HHsearch alignment for GI: 254780321 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=98.87 E-value=3.6e-07 Score=67.64 Aligned_cols=159 Identities=22% Similarity=0.239 Sum_probs=99.3
Q ss_pred CCCCHHHCEEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCEEECCCHHHHHHCCEEEEE-EEEEEEECCCCCEEEEEE
Q ss_conf 8998525317999801389877889999998298054444311305867798719505232-799997437884389999
Q gi|254780321|r 4 KPTPLSRIRNFSIVAHIDHGKSTLADRFIQHCRGLTEREMSSQVLDNMDIERERGITIKAQ-TVRLNYTSTDAKDYQLNL 82 (606)
Q Consensus 4 ~~~p~~~IRN~~IiaHvDhGKTTL~d~lL~~tg~i~~~~~~~~vlD~~~~EreRGITIka~-~~~~~~~~~~~~~y~iNl 82 (606)
T Consensus 6 ~~~p~~~~~KiVlVGD~~VGKTsLl~~~~--~~~F~~~y---------------~pTv~~~~~~~i~---v~~~~v~L~l 65 (232)
T cd04174 6 IPQPLVMRCKLVLVGDVQCGKTAMLQVLA--KDCYPETY---------------VPTVFENYTAGLE---TEEQRVELSL 65 (232)
T ss_pred CCCCCCEEEEEEEECCCCCCHHHHHHHHH--HCCCCCCC---------------CCCEEEEEEEEEE---ECCEEEEEEE
T ss_conf 99998558899999989989999999997--39899985---------------8836888899999---9999999999
Q ss_pred EECCCCCHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHH----HHHHH-H--CCCCEEEEECCCCCCCCCCCCHHHHHH
Q ss_conf 6178730027999999973026899998687886558999----99999-7--099679983267887532113388877
Q gi|254780321|r 83 IDTPGHVDFTYEVSRSLSACEGSLLVVDATQGVEAQTLAN----VYQAI-D--NNHEIITVLNKADLPSADPDRVKKQIE 155 (606)
Q Consensus 83 IDTPGH~DF~~EV~r~l~a~dgaiLvVdA~~Gvq~QT~~~----~~~A~-~--~~l~~I~viNKiD~~~A~~e~v~~ei~ 155 (606)
T Consensus 66 WDTAGqE~y~~lr~~yY~~a~~~ll~Fdvt---~~~Sfe~~~~~Wi~Ei~~~~p~~piiLVGnK~DLr~-d~~-~l~~L~ 140 (232)
T cd04174 66 WDTSGSPYYDNVRPLCYSDSDAVLLCFDIS---RPETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRT-DLS-TLMELS 140 (232)
T ss_pred EECCCCCCCCHHHHHHHCCCCEEEEEEECC---CHHHHHHHHHHHHHHHHHHCCCCCEEEEEECHHCCC-CHH-HHHHHH
T ss_conf 838997010036799740687899999689---879999899999999998689997899987602154-757-788997
Q ss_pred H-------------HH-HHHHHHHHHHHHHCCC-CCCHHHHHHHHHH
Q ss_conf 5-------------55-3223210001110022-3200678776321
Q gi|254780321|r 156 E-------------TI-GISTEDALLVSAKTGE-GIPLLLERIVQQL 187 (606)
Q Consensus 156 ~-------------~~-g~~~~~ii~vSAktG~-GV~~LLd~Iv~~i 187 (606)
T Consensus 141 ~~~~~pVt~eeg~~~Ak~iga~~Y~E~SA~tge~~v~~vF~~a~~~~ 187 (232)
T cd04174 141 NQKQAPISYEQGCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLC 187 (232)
T ss_pred HCCCCCCCHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHHHHHHHH
T ss_conf 56888757999999999749978998756866625999999999999