HHsearch alignment for GI: 254780707 and conserved domain: pfam03466

>pfam03466 LysR_substrate LysR substrate binding domain. The structure of this domain is known and is similar to the periplasmic binding proteins.
Probab=98.03  E-value=0.00055  Score=40.94  Aligned_cols=200  Identities=14%  Similarity=0.209  Sum_probs=114.0

Q ss_pred             CCCCEEEEEECCHHHH-HHHHHHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHCCCCCCCEEECCCCCCHHHHHHHHHCC
Q ss_conf             1376799980342589-999999999987798079998157620578988521013353012133202476787676248
Q gi|254780707|r   23 FARNRIRIAGSSTLFP-YSKIIAENFSEYFPEFKTPFVESGGSSVGLKEFCRGIGDDTIDIVNSSRKITQNELDECKKHG  101 (346)
Q Consensus        23 ~a~~~I~i~GSst~~P-~~~~~a~~y~~~~~~~~~~~~~~~GSg~Gi~~~~~G~~~~~~dig~ssr~l~~~E~~~~~~~~  101 (346)
T Consensus         3 ~~~G~i~I~~~~~~~~~~lp~~l~~f~~~~P~i~i~-i~~~~~~~i~~~l~~g~----~Di~i~~~~~~~~---------   68 (209)
T pfam03466         3 GPRGRLRIGAPPTFAAYLLPPLLARFRERYPDVELE-LREGDSEELLDLLAEGE----LDLAIRRGPPDDP---------   68 (209)
T ss_pred             CCCEEEEEEEEHHHHHHHHHHHHHHHHHHCCCCEEE-EEECCCHHHHHHHHCCC----CEEEEECCCCCCC---------
T ss_conf             987899999388999999999999999988892899-99898488999998698----1488731789999---------


Q ss_pred             CCCCEEEEEECCCCEEEECCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCHHHHHHCCCCCCCCCCEEECCCCCCCHHHH
Q ss_conf             78724666521541255416665456888888876410255555323673023231001112245035448854235789
Q gi|254780707|r  102 VSDIQEVTIGHDGILLVSDRDMVSVSLTVEDLYKALASYLIVDDKVVFNPLKKWSEIRPDFPEVRIAIYVPSGKHGTREV  181 (346)
Q Consensus       102 ~~~~~~~~v~~d~i~i~~n~~~~~~~lt~~~l~~~~~~~~~~~~~i~~g~i~~W~~~~~~lp~~~I~~~~r~~~SGT~~~  181 (346)
T Consensus        69 --~~~~~~l~~~~~~~~~s~~~~l~~----------------------~~~i~~~~l----~~~~~i~~~--~~~~~~~~  118 (209)
T pfam03466        69 --GLEARPLFEEPLVLVAPPDHPLAA----------------------GEPVSLEDL----ADEPLILLE--PGSGLRDL  118 (209)
T ss_pred             --CEEEEEEEEEEEEEEECCCCHHHC----------------------CCCCCHHHH----CCCCEEEEC--CCCCCHHH
T ss_conf             --808999762413655336705542----------------------897543551----466579856--99871379


Q ss_pred             HHHHHCCCCCCCCCCHHHHHHCCCCCCHHCCCCCCCCCCCCCCEECCCCHHHHHHHHCCCCCCCCCCCCCHHHHCC--CC
Q ss_conf             9988513455565410111110136600013444310246640211662367776310153210013320011001--11
Q gi|254780707|r  182 LEKKVLQEGCVRSRNFSKMRDMFKYNVQQLSVACTSVRQDGIAIEVDGDYTETLARIEVNKDVFGFVGLSFYKNNA--DV  259 (346)
Q Consensus       182 F~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~v~~~~~~igy~~~~~~~~~~--~~  259 (346)
T Consensus       119 ~~~~~~~~~~~~-----------------------------~~~~~~~~~~-~~~~lv~~g~Gi~~lp~~~~~~~~~~~~  168 (209)
T pfam03466       119 VDRALERAGLRP-----------------------------RVALEVNSLE-ALLAAVAAGLGIALLPRSAVARELADGR  168 (209)
T ss_pred             HHHHHHHCCCCC-----------------------------CEEEEECCHH-HHHHHHHHCCEEEECCHHHHHHHHHCCC
T ss_conf             987787648763-----------------------------0246747879-9999999499999913999998875899


Q ss_pred             CCCCCCCCCCCCHHHHCCCCCCCEEEEEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf             00134457678955602798750367899970788566889999999974
Q gi|254780707|r  260 LKLVPIDGIVPSMGTIVSGLYPISRPLLFYVKRQHFNSVLGLREYVSFSV  309 (346)
Q Consensus       260 ~~~~~~~~v~p~~~~i~~g~YPl~r~ly~yv~~~~~~~~~~~~~Fl~~~l  309 (346)
T Consensus       169 L~~i~~------------~~~~~~~~~~li~~~~-~~~s~~~~~f~~~l~  205 (209)
T pfam03466       169 LVVLPL------------PDPPLPRPIYLVYRKG-RRLSPAVRAFIDFLR  205 (209)
T ss_pred             EEEEEC------------CCCCCCCEEEEEEECC-CCCCHHHHHHHHHHH
T ss_conf             899958------------8888744799999894-978999999999999