HHsearch alignment for GI: 254780834 and conserved domain: TIGR00646

>TIGR00646 MG010 DNA primase homolog; InterPro: IPR004611 The DNA primase DnaG of Escherichia coli and its apparent orthologs in other bacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein found in this family, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown..
Probab=98.43  E-value=1e-06  Score=81.42  Aligned_cols=197  Identities=22%  Similarity=0.299  Sum_probs=141.4

Q ss_pred             HHHHHHHHHCCC---CCHHHHHHHHHCCCCHHHHCCCCCCCCCCCCCHHHHHHHCCCCCHHHHHHHCCCEECCCCCCCCC
Q ss_conf             999999973267---77578999985068853510124422567741034554205997345232012100346541000
Q gi|254780834|r  124 ATDFFHHSLKNA---RDKRLHYYLDERGIDSHAIEMFKLGYAPDSRYSLREHLRQKGFSEEKIIEAGLLIDGDNSATSYD  200 (648)
Q Consensus       124 ~~~~~~~~l~~~---~~~~a~~yl~~Rg~~~~~~~~f~lG~ap~~~~~l~~~l~~~~~~~~~~~~~gl~~~~~~~~~~~d  200 (648)
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~d~~~~ggg~~---------~~---------------------------   54 (218)
T TIGR00646        11 LFFVYHKNLKNQSKSKYRCPVNYLKKRGFNLQDLLKVGGGLG---------YL---------------------------   54 (218)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHCCCCHH---------HC---------------------------
T ss_conf             666554210100012455567777632775356654044200---------00---------------------------


Q ss_pred             CCCCEEEEEEEECCCCEEEEECCCCCCCCCCEECCCCCCCCCCCCHHCCCHHHHHHHHHHHHCCCCCCCCCCEEEEECCH
Q ss_conf             01671688897077858885010014655300103876765352101108178888643310000235678708997143
Q gi|254780834|r  201 RFRNRLIFPIRSSRGQVIAFGGRTLSKGESVKYLNSPETILFHKGKNLYNFFGALNYLQKSIRKDVRRNSSSFIILVEGY  280 (648)
Q Consensus       201 ~Fr~Ri~fPi~~~~g~~i~f~gR~l~~~~~~KYlNSpeT~if~K~~~Ly~l~~a~~~~~~~~~~~~~~~~~~~~i~vEGy  280 (648)
T Consensus        55 ~~~~w~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~p~~~pp~~~~~~~g~~~~~~-------------~~~~~~~~~gd  119 (218)
T TIGR00646        55 GEKEWLNLPLYNFDGNLVGFLNRKVGF--EKEFLYLPFNKPPSKSEAFLGLKELPT-------------EDNTIYLVEGD  119 (218)
T ss_pred             CCCCCCCCEEECCCCCCHHHHHHHCCC--CCCEEECCCCCCCCCCHHHHHHHHHCC-------------CCCEEEEEECC
T ss_conf             342100000001366101122211011--100022146788541012310122000-------------25505886166


Q ss_pred             HHHHHHHHCCCCCCHHHHHCCCCHHHHHHHHHC-CCEEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCCC-CC
Q ss_conf             889998743554211343213662678988512-6818996178866225777888888777536973067525788-88
Q gi|254780834|r  281 MDVLSLCQAGVQNVVSSLGTALTEYQLRLLWKL-SPRIVLCFDGDDPGLRAAYKAIDLVLCHLIPGNRVNFVLLSRG-ED  358 (648)
Q Consensus       281 ~Dvi~l~~~G~~n~va~~Gtalt~~~~~~l~r~-~~~vvl~fDgD~AG~kAa~Ra~e~~l~~l~~g~~v~vv~LP~G-~D  358 (648)
T Consensus       120 ~dw~~~~~~g~~~~~p~cg~~~~~~~~~~~~~~~~~~~~~c~d~d~~g~~~~~~~~~~---~~~~g~~~~~~~~~~~~~d  196 (218)
T TIGR00646       120 FDWLAFRKGGILNCLPLCGLTLSDKQVKWLKQKKIEKVFLCLDNDLAGKNGAKNLEEY---LKNAGFITKVVELKGKAKD  196 (218)
T ss_pred             CHHHHHHHCCCHHHHHHCCCCCCHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHH---HHHCCCEEEHHHHHHHHCC
T ss_conf             2011221033100000103100203566655411004566523530000235568888---7404731210002100012


Q ss_pred             HHHHHHCCCHHHHHHHH
Q ss_conf             88997203668899886
Q gi|254780834|r  359 PDSFIRCYGKTAFEKLI  375 (648)
Q Consensus       359 PDe~ir~~G~eaf~~ll  375 (648)
T Consensus       197 w~~~~~~~-~~~w~~~~  212 (218)
T TIGR00646       197 WNDLLLLY-PKNWAKAL  212 (218)
T ss_pred             CCCEEEEC-CCCHHHHH
T ss_conf             00012421-64045666