HHsearch alignment for GI: 254781000 and conserved domain: TIGR00479
>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA; InterPro: IPR001566 This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from Escherichia coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA .; GO: 0003723 RNA binding, 0008173 RNA methyltransferase activity, 0006396 RNA processing.
Probab=100.00 E-value=0 Score=631.07 Aligned_cols=338 Identities=22% Similarity=0.311 Sum_probs=293.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHCCCCCC-------CCCCCCCCCEEEEEEEEEEECCE--EEEEEECCCCCCEEECC
Q ss_conf 7666598999999999999998651887763-------02898768226899999976891--69999828997379756
Q gi|254781000|r 4 TLLIDQYEQQLAEKVDRLRQMMLAFQVPNLQ-------IFRSEPIHYRMRAEFHIWHDGDD--LYHIMFDQQTKERMRID 74 (371)
Q Consensus 4 ~l~~~~Y~~QL~~K~~~v~~~l~r~~~~~~~-------i~~s~~~~YRnr~~l~v~~~~~~--~~~g~~~~~s~~iv~i~ 74 (371)
T Consensus 68 Q~QH~~y~~Q~~~Kq~~v~~~leR~~k~~~~~~~~~~~~Gm~~~W~YRnka~~~l~~~~~g~Q~~aGfy~~~ShDiv~~~ 147 (434)
T TIGR00479 68 QLQHLAYELQLRSKQEQVIDLLERIGKLKSEPIEVKPTIGMEDPWGYRNKARLSLGRSPSGKQIQAGFYQKGSHDIVDVK 147 (434)
T ss_pred HHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCCEEEEEECCCCCCCEEEEEEECCCCCCEECCC
T ss_conf 00003568889999999999998716751111123203488871004435566600048876788775217886412102
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCC-------CCCEEEEEEEEE-CCCCEEEEEEECCCCCHHHHHHHHHHHHHCCCCC
Q ss_conf 37458889999999999864408853-------342578788980-4994999997377789558999999997532134
Q gi|254781000|r 75 YFMPGSLLINALMIEMMATIRLEPLL-------RAKLFQIDYLTS-QSDQAIVTLIYHRLLDDAWRECAIRLRDALHARK 146 (371)
Q Consensus 75 ~C~i~~~~i~~~~~~l~~~~~~~~~l-------~~~l~~i~~~~~-~~~~~~v~l~~~~~~~~~~~~~~~~l~~~~~~~~ 146 (371)
T Consensus 148 ~C~v~~p~~n~ll~~V~~~le~~~~~~y~e~~~~g~~~~~~~r~g~~Tge~~~~~~t~~~~fph~E~~~~~~~~~~P~vk 227 (434)
T TIGR00479 148 QCPVQEPALNKLLPKVKAILENFGVSVYNEEKEKGKLRHIVLRIGRETGELLLVLITALEKFPHKEELVLELQERYPDVK 227 (434)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCEEECCEEEEEEEEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCCC
T ss_conf 47442415667899999999854970113723344434578885225230465655665238533689999985188446
Q ss_pred EEEEEEECCCC-------EEEEECCCCEEEEEEECCCEEEEEECCHHHHCCCHHHHHHHHHHEEECCCCCC-CEEEEECC
Q ss_conf 16897253798-------28960566414899967912799976413312357787755442011147788-33886024
Q gi|254781000|r 147 YQIQLIGRANK-------TKICLDRDYVDERLTVAGRTLIYRQIENSFTQPNAGINVHMLEWVLAATKGIQ-GDLLELYC 218 (371)
Q Consensus 147 ~~~~~~~~~~~-------~~~~~g~~~~~e~l~~~~~~~~f~i~p~sFfQ~N~~~~~~l~~~v~~~~~~~~-~~vlDLyc 218 (371)
T Consensus 228 sI~~Ninp~ktnvIFG~~t~~i~G~~~~y~~~----~d~~f~lsaR~F~QVN~~~~~~l~~~a~~~l~Lqg~e~V~DayC 303 (434)
T TIGR00479 228 SIVQNINPEKTNVIFGEETEVIAGEEPIYELS----GDVKFELSARDFFQVNSEQTEKLVDRALEALELQGEEKVVDAYC 303 (434)
T ss_pred CEEEECCCCCCCEECCCCEEEEECCEEHHHHH----CCEEEEECCCCCEECCHHHHHHHHHHHHHHHHCCCCCEEEEEEC
T ss_conf 08860378987422077116887770032212----88468755765020187677999999999971598655786315
Q ss_pred CCCHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHCCCCCCCCCCHHCCCCCCEEEEC
Q ss_conf 64235888850685699844758899999997886089964999768999989886233222232101014787799986
Q gi|254781000|r 219 GNGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQAMRREREFNRLKDIDIHSYRFKTIFVD 298 (371)
Q Consensus 219 G~G~fsl~La~~~~~V~gvE~~~~ai~~A~~Na~~N~i~n~~f~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~d~vilD 298 (371)
T Consensus 304 G~GtftLpLA~qak~v~G~E~v~e~v~~a~~NAe~Ng~~N~~F~~g~~E~~~p~~~~e------------~~~~D~~llD 371 (434)
T TIGR00479 304 GVGTFTLPLAKQAKSVVGVEVVPESVEDAKRNAELNGIANVEFLAGTLETVLPKQPWE------------GISPDVVLLD 371 (434)
T ss_pred CCCCCHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCC------------CCCCCEEEEC
T ss_conf 7552004444012188887143767899988888603532013331232110144222------------6778988888
Q ss_pred CCCCCHHHHHHHHH--HCCCCEEEEECCHHHHHHHHHHHCC-C-CEEEEEEEEECCCCCCCEE
Q ss_conf 97026348999998--5399489992998999886998426-9-6799999971798987248
Q gi|254781000|r 299 PPRSGLDDATVGMV--QAYPHILYISCNPDSLCRDLSILST-T-HTIERLALFDQFPYTRHME 357 (371)
Q Consensus 299 PPR~G~~~~~~~~~--~~~~~ivYVSCnp~TlarD~~~l~~-g-y~i~~~~~~D~FP~T~HvE 357 (371)
T Consensus 372 PPR~GCa~~~L~~I~~~kP~rivYVSCNP~TLARDl~~L~~~GfY~i~~~q~~DmFPhT~HvE 434 (434)
T TIGR00479 372 PPRKGCAAEVLRTIIKLKPKRIVYVSCNPATLARDLEVLCKEGFYKIEKVQPVDMFPHTAHVE 434 (434)
T ss_pred CCCCCCHHHHHHHHHHCCCEEEEEEECCCHHHHHHHHHHHHCCCEEEEEEEEEECCCCCCCCC
T ss_conf 889874589999886207705999844853479999999737962678885430578876789