HHsearch alignment for GI: 254780877 and conserved domain: TIGR01818

>TIGR01818 ntrC nitrogen regulation protein NR(I); InterPro: IPR010114 This entry represents Nitrogen regulatory protein C (NtrC), which is a bacterial enhancer-binding protein that activates the transcription of genes encoding enzymes required for nitrogen metabolism. It is phosphorylated by NtrB and interacts with sigma-54. One of the best studied examples is its activation of the gene glnA, which encodes the enzyme glutamine synthetase.. NtrC is composed of three domains , . The 124 residue N-terminal domain is homologous to receiver domains of other response regulator proteins in two-component signal transduction systems , . The 240 residue central domain of NtrC is homologous to a domain found in all activators of the sigma-54 RNA polymerase holoenzyme , . The C-terminal domain has been indicated to contain the determinants necessary for both DNA-binding and dimerization of full-length NtrC.; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0009399 nitrogen fixation, 0050906 detection of stimulus during sensory perception.
Probab=98.04  E-value=0.0012  Score=48.47  Aligned_cols=233  Identities=27%  Similarity=0.420  Sum_probs=155.4

Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHH----HHCCCC
Q ss_conf             7767459489999999999874101236566512898726786168899999998723776530022447----740345
Q gi|254780877|r  566 ISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMS----EYMEKH  641 (853)
Q Consensus       566 l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMs----ey~e~~  641 (853)
T Consensus       133 ~~~~liG~aPAMQevfR~igRL~------~~~l-~VlI~GESGTGKELVA~ALH~~s~R~~~PFiAlNmAAIP~~L~E--  203 (471)
T TIGR01818       133 DSAELIGEAPAMQEVFRAIGRLS------RSDL-SVLINGESGTGKELVARALHRHSPRARGPFIALNMAAIPKDLIE--  203 (471)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHC------CCCC-EEEEECCCCCCHHHHHHHHHCCCCCCCCCCEEECHHHCCHHHHH--
T ss_conf             56212368851689999999751------6960-58885575775899999840137555777327302322246655--


Q ss_pred             CCCHHHCCCCHHCCCCCCCCCCHHHHCC-------CCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEE
Q ss_conf             3201304771120356677421132215-------641022021441498999999998404578879997783033155
Q gi|254780877|r  642 SVSRLIGSPPGYVGYEEGGALTEAVRRH-------PYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLI  714 (853)
Q Consensus       642 ~vs~LiGappGYvG~~~gg~Lte~vr~~-------P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~ii  714 (853)
T Consensus       204 --SELFG-------HEk-GAFTGA~~~~~GRFEQA~GGTLFLDEIGDMPl~~QTRLLRVL~~G~f~rVGG~~p~k~DVRi  273 (471)
T TIGR01818       204 --SELFG-------HEK-GAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDLQTRLLRVLADGEFYRVGGRTPIKVDVRI  273 (471)
T ss_pred             --HHHCC-------CCC-CCCCCCCCCCCCCEEECCCCCEECCCCCCCCHHHHHHHHHHHCCCCEEEECCCEEEEEEEEE
T ss_conf             --43214-------565-30001025567772534888210102167877687779886407865772682024550466


Q ss_pred             EECCCHHHHHHHCCHHHHHHHHHHHH-HHHCCHHHHCCCCCEEECC--CCC--HHHHHHHHHHHHHHHHHHHHHCCCEE-
Q ss_conf             95485126876403267999999999-8628857726668158628--899--89999999999999999998579899-
Q gi|254780877|r  715 IMTSNLGAEYLIEDGDSVHDKVMGIV-RSAFKPEFLNRLDEIILFE--KLR--KEDMAKIVRIQLGRVLSLIKERNISM-  788 (853)
Q Consensus       715 i~TsN~G~~~~~~~~~~~~~~~~~~l-~~~f~peflnRid~iv~F~--~l~--~~~~~~i~~~~l~~l~~~l~~~~i~l-  788 (853)
T Consensus       274 ~AATh--------------q~Le~lv~~G~FReDLfhRL~-Vi~i~lPpLrER~eDi~~L~rhFL~~a~~~l---~~~~k  335 (471)
T TIGR01818       274 VAATH--------------QDLEALVRQGKFREDLFHRLN-VIRIHLPPLRERREDIPRLARHFLALAAKEL---DVEPK  335 (471)
T ss_pred             EECCC--------------HHHHHHHHCCCCHHHHHHHHC-EEEECCCCCCCHHHHHHHHHHHHHHHHHHHC---CCCCC
T ss_conf             73366--------------568999655881355555123-3462168721226689999999999988742---86511


Q ss_pred             EECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCEE
Q ss_conf             998899999997089822062157999998733499999970868897889999989948
Q gi|254780877|r  789 DFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIEVFVDDDNL  848 (853)
Q Consensus       789 ~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~~~~~~~  848 (853)
T Consensus       336 ~L~~~~~~~L~~--~~WPGNVR~LEN~cR~---------l~--~la~~~~v~~~d~~~eL  382 (471)
T TIGR01818       336 LLSPEALEALKR--YDWPGNVRELENVCRR---------LT--VLASGDEVLVSDLPAEL  382 (471)
T ss_pred             CCCHHHHHHHHH--CCCCCCHHHHHHHHHH---------HH--HHCCCCEEEEEECCHHH
T ss_conf             348899999972--5889852457789999---------98--73467646777757655