HHsearch alignment for GI: 254781193 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=98.31 E-value=8.3e-06 Score=56.01 Aligned_cols=147 Identities=21% Similarity=0.163 Sum_probs=76.4
Q ss_pred CCEEEEEECCCCCCCCCCCC-CHHHCCCCEEEEEEEEECCEE--EE-------------------EEECCCCHHHHHHHH
Q ss_conf 96899981417898700044-001127981999999984803--99-------------------997888104379999
Q gi|254781193|r 1 MATLFIDFETRSPIDLTKCG-ICKYAEDVCVILFAFGFDDHP--VE-------------------LWDCVHDPVMPQVLK 58 (675)
Q Consensus 1 mk~i~lD~ET~~~~dl~~~G-l~~y~~~~~i~~i~~a~~~~~--v~-------------------~~d~~~~~~~~~~l~ 58 (675)
T Consensus 5 lrvlsfDIEv~s~~~---~~FP~p~~~~~~iisI~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~f~~E~~LL~~F~ 81 (204)
T cd05783 5 LKRIAIDIEVYTPIK---GRIPDPKTAEYPVISVALAGSDGLKRVLVLKREGVEGLEGLLPEGAEVEFFDSEKELIREAF 81 (204)
T ss_pred CEEEEEEEEECCCCC---CCCCCCCCCCCEEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCEEEEECCHHHHHHHHH
T ss_conf 749999988788999---97979555886199999992799889999950871257655789989999599999999999
Q ss_pred HHHCCCCCEEEEEEH-HHHHHHHHHH---CCCCC---CC----C------CE-EEH-------HHHHHHHC---CCCCHH
Q ss_conf 986388981999730-7749999986---08998---84----2------03-316-------88999867---899968
Q gi|254781193|r 59 EALENTDVTIVAHNS-YFERTVLKAC---FNLDI---PI----H------RW-ICT-------LVLARSNG---LPSALK 110 (675)
Q Consensus 59 ~~L~~~~~~kV~HNa-~FD~~~L~~~---~Gi~i---~~----~------~~-~DT-------mi~A~~l~---~~~sL~ 110 (675)
T Consensus 82 ~~i~~~p-~Ii~wN~~~FDiPYL~~R~~~Lg~~~~~~~~~~~~~~~~~~~~~~~dl~~~~~~~~~~~y~~~~k~~sY~Ld 160 (204)
T cd05783 82 KIISEYP-IVLTFNGDNFDLPYLYNRALKLGIPKEEIPIYLKRDYATLKHGIHIDLYKFFSNRAIQVYAFGNKYREYTLD 160 (204)
T ss_pred HHHHCCC-EEEECCCCCCCHHHHHHHHHHHCCCCEEEEEEECCEEEEEEEEEEEEEHHHCCCCHHHHHHCCCCCCCCCHH
T ss_conf 9974399-799817867788999999998599820456673436999934499986463573135441202421225288
Q ss_pred HHHHHCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 98998299811004379999862021123433234678585328999999899899999999
Q gi|254781193|r 111 AVGEALKLSSQKMEEGKELIARFCKGETHECLYDRNKPNHREAWRLFGEYCKGDVTVTREIF 172 (675)
Q Consensus 111 ~la~~l~l~~~k~~~~k~l~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~Ya~~Dv~~t~~L~ 172 (675)
T Consensus 161 ~Va~~~-LGe~K~d~~~--------------------~~~~~d~~k~i~YNi~D~~Lv~~L~ 201 (204)
T cd05783 161 AVAKAL-LGEGKVELEK--------------------NISELNLYELAEYNYRDAELTLELT 201 (204)
T ss_pred HHHHHH-HCCCCCCCCC--------------------CCCCCCHHHHHEEEHHHHHHHHHHH
T ss_conf 999998-3888600676--------------------4442586785514267767777862