HHsearch alignment for GI: 254780233 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=98.42 E-value=5.8e-06 Score=58.37 Aligned_cols=119 Identities=21% Similarity=0.313 Sum_probs=83.5
Q ss_pred EEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCEECCCCHHHHHCC-CEEEEEEEEEEECCEEEEEECCCCCCCCHHHH
Q ss_conf 49998546898778899999983961423220000038857798709-60646799999899799997289875407999
Q gi|254780233|r 21 NIAIIAHVDHGKTTLVDELLKQSGVFRDNQRVSERVMDCNDLEKERG-ITILAKVTSIVWNDVRINIVDTPGHADFGGEV 99 (624)
Q Consensus 21 NiaIiaHvDhGKTTL~d~LL~~sG~~~~~~~v~~~vmD~~~~EreRG-ITI~a~~~~~~~~~~~iNiiDTPGH~DF~gEV 99 (624)
T Consensus 41 vVavvGPpgvGKtTLiksLvk~ytk~~-l~~i-------------~GPiTv------vs~K~rRiTfiEc~--nDi~smi 98 (225)
T cd01882 41 VVAVVGPPGVGKTTLIKSLVKNYTKQN-ISDI-------------KGPITV------VTGKKRRLTFIECP--NDINAMI 98 (225)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCC-CCCC-------------CCCEEE------EECCCEEEEEEECC--CHHHHHH
T ss_conf 999989899778899999999985443-7557-------------888799------94684268999748--6099998
Q ss_pred HHHHHHHCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEE-EEECCCCCC--CCHHHHHHHHHHHH
Q ss_conf 9998742178999976878864789999999972997899-997543667--40256899999888
Q gi|254780233|r 100 ERILCMVESVVVLVDAAEGPMPQTKFVVGKALKIGLRPIV-VVNKVDRSD--ARADEVINEVFDLF 162 (624)
Q Consensus 100 er~l~~~DgaiLvVdA~eGv~~QT~~vl~~A~~~~l~~Iv-vINKiDr~~--a~~~~v~~ei~dlf 162 (624)
T Consensus 99 D-~AKvADlVLl~iD~s~GfEmEtfEfLnilq~hG~PkV~GVltHlD~fk~~k~lrk~KK~lk~RF 163 (225)
T cd01882 99 D-IAKVADLVLLLIDASFGFEMETFEFLNILQVHGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRF 163 (225)
T ss_pred H-HHHHHHEEEEEECCCCCEEEEHHHHHHHHHHCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHH
T ss_conf 7-8876433688861665535208999999997599943788544310155788999999999999