HHsearch alignment for GI: 254780711 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=95.72  E-value=0.057  Score=35.23  Aligned_cols=43  Identities=28%  Similarity=0.415  Sum_probs=32.6

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHCC----CCEEEECCC
Q ss_conf             2588418996234433346889999999986148----950782054
Q gi|254780711|r   96 NAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKK----KKILMASLD  138 (461)
Q Consensus        96 ~~~~p~vIllvGl~GsGKTTT~aKLA~~~~~~~~----~kV~lv~~D  138 (461)
T Consensus        35 ~epPP~vVavvGPpgvGKtTLiksLvk~ytk~~l~~i~GPiTvvs~K   81 (225)
T cd01882          35 EEPPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGPITVVTGK   81 (225)
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECC
T ss_conf             89999699998989977889999999998544375578887999468