HHsearch alignment for GI: 254781172 and conserved domain: cd06846

>cd06846 Adenylation_DNA_ligase_family The Adenylation domain of proteins from the ATP-dependent polynucleotide ligase family is the minimal catalytic unit that is common to all family members. ATP-dependent polynucleotide ligases catalyze the phosphodiester bond formation of nicked nucleic acid substrates using ATP as a cofactor in a three step reaction mechanism. This family includes ATP-dependent DNA and RNA ligases. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. 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 or nucleotidyltransferase (NTase) domain, and an oligonucleotide/oligosaccharide binding (OB)-fold domain. The adenylation domain binds ATP and contains many active site residues. Together with the C-terminal OB-fold domain, it comprises a catalytic core unit that is common to most members of the A
Probab=98.09  E-value=9.1e-05  Score=56.05  Aligned_cols=158  Identities=13%  Similarity=0.092  Sum_probs=88.9

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 ~~~~w~~E~K~DG~R~~~~~~~~~-v~l~SR----~g~~~t~~~p~---~~~~~~-~~~~~~iLDGElv~~~~~~~----   85 (187)
T cd06846          19 EDDGYYAQEKADGERALLSVLNGG-VFGISR----TGLEVPLPTII---ILAAKL-KLLPGFILDGEAVGERRGVK----   85 (187)
T ss_pred             CCCCEEEEEEECCEEEEEEEECCE-EEEEEC----CCCCCCCCCHH---HHHHHH-HCCCCCEEEEEEEEECCCCC----
T ss_conf             899789998073279999998999-999969----89985553877---999986-44898158989998758765----


Q ss_pred             HHHHCCCCCCCCHHHHHHHHHHCCCHHHHHCCCEEEEEEECCCCCC--CCCCCHHHHHHHHHCCCCCC----CCEEEEEC
Q ss_conf             6431485433423456777752345555301110566410245433--21000036899997599665----41488740
Q gi|254781172|r  204 EMIAVGRKPYANPRNAASGILRRLNPTDITRYLNFFVHGLGKTSEI--FAKGQYEMLQKMRCLGFPVN----NGVRQANT  277 (731)
Q Consensus       204 ~~~~~g~~~f~NpRN~aaG~lr~~d~~~~~r~L~f~ay~~~~~~~~--~~~~~~e~l~~L~~~GF~v~----~~~~~~~~  277 (731)
T Consensus        86 -----------~~~~-----------~~~~~~~~~~~FDiL~l~g~~l~~~pl~~R~~~L~~~~~~~~~~~~~~~~~~~~  143 (187)
T cd06846          86 -----------LIRP-----------FEANPKLQYYAFDVLELEGKDLRLLPYSRRLAYLKELGEEFAVKIVPLISAGKV  143 (187)
T ss_pred             -----------CCCH-----------HHHCCCCEEEEECCCCCCCCCHHHCCHHHHHHHHHHHHHHCCCCEEEEEECCCC
T ss_conf             -----------6330-----------342268479998334689835245619999999999762168752675550457


Q ss_pred             CCCHHHHHHHHHHHHCCCCCCCCCEEEEECCHHCCCCCCCCCCCCCC
Q ss_conf             32113455665531001123437637773110001115876568663
Q gi|254781172|r  278 FHGIVSYYNEMKSIRSTLPYDIDGLVYKVDEFSLQKQLGERARSPRW  324 (731)
Q Consensus       278 ~~~~~~~~~~~~~~r~~l~y~iDGiVikvn~~~~q~~lG~ts~~Prw  324 (731)
T Consensus       144 ~~~~~~~~~~~~~------~G~EGiv~K~~ds~Y~--~Gr~~~~~~W  182 (187)
T cd06846         144 DSPLDQLLARLDK------KGKEGIVFKHPDAPYK--AGRPGSGGTQ  182 (187)
T ss_pred             HHHHHHHHHHHHH------CCCCEEEEECCCCCCC--CCCCCCCCCE
T ss_conf             0589999999987------6996278748999658--9987999987