HHsearch alignment for GI: 254780264 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=98.18 E-value=5.8e-05 Score=50.58 Aligned_cols=116 Identities=13% Similarity=0.087 Sum_probs=76.0
Q ss_pred CHHHEE-EEEEECCCCCCHHHHHHHHHHHCCCCCCCCEECCCCEECCCHHHHHHHCCCEEEE-EEEEEECCCCCCCEEEE
Q ss_conf 710252-7999868788977899999998087321422017956137808898708537640-79999607778713899
Q gi|254780264|r 6 KIEDSR-NFGIMAHIDAGKTTTTERILYYAGKSHKIGEVHDGSATMDWMEQEQERGITITSA-STTVFWPGRDGGQKKLT 83 (701)
Q Consensus 6 ~~e~iR-Nv~iiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~g~~~~D~~~~E~eRgITi~ss-~~sl~~~~~~~~~~~iN 83 (701)
T Consensus 8 ~p~~~~~KiVlVGD~~VGKTsLl~~~~~~--~F~~--~------y----------~pTv~~~~~~~i~v---~~~~v~L~ 64 (232)
T cd04174 8 QPLVMRCKLVLVGDVQCGKTAMLQVLAKD--CYPE--T------Y----------VPTVFENYTAGLET---EEQRVELS 64 (232)
T ss_pred CCCCEEEEEEEECCCCCCHHHHHHHHHHC--CCCC--C------C----------CCCEEEEEEEEEEE---CCEEEEEE
T ss_conf 99855889999998998999999999739--8999--8------5----------88368888999999---99999999
Q ss_pred EEECCCCCCCHHHHHHHHHHHCEEEEEEECCCCCCHHH-HHHHH-HHH--HCCCCEEEEECCCCC
Q ss_conf 98179875528999999986045699995588888347-99999-998--739978999817676
Q gi|254780264|r 84 IIDTPGHVDFTMEVERSIRVTDGAIALLDSNAGVEPQT-ETVWR-QAD--KYSVPRVIFCNKMDK 144 (701)
Q Consensus 84 lIDTPGH~DF~~Ev~~aL~~~DgailvVDa~eGv~~qT-~~vlr-~~~--~~~lp~ilvINKiDr 144 (701)
T Consensus 65 lWDTAGqE~y~~lr~~yY~~a~~~ll~Fdvt~~~Sfe~~~~~Wi~Ei~~~~p~~piiLVGnK~DL 129 (232)
T cd04174 65 LWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCPSTRILLIGCKTDL 129 (232)
T ss_pred EEECCCCCCCCHHHHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEECHHC
T ss_conf 98389970100367997406878999996898799998999999999986899978999876021