HHsearch alignment for GI: 254780233 and conserved domain: cd04174
>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=98.43 E-value=9.3e-06 Score=56.99 Aligned_cols=153 Identities=16% Similarity=0.210 Sum_probs=90.5
Q ss_pred CCCCC-EEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCEECCCCHHHHHCCCEEEEE-EEEEEECC--EEEEEECCCC
Q ss_conf 02431-49998546898778899999983961423220000038857798709606467-99999899--7999972898
Q gi|254780233|r 16 YMQIR-NIAIIAHVDHGKTTLVDELLKQSGVFRDNQRVSERVMDCNDLEKERGITILAK-VTSIVWND--VRINIVDTPG 91 (624)
Q Consensus 16 ~~~IR-NiaIiaHvDhGKTTL~d~LL~~sG~~~~~~~v~~~vmD~~~~EreRGITI~a~-~~~~~~~~--~~iNiiDTPG 91 (624)
T Consensus 9 p~~~~~KiVlVGD~~VGKTsLl~~~~~--~~F~~~y----------------~pTv~~~~~~~i~v~~~~v~L~lWDTAG 70 (232)
T cd04174 9 PLVMRCKLVLVGDVQCGKTAMLQVLAK--DCYPETY----------------VPTVFENYTAGLETEEQRVELSLWDTSG 70 (232)
T ss_pred CCCEEEEEEEECCCCCCHHHHHHHHHH--CCCCCCC----------------CCCEEEEEEEEEEECCEEEEEEEEECCC
T ss_conf 985588999999899899999999973--9899985----------------8836888899999999999999983899
Q ss_pred CCCCHHHHHHHHHHHCEEEEEEECCCCCCHHHH----HHHHHHHH---CCCCEEEEEECCCCCCCCHHHHHHHHH-----
Q ss_conf 754079999998742178999976878864789----99999997---299789999754366740256899999-----
Q gi|254780233|r 92 HADFGGEVERILCMVESVVVLVDAAEGPMPQTK----FVVGKALK---IGLRPIVVVNKVDRSDARADEVINEVF----- 159 (624)
Q Consensus 92 H~DF~gEVer~l~~~DgaiLvVdA~eGv~~QT~----~vl~~A~~---~~l~~IvvINKiDr~~a~~~~v~~ei~----- 159 (624)
T Consensus 71 qE~y~~lr~~yY~~a~~~ll~Fdvt~---~~Sfe~~~~~Wi~Ei~~~~p~~piiLVGnK~DLr~-d~-~~l~~L~~~~~~ 145 (232)
T cd04174 71 SPYYDNVRPLCYSDSDAVLLCFDISR---PETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRT-DL-STLMELSNQKQA 145 (232)
T ss_pred CCCCCHHHHHHHCCCCEEEEEEECCC---HHHHHHHHHHHHHHHHHHCCCCCEEEEEECHHCCC-CH-HHHHHHHHCCCC
T ss_conf 70100367997406878999996898---79999899999999998689997899987602154-75-778899756888
Q ss_pred --------HHHHHCCCCHHHCCHHHHHHHHHCCEECCCCCCCCCCCCHHHHHHHHC
Q ss_conf --------888622673011042668878865916467422334864135553210
Q gi|254780233|r 160 --------DLFSALDATDAQLDFPILYGSGRFGWMSDSSDGSRDQGMVPLLNLIVD 207 (624)
Q Consensus 160 --------dlf~~l~a~de~ld~Pv~~~Sa~~G~~~~~~~~~~~~gl~~Lld~Ii~ 207 (624)
T Consensus 146 pVt~eeg~~~Ak~iga~------~Y~E~SA~tg----------e~~v~~vF~~a~~ 185 (232)
T cd04174 146 PISYEQGCALAKQLGAE------VYLECSAFTS----------EKSIHSIFRSASL 185 (232)
T ss_pred CCCHHHHHHHHHHCCCC------EEEECCCCCC----------CCCHHHHHHHHHH
T ss_conf 75799999999974997------8998756866----------6259999999999