HHsearch alignment for GI: 254780824 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=96.24 E-value=0.0066 Score=38.22 Aligned_cols=38 Identities=18% Similarity=0.337 Sum_probs=32.5
Q ss_pred CCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf 89969999878786889999999976078885302452
Q gi|254780824|r 31 RLGDCLTLSGDLGSGKSFLARSIIRFLMHDDALEVLSP 68 (162)
Q Consensus 31 ~~g~ii~L~GdLGaGKTtfvr~i~~~lg~~~~~~V~SP 68 (162)
T Consensus 37 pPP~vVavvGPpgvGKtTLiksLvk~ytk~~l~~i~GP 74 (225)
T cd01882 37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP 74 (225)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf 99969999898997788999999999854437557888