HHsearch alignment for GI: 254780836 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=91.36 E-value=1.1 Score=23.89 Aligned_cols=225 Identities=21% Similarity=0.273 Sum_probs=121.8
Q ss_pred HHHHCHHHHHHHHHCCHHHHHHHHH-------------------------------HCCHHHHHHHHHC---CC--CCCC
Q ss_conf 9752999899987177235775444-------------------------------2362899998740---24--5673
Q gi|254780836|r 104 IASFSDNAKAIFEDFDFSSTIARLE-------------------------------KAGLLYKICKNFS---GI--ELHP 147 (674)
Q Consensus 104 i~gfS~nv~dI~~~f~f~~~i~~L~-------------------------------~~~~L~~vI~~F~---~i--dL~p 147 (674)
T Consensus 156 ~n~ll~~V~~~le~~~~~~y~e~~~~g~~~~~~~r~g~~Tge~~~~~~t~~~~fph~E~~~~~~~~~~P~vksI~~Ninp 235 (434)
T TIGR00479 156 LNKLLPKVKAILENFGVSVYNEEKEKGKLRHIVLRIGRETGELLLVLITALEKFPHKEELVLELQERYPDVKSIVQNINP 235 (434)
T ss_pred HHHHHHHHHHHHHHCCCEEECCEEEEEEEEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCEEEECCC
T ss_conf 66789999999985497011372334443457888522523046565566523853368999998518844608860378
Q ss_pred CCCCCHHHHHHHH-----HHHHHH-HHHC-CCCCCCCC-CHHHHHHHHHHHHCCCCCHHCCCCCCCCEEECCCCCCHHHH
Q ss_conf 3376114438999-----999999-8622-76657536-81799999999731784011013877640311766540468
Q gi|254780836|r 148 DTVPDRVMSNIYE-----HLIRRF-GSEV-SEGAEDFM-TPRDVVHLATALLLDPDDALFKESPGMIRTLYDPTCGTGGF 219 (674)
Q Consensus 148 ~~v~n~~mG~iyE-----~LIrkF-ae~~-~~~aGeff-TPR~Vi~Lmv~ll~~~~~~~~~~~p~~~~tIyDPaCGTGGm 219 (674)
T Consensus 236 ~k-tnvIFG~~t~~i~G~~~~y~~~~d~~f~lsaR~F~QVN~~~~~~l~~~a~----~~l~Lq--g~e~V~DayCG~Gtf 308 (434)
T TIGR00479 236 EK-TNVIFGEETEVIAGEEPIYELSGDVKFELSARDFFQVNSEQTEKLVDRAL----EALELQ--GEEKVVDAYCGVGTF 308 (434)
T ss_pred CC-CCEECCCCEEEEECCEEHHHHHCCEEEEECCCCCEECCHHHHHHHHHHHH----HHHHCC--CCCEEEEEECCCCCC
T ss_conf 98-74220771168877700322128846875576502018767799999999----997159--865578631575520
Q ss_pred HHHHHHHHHHHHHHCCCCCCEEEECCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC-CCCCC----CCCCCCEEEE
Q ss_conf 999999999853100533322550466667889999999898088753345666682347-54579----9986641899
Q gi|254780836|r 220 LTDAMNHVADCGSHHKIPPILVPHGQELEPETHAVCVAGMLIRRLESDPRRDLSKNIQQG-STLSK----DLFTGKRFHY 294 (674)
Q Consensus 220 L~~a~~~i~~~~~~~~~~~~~~lyGQEin~~tyaIak~nMli~g~~~d~~~~~~~NI~~G-dTL~~----d~~~~~kFD~ 294 (674)
T Consensus 309 tLpL-------A~qak-----~v~G~E~v~e~v~~a~~NAe~Ng~~---------N~~F~~g~~E~~~p~~~~e~~~~D~ 367 (434)
T TIGR00479 309 TLPL-------AKQAK-----SVVGVEVVPESVEDAKRNAELNGIA---------NVEFLAGTLETVLPKQPWEGISPDV 367 (434)
T ss_pred HHHH-------HHCCC-----EEEEEECCHHHHHHHHHHHHHCCCC---------CHHHHHHHHHHHCCCCCCCCCCCCE
T ss_conf 0444-------40121-----8888714376789998888860353---------2013331232110144222677898
Q ss_pred EEECCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEEC-CCCCCCCCCCCCC
Q ss_conf 981685676531000111234422666653577774770659999999996146657880799973-8971347764432
Q gi|254780836|r 295 CLSNPPFGKKWEKDKDAVEKEHKNGELGRFGPGLPKISDGSMLFLMHLANKLELPPNGGGRAAIVL-SSSPLFNGRAGSG 373 (674)
Q Consensus 295 vlaNPPFg~~Wk~~~~~v~~e~~~~~~~Rf~~glP~~sdg~~lFlqh~i~klk~~~~~ggr~aIV~-ngs~LF~G~agsG 373 (674)
T Consensus 368 ~llDPP----------------------R~-------GCa--~~~L~~I~~~kP-----~rivYVSCNP~TLAR------ 405 (434)
T TIGR00479 368 VLLDPP----------------------RK-------GCA--AEVLRTIIKLKP-----KRIVYVSCNPATLAR------ 405 (434)
T ss_pred EEECCC----------------------CC-------CCH--HHHHHHHHHCCC-----EEEEEEECCCHHHHH------
T ss_conf 888888----------------------98-------745--899998862077-----059998448534799------
Q ss_pred HHHHHHHHHHCC-CEEEEEECCCCCCCCCC
Q ss_conf 689999998849-46888317677655788
Q gi|254780836|r 374 ESEIRRWLLEND-LIEAIVALPTDLFFRTN 402 (674)
Q Consensus 374 Es~IRk~lie~d-~ieaII~LP~~lFynTg 402 (674)
T Consensus 406 D---l~~L~~~GfY~i~~~q-~~DmFPhT~ 431 (434)
T TIGR00479 406 D---LEVLCKEGFYKIEKVQ-PVDMFPHTA 431 (434)
T ss_pred H---HHHHHHCCCEEEEEEE-EEECCCCCC
T ss_conf 9---9999737962678885-430578876