HHsearch alignment for GI: 254780818 and conserved domain: cd05783

>cd05783 DNA_polB_B1_exo The 3'-5' exonuclease domain of Sulfolobus solfataricus DNA polymerase B1 and similar archaeal proteins. B1 is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. B1displays thermostable polymerase and 3'-5' exonuclease activities. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family-B polymerases also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Family-B DNA polymerases from thermophilic archaea are unique in that they are able to recognize the presence of uracil in the template strand, leading to the stalling of DNA synthes
Probab=96.43  E-value=0.0085  Score=37.46  Aligned_cols=101  Identities=17%  Similarity=0.208  Sum_probs=57.2

Q ss_pred             CCCEEEEECCCC-----CC-CCCC--CEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCC
Q ss_conf             775899984678-----88-8888--889999999999998803137989858882288657242021012322485210
Q gi|254780818|r    6 KMRKIVFDIETT-----GL-DSKN--DRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFS   77 (245)
Q Consensus         6 ~mr~iv~D~ETT-----Gl-~~~~--d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~   77 (245)
T Consensus         4 ~lrvlsfDIEv~s~~~~~FP~p~~~~~~iisI~~~~-~~~---~~~~~~~~~~~-~~~~~~~-~~~~~---~v~~f~~E~   74 (204)
T cd05783           4 KLKRIAIDIEVYTPIKGRIPDPKTAEYPVISVALAG-SDG---LKRVLVLKREG-VEGLEGL-LPEGA---EVEFFDSEK   74 (204)
T ss_pred             CCEEEEEEEEECCCCCCCCCCCCCCCCEEEEEEEEC-CCC---CEEEEEEEECC-CCCCCCC-CCCCC---EEEEECCHH
T ss_conf             874999998878899997979555886199999992-799---88999995087-1257655-78998---999959999


Q ss_pred             HHHHHHHHHHHCCCCEEEEECC-CCCCCEEEECHHCCCCC
Q ss_conf             0234477753002320231023-22431121000001122
Q gi|254780818|r   78 SIFSEFWDFFNEQNAEWIAHNA-KFDVGFINAELQRINKD  116 (245)
Q Consensus        78 ev~~~f~~fi~~~~~~lVaHNa-~FD~~fL~~el~r~~~~  116 (245)
T Consensus        75 ~LL~~F~~~i~~~-p~Ii~wN~~~FDiPYL~~R~~~Lg~~  113 (204)
T cd05783          75 ELIREAFKIISEY-PIVLTFNGDNFDLPYLYNRALKLGIP  113 (204)
T ss_pred             HHHHHHHHHHHCC-CEEEECCCCCCCHHHHHHHHHHHCCC
T ss_conf             9999999997439-97998178677889999999985998