVELGFDEILN--ERIC  110 (162)
Q Consensus        36 i~L~GdLGaGKTtfvr~i~~~lg~~~~~~V~SPTF~l~~---~Y~~~~~i~H~DlYRL~~~~E~~~lg~~e~~~--~~i~  110 (162)
T Consensus         9 ivllGd~~VGKTsl~~r~~~~~f~~~----y~~Tig~~~~~k~~~~~~~~v~l~iwDtaGqe~f~~l~-~~y~r~a~~~i   83 (189)
T cd04121           9 FLLVGDSDVGKGEILASLQDGSTESP----YGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIF-RSYSRGAQGII   83 (189)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCCCCC----CCCCCCEEEEEEEEEECCEEEEEEEECCCCCCCHHHHH-HHHHHHCCCEE
T ss_conf             99999899789999999974997898----68765379899999999999999998178862211678-98866337048


Q ss_pred             EE-------------ECHHHHHCCCCC
Q ss_conf             99-------------985563204995
Q gi|254780824|r  111 II-------------EWPEIGRSLLPK  124 (162)
Q Consensus       111 lI-------------EWpe~~~~~lp~  124 (162)
T Consensus        84 lvyDvt~~~Sf~~l~~w~~~i~~~~~~  110 (189)
T cd04121          84 LVYDITNRWSFDGIDRWIKEIDEHAPG  110 (189)
T ss_pred             EEECCCCHHHHHHHHHHHHHHHHHCCC
T ss_conf             982279889999999999999997689