HHsearch alignment for GI: 254780226 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=95.15 E-value=0.065 Score=32.67 Aligned_cols=89 Identities=18% Similarity=0.395 Sum_probs=53.8
Q ss_pred CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf 82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r 2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA 81 (367)
Q Consensus 2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA 81 (367)
T Consensus 39 P~vVavvGPpgvGKtTLiksLvk~-------ytk~~l~~i~GPiTvvs---------~K~rR-----iTfiEc~n----D 93 (225)
T cd01882 39 PLVVAVVGPPGVGKTTLIKSLVKN-------YTKQNISDIKGPITVVT---------GKKRR-----LTFIECPN----D 93 (225)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHH-------HHHCCCCCCCCCEEEEE---------CCCEE-----EEEEECCC----H
T ss_conf 969999898997788999999999-------85443755788879994---------68426-----89997486----0
Q ss_pred CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 22466328999987303747885012345421134577673215788988
Q gi|254780226|r 82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIET 131 (367)
Q Consensus 82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~ 131 (367)
T Consensus 94 -----i-~smiD~AKvADlVLl~iD~s~GfE----------mEtfEfLni 127 (225)
T cd01882 94 -----I-NAMIDIAKVADLVLLLIDASFGFE----------METFEFLNI 127 (225)
T ss_pred -----H-HHHHHHHHHHHEEEEEECCCCCEE----------EEHHHHHHH
T ss_conf -----9-999878876433688861665535----------208999999