HHsearch alignment for GI: 254780270 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=96.95 E-value=0.0013 Score=46.22 Aligned_cols=107 Identities=30% Similarity=0.473 Sum_probs=60.7
Q ss_pred CCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEECCCCCCHHH-H--CCCCCCCCCCCCHHHHHHHHHCCCCCEEEEE
Q ss_conf 446735998605656502799999977088249986188888888-3--5632001456712899999832788739999
Q gi|254780270|r 363 KNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEAD-I--RGHRRTYIGSMPGRIIQSLKRAKRSNPLLLL 439 (820)
Q Consensus 363 ~~~g~il~l~gppgvGKts~~~sia~al~r~f~~islgg~~d~~~-i--~gh~~ty~ga~pg~ii~~l~~~~~~npv~~l 439 (820)
T Consensus 36 epPP~vVavvGPpgvGKtTLiksLvk----~ytk~~l~~i~GPiTvvs~K~rRiTfiEc-~nDi~smiD~AKvADlVLl~ 110 (225)
T cd01882 36 EPPPLVVAVVGPPGVGKTTLIKSLVK----NYTKQNISDIKGPITVVTGKKRRLTFIEC-PNDINAMIDIAKVADLVLLL 110 (225)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHH----HHHHCCCCCCCCCEEEEECCCEEEEEEEC-CCHHHHHHHHHHHHHEEEEE
T ss_conf 99996999989899778899999999----98544375578887999468426899974-86099998788764336888
Q ss_pred ECHHHHHHHCCCCHHHHHHHHCCCCCCCCEEEEECCCCCCCCCEEEEEECCCC
Q ss_conf 33155423117711556655406001681332010352364427999934865
Q gi|254780270|r 440 DEIDKMGSDLRGDPSAALLEVLDPAQNSSFVDHYLEVEYDLSDVMFIMTANTL 492 (820)
Q Consensus 440 deidk~~~~~~gdp~~allevldp~qn~~f~d~y~~~~~dls~v~fi~tan~~ 492 (820)
T Consensus 111 iD-----~s~GfEm--EtfEfLnilq~hG~-----------PkV~GVltHlD~ 145 (225)
T cd01882 111 ID-----ASFGFEM--ETFEFLNILQVHGF-----------PRVMGVLTHLDL 145 (225)
T ss_pred EC-----CCCCEEE--EHHHHHHHHHHCCC-----------CCEEEEEECCCC
T ss_conf 61-----6655352--08999999997599-----------943788544310