HHsearch alignment for GI: 254780484 and conserved domain: cd01882
>cd01882 BMS1 Bms1. Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Probab=98.90 E-value=2.3e-08 Score=67.21 Aligned_cols=146 Identities=19% Similarity=0.247 Sum_probs=94.9
Q ss_pred HHHCCCCCCC-EEEEECCCCCCHHHHHHHHHCCCCE--EEECCCCCEEEECCEEEEEEEEEEEECCCEEEEEECCHHHHH
Q ss_conf 6758876686-8999748998898999997389737--987388841452120266555678508964999976001011
Q gi|254780484|r 21 IGLLPKAGPP-EIAFSGRSNVGKSSLINILVNRKNL--ARTSNAPGRTQHLNFFVPKDFSNLKNNLPAMALVDMPGYGYA 97 (212)
Q Consensus 21 ~~~~P~~~~p-~VaivG~~NvGKSSLiNaL~g~~~~--a~~~~~p~tt~~~~~~~~~~~~~~~~~~~~~~~~DtpG~~~~ 97 (212)
T Consensus 30 vdr~~~epPP~vVavvGPpgvGKtTLiksLvk~ytk~~l~~i~GPi-------------Tvvs~K~rRiTfiEc~nDi-- 94 (225)
T cd01882 30 VDRTPEEPPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGPI-------------TVVTGKKRRLTFIECPNDI-- 94 (225)
T ss_pred CCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCE-------------EEEECCCEEEEEEECCCHH--
T ss_conf 1358789999699998989977889999999998544375578887-------------9994684268999748609--
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHCCCCCC-CCCCCCCCCCCCHHHHH-HHHHHHH
Q ss_conf 122447898888998777766420000011223578875454554321025753-22122221111024689-9999999
Q gi|254780484|r 98 RAPKKNVDSWGGLIVRYLSERSTLRCVYLLIDCRHGVKQIDQDVFSFLDKKAVS-YQIVLTKIDKLSPTTAQ-ETLEKTK 175 (212)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~nK~D~~~~~~~~-~~~~~~~ 175 (212)
T Consensus 95 --------------~smiD~AKvADlVLl~iD~s~GfEmEtfEfLnilq~hG~PkV~GVltHlD~fk~~k~lrk~KK~lk 160 (225)
T cd01882 95 --------------NAMIDIAKVADLVLLLIDASFGFEMETFEFLNILQVHGFPRVMGVLTHLDLFKKNKTLRKTKKRLK 160 (225)
T ss_pred --------------HHHHHHHHHHHEEEEEECCCCCEEEEHHHHHHHHHHCCCCCEEEEEECCCCCCCHHHHHHHHHHHH
T ss_conf --------------999878876433688861665535208999999997599943788544310155788999999999
Q ss_pred HHHHHCCCCCCCEEEEECCC
Q ss_conf 99753136898689998888
Q gi|254780484|r 176 YLIRNYPTAHPEVIPTSSVK 195 (212)
Q Consensus 176 ~~~~~~~~~~~~i~~vSA~~ 195 (212)
T Consensus 161 ~RFwtE~y~gaKlFylsg~~ 180 (225)
T cd01882 161 HRFWTEVYQGAKLFYLSGIV 180 (225)
T ss_pred HHHHHHHCCCCEEEEECCCC
T ss_conf 99999865995688633532