HHsearch alignment for GI: 254781172 and conserved domain: cd07898

>cd07898 Adenylation_DNA_ligase The Adenylation domain of ATP-dependent DNA Ligases is a component of the catalytic core unit. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. ATP-dependent ligases are present in many organisms such as viruses, bacteriophages, eukarya, archaea and bacteria. Some organisms express a variety of different ligases which appear to be targeted to a specific function. ATP dependent DNA ligases have a highly modular architecture consisting of a unique arrangement of two or more discrete domains including a DNA-binding domain, an adenylation (nucleotidyltransferase (NTase)) domain, and an oligonucleotide/oligosaccharide binding (OB)-fold domain. The adenylation domain binds ATP and contains many of the active-sit
Probab=98.55  E-value=4.3e-06  Score=66.32  Aligned_cols=161  Identities=15%  Similarity=0.134  Sum_probs=89.7

Q ss_pred             CCCEEEEEEECCEEEEEEEEECCEEEEEEECCCCHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEEEEEEECHHHHHHHH
Q ss_conf             76119999415818999998599899888659865566699977531024322335445504899999985202123455
Q gi|254781172|r  124 NSIFFTLEPKIDGTMITIRYEKGKFVYAALRGDGHSGEDVSACIRAIPTIPRVLSLNIPEIIEVRGEVYISKNDFLALND  203 (731)
Q Consensus       124 ~~~~~~vepKiDG~sisl~Y~~G~L~~a~TRGdG~~GeDVT~n~~~i~~iP~~l~~~~~~~ieiRGEv~m~~~~F~~lN~  203 (731)
T Consensus        19 ~~~~~~~E~K~DG~R~~~~~~~~~-v~l~SR----~gk~~t~~fpei~~~~~~~--~~~~~~IlDGElv~~d~~~~----   87 (201)
T cd07898          19 GPREMSFEIKYDGERCQVHKDGDR-VKLFSR----SGKDVTDDFPELAAAAKDC--ALPHSCILDGEIVAWDDNGG----   87 (201)
T ss_pred             CCCCEEEEEEECCEEEEEEEECCE-EEEEEC----CCCCCHHHHHHHHHHHHHC--CCCCCEEEEEEEEEECCCCC----
T ss_conf             898489998887189999998999-999958----9870012358899999854--68744599506999728999----


Q ss_pred             HHHHCCCCCCCCHHHHHHHHHHCCCHHHHHCCCEEEEEEECCCCCCCC--CCCHHHHHHHHHCCCCCCCCE-----EEEE
Q ss_conf             643148543342345677775234555530111056641024543321--000036899997599665414-----8874
Q gi|254781172|r  204 EMIAVGRKPYANPRNAASGILRRLNPTDITRYLNFFVHGLGKTSEIFA--KGQYEMLQKMRCLGFPVNNGV-----RQAN  276 (731)
Q Consensus       204 ~~~~~g~~~f~NpRN~aaG~lr~~d~~~~~r~L~f~ay~~~~~~~~~~--~~~~e~l~~L~~~GF~v~~~~-----~~~~  276 (731)
T Consensus        88 ---------~~~~f~~~~~~~~~~~-~~~~~~~~~~vFDil~l~g~~l~~~pl~eR~~~L~~~~~~~~~~i~~~~~~~~~  157 (201)
T cd07898          88 ---------KPLPFKALGRRFRGKR-LDEDVPVCLYAFDLLYLNGESLLDRPLSERRALLEDLVKEIPGRIRVAEQLIVD  157 (201)
T ss_pred             ---------CCCCHHHHHHHCCCCC-CCCCCCCEEEEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEEECC
T ss_conf             ---------7769999852355432-110378289999765188850112879999999998751289838999999759


Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCCCCEEEEECCHHC
Q ss_conf             03211345566553100112343763777311000
Q gi|254781172|r  277 TFHGIVSYYNEMKSIRSTLPYDIDGLVYKVDEFSL  311 (731)
Q Consensus       277 ~~~~~~~~~~~~~~~r~~l~y~iDGiVikvn~~~~  311 (731)
T Consensus       158 ~~~~i~~~~~~~~~------~G~EGimiK~~ds~Y  186 (201)
T cd07898         158 SIEELATAFSEARK------EGWEGLMLKRPDSTY  186 (201)
T ss_pred             CHHHHHHHHHHHHH------CCCCEEEEECCCCCC
T ss_conf             89999999999997------899779973799962