HHsearch alignment for GI: 254780877 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=95.69 E-value=0.11 Score=32.58 Aligned_cols=97 Identities=26% Similarity=0.420 Sum_probs=53.2
Q ss_pred EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCC---HHHHHHHHHHHHHHHCCCCEEEEEC
Q ss_conf 6895288740777999999987348998444574378873135421745420---2454589999998607997699963
Q gi|254780877|r 202 PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRG---EFEERLKSLLCEIRSEDGEIILFID 278 (853)
Q Consensus 202 ~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg---~~e~r~~~i~~~~~~~~~~~ilfid 278 (853)
T Consensus 42 VavvGPpgvGKtTLiksLvk~ytk~~l~-~i~GPi-------Tvvs~K~rRiTfiEc~nDi~smiD~AKvAD-lVLl~iD 112 (225)
T cd01882 42 VAVVGPPGVGKTTLIKSLVKNYTKQNIS-DIKGPI-------TVVTGKKRRLTFIECPNDINAMIDIAKVAD-LVLLLID 112 (225)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCC-CCCCCE-------EEEECCCEEEEEEECCCHHHHHHHHHHHHH-EEEEEEC
T ss_conf 9998989977889999999998544375-578887-------999468426899974860999987887643-3688861
Q ss_pred CHHHHCCCCCCC-CCCCHHHHHHHHHCCCCEEEEEEECH
Q ss_conf 627730266655-43358888765312466048997448
Q gi|254780877|r 279 ELHVLVGAGKTD-GAMDASNLLKPSLARGELHCIGATTL 316 (853)
Q Consensus 279 e~h~~~gaG~~~-g~~Daan~LKP~LarG~l~~IgaTT~ 316 (853)
T Consensus 113 ~s------~GfEmEtfEfLnil---q~hG~PkV~GVltH 142 (225)
T cd01882 113 AS------FGFEMETFEFLNIL---QVHGFPRVMGVLTH 142 (225)
T ss_pred CC------CCEEEEHHHHHHHH---HHCCCCCEEEEEEC
T ss_conf 66------55352089999999---97599943788544