HHsearch alignment for GI: 254781026 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=94.55  E-value=0.017  Score=35.45  Aligned_cols=18  Identities=39%  Similarity=0.696  Sum_probs=15.5

Q ss_pred             CCCCCCHHHHHHHHHHHH
Q ss_conf             777860599999998874
Q gi|254781026|r    2 IGPPGARKSMLASCLPSI   19 (186)
Q Consensus         2 ~GpPG~GKS~lar~l~~i   19 (186)
T Consensus        45 vGPpgvGKtTLiksLvk~   62 (225)
T cd01882          45 VGPPGVGKTTLIKSLVKN   62 (225)
T ss_pred             ECCCCCCHHHHHHHHHHH
T ss_conf             898997788999999999