HHsearch alignment for GI: 254780787 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=98.83 E-value=2.7e-08 Score=74.74 Aligned_cols=149 Identities=17% Similarity=0.224 Sum_probs=96.2
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEECCCE-----EEEECCCCEEEEEECCCHHHHHHHHHHHHHCCCCEEEE
Q ss_conf 8986236850446777886422210012310001214-----99951784388885166157899986664206805999
Q gi|254780787|r 386 VTIMGHVDHGKTSLLDAIRKADVAKGEIGGITQHIGA-----YQVAYQGKNITFLDTPGHAAFYEMRARGARVTDIAVLV 460 (884)
Q Consensus 386 v~v~ghvd~GKt~lld~~r~~~~~~~e~ggitq~iga-----~~~~~~~~~~~~iDtPGh~~f~~~r~rg~~~~d~~ilv 460 (884)
T Consensus 16 iVlVGD~~VGKTsLl~~~~~~~F~~~y----~pTv~~~~~~~i~v~~~~v~L~lWDTAGqE~y~~lr~~yY~~a~~~ll~ 91 (232)
T cd04174 16 LVLVGDVQCGKTAMLQVLAKDCYPETY----VPTVFENYTAGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLC 91 (232)
T ss_pred EEEECCCCCCHHHHHHHHHHCCCCCCC----CCCEEEEEEEEEEECCEEEEEEEEECCCCCCCCHHHHHHHCCCCEEEEE
T ss_conf 999998998999999999739899985----8836888899999999999999983899701003679974068789999
Q ss_pred EECCCCCCHHHHHHH----H-HHH--HCCCCEEEECCCCCCCCCCCCHHHHHHHCCC---------CCCCCCCCCCEEEE
Q ss_conf 983667402357778----9-899--7099415612331244332000221000013---------20001234740363
Q gi|254780787|r 461 LAADEEIMPQAIESI----N-HAK--AADVSIIVAINKIDKLGADPQKVRMSLLKHD---------VFVESMGGDILDVE 524 (884)
Q Consensus 461 v~~~~g~~~qt~e~~----~-~~~--~~~~p~iva~nk~d~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~ 524 (884)
T Consensus 92 Fdvt~---~~Sfe~~~~~Wi~Ei~~~~p~~piiLVGnK~DLr~d-~~-~l~~L~~~~~~pVt~eeg~~~Ak~iga~~Y~E 166 (232)
T cd04174 92 FDISR---PETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRTD-LS-TLMELSNQKQAPISYEQGCALAKQLGAEVYLE 166 (232)
T ss_pred EECCC---HHHHHHHHHHHHHHHHHHCCCCCEEEEEECHHCCCC-HH-HHHHHHHCCCCCCCHHHHHHHHHHCCCCEEEE
T ss_conf 96898---799998999999999986899978999876021547-57-78899756888757999999999749978998
Q ss_pred EEECCCC-CCCCCCCCHHCC
Q ss_conf 1100247-741122100002
Q gi|254780787|r 525 ISAKNNL-NLDKLLDAILLQ 543 (884)
Q Consensus 525 ~~~~~~~-~~~~~~~~~~~~ 543 (884)
T Consensus 167 ~SA~tge~~v~~vF~~a~~~ 186 (232)
T cd04174 167 CSAFTSEKSIHSIFRSASLL 186 (232)
T ss_pred CCCCCCCCCHHHHHHHHHHH
T ss_conf 75686662599999999999