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