HHsearch alignment for GI: 254780661 and conserved domain: cd06140
>cd06140 DNA_polA_I_Bacillus_like_exo Bacillus stearothermophilus-like Polymerase I (pol I), a subgroup of the family-A DNA polymerases, contains an inactive DnaQ-like 3'-5' exonuclease domain in the same polypeptide chain as the polymerase region. The exonuclease-like domain of these proteins possess the same fold as the Klenow fragment (KF) of Escherichia coli pol I, but does not contain the four critical metal-binding residues necessary for activity. The function of this domain is unknown. It might act as a spacer between the polymerase and the 5'-3' exonuclease domains. Some members of this subgroup, such as those from Bacillus sphaericus and Thermus aquaticus, are thermostable DNA polymerases.
Probab=97.57 E-value=0.006 Score=37.71 Aligned_cols=137 Identities=14% Similarity=0.071 Sum_probs=83.9
Q ss_pred CCCEEEEECCCCCCCCCCCEEEEEEEEEECCCCEECCEEEEEEECCCCCCCCCHHHHHHHCCCHHHHHHCCCCHHHHHHH
Q ss_conf 88379997527889877260489999998389728040022662178887785789898579988996079997999999
Q gi|254780661|r 2 TNHFVIYDYETFGRDVALDRPAQFAGVRVDRQWEKIESTEVFFCKPADDYLPDPEAVFITGITPQKALRDGVVEAEFSRR 81 (471)
Q Consensus 2 ~~~~v~~D~ETtG~~~~~~~iiq~~~i~~d~~~~~~~~~~~~~~~~~~~~~p~p~a~~v~git~~~~~~~~~~~~e~~~~ 81 (471)
T Consensus 2 ~~~~~av~~e~~~~~~~~~~i~gi~l~-~-~-~----~--~~yi~~-~~~------~------------------~~~~~ 47 (178)
T cd06140 2 LADEVALYVELLGENYHTADIIGLALA-N-G-G----G--AYYIPL-ELA------L------------------LDLAA 47 (178)
T ss_pred CCCCEEEEEECCCCCCCCCEEEEEEEE-E-C-C----E--EEEEEC-CCC------H------------------HHHHH
T ss_conf 888669997379998453549999998-8-9-9----7--999956-673------6------------------46999
Q ss_pred HHHHHHCCCCEEEEEECHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHH
Q ss_conf 99995117965999505578999999999850785321325688710015888865556532100244444544331089
Q gi|254780661|r 82 IHQFFSVPNTCIIGYNNIRFDDYYSRNIFYRNFYDSYRWSWDNGNSRWDLLDVMRAIYAFSPDGIQWPSRDDGATSFKLQ 161 (471)
Q Consensus 82 i~~~~~~~~~~~ig~N~~~FD~~~lr~~~~r~~~~~y~~~~~~~~~~~D~l~~~~~~~~~~p~~~~~~~~~~~~~~~kL~ 161 (471)
T Consensus 48 lk~~l~d~~i~Ki~hn-~K~~~~~L~~----~Gi~l-------~g~~fDtmiaa---yLl~p~----------~~~~~L~ 102 (178)
T cd06140 48 LKEWLEDEKIPKVGHD-AKRAYVALKR----HGIEL-------AGVAFDTMLAA---YLLDPT----------RSSYDLA 102 (178)
T ss_pred HHHHHCCCCCCEEEEC-HHHHHHHHHH----CCCCC-------CCCHHHHHHHH---HHHCCC----------CCCCCHH
T ss_conf 9999729999889865-7999999998----89806-------88303688898---875489----------7779999
Q ss_pred HHHHHHCC-CCCC-------------------CCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 89987188-7643-------------------101333189999999999864226
Q gi|254780661|r 162 DLALANGI-EHVN-------------------AHDAKADVYATLALVWLIREKKPK 197 (471)
Q Consensus 162 ~la~~n~i-~~~~-------------------aH~A~~D~~~t~~l~k~i~~~~p~ 197 (471)
T Consensus 103 ~L~~~yl~~~~~~~~~~~gk~~~~~~~~~~~~~~ya~~~a~~~~~L~~~l~~~L~e 158 (178)
T cd06140 103 DLAKRYLGRELPSDEEVYGKGAKFAVPDEEVLAEHLARKAAAILRLAPKLEEELEE 158 (178)
T ss_pred HHHHHHHCCCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99999828666547886176656243997999999999999999999999999998