HHsearch alignment for GI: 254780725 and conserved domain: TIGR01287

>TIGR01287 nifH nitrogenase iron protein; InterPro: IPR005977 The enzyme responsible for nitrogen fixation, the nitrogenase, shows a high degree of conservation of structure, function, and amino acid sequence across wide phylogenetic ranges. All known Mo-nitrogenases consist of two components, component I (also called dinitrogenase, or Fe-Mo protein), an alpha2beta2 tetramer encoded by the nifD and nifK genes, and component II (dinitrogenase reductase, or Fe protein) a homodimer encoded by the nifH gene , . Two operons, nifDK and nifEN, encode a tetrameric (alpha2beta2 and N2E2) enzymatic complex. Nitrogenase contains two unusual rare metal clusters; one of them is the iron molybdenum cofactor (FeMo-co), which is considered to be the site of dinitrogen reduction and whose biosynthesis requires the products of nifNE and of some other nif genes . It has been proposed that NifNE might serve as a scaffold upon which FeMo-co is built and then inserted into component I .; GO: 0016163 nitrogenase activity, 0009399 nitrogen fixation, 0016612 molybdenum-iron nitrogenase complex.
Probab=99.97  E-value=1.4e-28  Score=194.87  Aligned_cols=258  Identities=16%  Similarity=0.209  Sum_probs=208.3

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHHHHHCC-CCEEEEECCCCCCCCHHHCCCCCCCCHHHHHCCCCCHHHHHHHHHHHCC
Q ss_conf             379997469887756899999999996269-9499997879898603343899878988863184561243376532024
Q gi|254780725|r  162 CSISFIGSRGGVGSSTIAHNCAFSIASVFA-METLLADLDLPYGTANINFDKDPINSISDAIYPVGRIDKAFVSRLPVFY  240 (427)
Q Consensus       162 rvIav~g~KGGvGkTTiA~nLA~~LA~~~~-~~VlLvDlDl~~g~~~~~l~~~~~~~l~d~l~~~~rlD~~~l~~~l~~~  240 (427)
T Consensus         1 rqiAiYG-KGGIGKSTT~~N~~AAla~~-gdkkVl~~GCDPKaDsTr~l~Gg~~~~TVLd~lre~G~ve~~~~e~v~~~G   78 (278)
T TIGR01287         1 RQIAIYG-KGGIGKSTTTQNIAAALAEM-GDKKVLVVGCDPKADSTRLLLGGKAQPTVLDVLREKGAVEDVELEDVIKEG   78 (278)
T ss_pred             CEEEEEC-CCCCCCCHHHHHHHHHHHHH-CCCEEEEEECCCCCCHHHHHHCCCCCCHHHHHHHHCCCCCCCCCCHHHEEC
T ss_conf             9488862-78867006888999999862-495589972388520234651774455489999856871144510220016


Q ss_pred             CCCEEEEECC-CCC----CCHHCCCHHHHHHHHHHHHH-CCCEEEEC-CCCCCCHHHHHHHH--HCCCCCCCCCCCHHHH
Q ss_conf             8980687248-761----20320799999998999851-28889973-88888989999986--2012543578776889
Q gi|254780725|r  241 AENLSILTAP-AML----SRTYDFDEKMIVPVLDILEQ-IFPLVILD-VPHVWNSWTQEVLT--LSDKVVITTSLDLAGL  311 (427)
Q Consensus       241 ~~gL~lL~a~-~~~----~~~~~~~~~~l~~ll~~l~~-~yd~VIiD-~p~~~~~~~~~~L~--~AD~vviV~~p~~~sl  311 (427)
T Consensus        79 f~girCVESGGPePGVGCAGRGvItai~lL~~~g~y~dLdlD~V~YDVLGDVVCGGFAmP~R~g~A~eiYiVtSge~MAl  158 (278)
T TIGR01287        79 FGGIRCVESGGPEPGVGCAGRGVITAIDLLEELGAYEDLDLDVVIYDVLGDVVCGGFAMPLREGLAQEIYIVTSGEMMAL  158 (278)
T ss_pred             CCCEEEEEECCCCCCCCCCCCHHEEEEHHHHHCCCCCCCCCCEEEEEECCCEEECCCCCHHHCCCCCEEEEECCCHHHHH
T ss_conf             88318885076878952068711201337753378731167768984236556566036100588654888603406789


Q ss_pred             HHHHHHHHHHHHCC--CCCCCCEEEEECCCCCCCCHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHCCCCEEEECCCCHH
Q ss_conf             99999999999819--8767538999565898752005999999848953799068799999988479618988899989
Q gi|254780725|r  312 RNSKNLIDVLKKLR--PADKPPYLVLNQVKTPKKPEISISDFCAPLGITPSAIIPFDGAVFGMSANSGKMIHEVDPKSAI  389 (427)
Q Consensus       312 r~a~~ll~~l~~~~--~~~~~~~iVlNr~~~~~~~~i~~~~~~~~lg~~~~~~IP~D~~~~~~A~~~G~pi~e~~p~s~~  389 (427)
T Consensus       159 YAANNI~kGI~kYa~~GGv~LGG~IcN~R~~~~e~El-~~~fA~~lgtq~i~~VPrs~-~V~~AEl~~~TVIE~dP~s~q  236 (278)
T TIGR01287       159 YAANNIAKGILKYAKSGGVRLGGIICNSRNVDDEKEL-VDEFAKKLGTQLIHFVPRSN-IVQKAELEKKTVIEYDPESEQ  236 (278)
T ss_pred             HHHHHHHHHHHHHHHCCCCEECCEEECCCCCCCHHHH-HHHHHHHHCCEEEEECCCCC-CCHHHHHCCCCEEEECCCCHH
T ss_conf             9997887778999753882222478714576217899-99999873770675217885-212787368845633887157


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             9999999999852212232111058999987423
Q gi|254780725|r  390 ANLLVDFSRVLMGRVTVSKPQSAMYTKIKKIFNM  423 (427)
Q Consensus       390 a~~~~~La~~i~gr~~~~~~k~~~~~~l~~lf~r  423 (427)
T Consensus       237 A~~YR~LA~~I~~N~~~~iP~Pl~~~eL~~~~~~  270 (278)
T TIGR01287       237 ANEYRELAKKIYENEEFVIPTPLEMEELEELLMK  270 (278)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHH
T ss_conf             8999999999982578527998987899999987