HHsearch alignment for GI: 254780226 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=97.97 E-value=0.00017 Score=50.02 Aligned_cols=149 Identities=17% Similarity=0.231 Sum_probs=87.5
Q ss_pred CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf 24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r 3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS 82 (367)
Q Consensus 3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~ 82 (367)
T Consensus 7 ~KivllGd~~VGKTsl~~r~~~~--~f~~~y~-----~Tig~~~~~k------~~~~~~~---~v~l~iwDtaGq----e 66 (189)
T cd04121 7 LKFLLVGDSDVGKGEILASLQDG--STESPYG-----YNMGIDYKTT------TILLDGR---RVKLQLWDTSGQ----G 66 (189)
T ss_pred EEEEEECCCCCCHHHHHHHHHCC--CCCCCCC-----CCCCEEEEEE------EEEECCE---EEEEEEECCCCC----C
T ss_conf 99999998997899999999749--9789868-----7653798999------9999999---999999817886----2
Q ss_pred CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf 24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r 83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL 162 (367)
Q Consensus 83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~ 162 (367)
T Consensus 67 ~f~~l~~---~y~r~a~~~ilvyDvt~~~S-------------f------------~~l~-~w----------------- 100 (189)
T cd04121 67 RFCTIFR---SYSRGAQGIILVYDITNRWS-------------F------------DGID-RW----------------- 100 (189)
T ss_pred CHHHHHH---HHHHHCCCEEEEECCCCHHH-------------H------------HHHH-HH-----------------
T ss_conf 2116789---88663370489822798899-------------9------------9999-99-----------------
Q ss_pred HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf 99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r 163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA 242 (367)
Q Consensus 163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa 242 (367)
T Consensus 101 -------~~~i~~----------~~-------------~~~p~iLVGNK~DL~~-~r~V~~ee~~~~A~~~~~~f~EtSA 149 (189)
T cd04121 101 -------IKEIDE----------HA-------------PGVPKILVGNRLHLAF-KRQVATEQAQAYAERNGMTFFEVSP 149 (189)
T ss_pred -------HHHHHH----------HC-------------CCCCEEEEEECCCHHH-CCCCCHHHHHHHHHHCCCEEEEECC
T ss_conf -------999999----------76-------------8987899613255033-0889999999999988999999600
Q ss_pred HHHHHH
Q ss_conf 024665
Q gi|254780226|r 243 AIEAEI 248 (367)
Q Consensus 243 ~~E~ei 248 (367)
T Consensus 150 k~g~nV 155 (189)
T cd04121 150 LCNFNI 155 (189)
T ss_pred CCCCCH
T ss_conf 679398