HHsearch alignment for GI: 254780829 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=96.09  E-value=0.023  Score=34.73  Aligned_cols=39  Identities=33%  Similarity=0.570  Sum_probs=26.6

Q ss_pred             HHHCCCCCCC--CCCCCCCEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             8640864444--66566866996798886899999999970
Q gi|254780829|r   39 RRQQLPADLR--DELMPKNILLVGPTGVGKTAISRRLARLA   77 (437)
Q Consensus        39 ~R~~~~~~~~--~e~~psNiLLiGPtGtGKTlLAktLA~~l   77 (437)
T Consensus        23 kk~hvp~vdr~~~epPP~vVavvGPpgvGKtTLiksLvk~y   63 (225)
T cd01882          23 KKLHVPVVDRTPEEPPPLVVAVVGPPGVGKTTLIKSLVKNY   63 (225)
T ss_pred             HHHHCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             87626641358789999699998989977889999999998