HHsearch alignment for GI: 254780567 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=97.15 E-value=0.001 Score=42.77 Aligned_cols=97 Identities=22% Similarity=0.169 Sum_probs=56.3
Q ss_pred EEEEECCCCCCHHHHHHHHHHHHCCCCHHHHHH--------------------HHHHHHHHHHHHHHHHHHHCCCCCCHH
Q ss_conf 499987877786889999998627620135676--------------------444546666665334332100376103
Q gi|254780567|r 66 VVILVGPSGSGKSCLANIWSDKSRSTRFSNIAK--------------------SLDSILIDTRKPVLLEDIDLLDFNDTQ 125 (246)
Q Consensus 66 ~l~i~G~~GsGKTHLl~a~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~i~iddi~~~~~~ee~ 125 (246)
T Consensus 41 vVavvGPpgvGKtTLiksLvk~ytk~~l~~i~GPiTvvs~K~rRiTfiEc~nDi~smiD~AKvADlVLl~iD~s~GfEmE 120 (225)
T cd01882 41 VVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGPITVVTGKKRRLTFIECPNDINAMIDIAKVADLVLLLIDASFGFEME 120 (225)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCEEEEEEECCCHHHHHHHHHHHHHEEEEEECCCCCEEEE
T ss_conf 99998989977889999999998544375578887999468426899974860999987887643368886166553520
Q ss_pred HHHHHHHHHCCCCCEEEEEC------CCCCCHHHHHHHHHHHH
Q ss_conf 35455543112342156403------54320022345667885
Q gi|254780567|r 126 LFHIINSIHQYDSSLLMTAR------TFPVSWGVCLPDLCSRL 162 (246)
Q Consensus 126 lf~l~n~~~~~~~~iilts~------~~p~~~~~~l~DL~SRl 162 (246)
T Consensus 121 tfEfLnilq~hG~PkV~GVltHlD~fk~~k~lrk~KK~lk~RF 163 (225)
T cd01882 121 TFEFLNILQVHGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRF 163 (225)
T ss_pred HHHHHHHHHHCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHH
T ss_conf 8999999997599943788544310155788999999999999