HHsearch alignment for GI: 254780127 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=97.92  E-value=0.00015  Score=48.28  Aligned_cols=145  Identities=21%  Similarity=0.168  Sum_probs=72.2

Q ss_pred             CCEEEEEECCCCCCCCCCCCCHHHCCCC--EEEEEEEEECCCEE--EEE-------------------ECCCCCHHHHHH
Q ss_conf             9789998040678870004600002688--29999999838228--999-------------------788842217999
Q gi|254780127|r    1 MSKLFIDIETRSPQPLPKVGVWAYAEQA--VITLCAYAWDDEPV--KLW-------------------DRTEQSAMPSDL   57 (675)
Q Consensus         1 mk~l~lD~ET~s~~dl~~~Gl~~y~~~~--~I~~i~~a~~~~~~--~~~-------------------d~~~~~~~~~~l   57 (675)
T Consensus         5 lrvlsfDIEv~s~~~~---~-FP~p~~~~~~iisI~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~f~~E~~LL~~F   80 (204)
T cd05783           5 LKRIAIDIEVYTPIKG---R-IPDPKTAEYPVISVALAGSDGLKRVLVLKREGVEGLEGLLPEGAEVEFFDSEKELIREA   80 (204)
T ss_pred             CEEEEEEEEECCCCCC---C-CCCCCCCCCEEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCEEEEECCHHHHHHHH
T ss_conf             7499999887889999---7-97955588619999999279988999995087125765578998999959999999999


Q ss_pred             HHHHCCCCCEEEEEEH-HHHHHHHHH---HCCCCC---CCC--C---------EEEH-------HHHHHHHC---CCCCH
Q ss_conf             9986488981998630-775999998---629987---865--0---------4545-------88999858---89997
Q gi|254780127|r   58 LQYLRDETVMCVAHNS-LFERILFKK---TLGIDI---PSK--R---------WICT-------SVLARTNG---LPSSL  109 (675)
Q Consensus        58 ~~~L~~~~~~kv~HNa-~FD~~vL~~---~lGi~i---~~~--~---------~~DT-------mi~A~~l~---~p~sL  109 (675)
T Consensus        81 ~~~i~~~p-~Ii~wN~~~FDiPYL~~R~~~Lg~~~~~~~~~~~~~~~~~~~~~~~dl~~~~~~~~~~~y~~~~k~~sY~L  159 (204)
T cd05783          81 FKIISEYP-IVLTFNGDNFDLPYLYNRALKLGIPKEEIPIYLKRDYATLKHGIHIDLYKFFSNRAIQVYAFGNKYREYTL  159 (204)
T ss_pred             HHHHHCCC-EEEECCCCCCCHHHHHHHHHHHCCCCEEEEEEECCEEEEEEEEEEEEEHHHCCCCHHHHHHCCCCCCCCCH
T ss_conf             99974399-79981786778899999999859982045667343699993449998646357313544120242122528


Q ss_pred             HHHHHH-HCCCCCCHHHHHCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             899998-08898652766376576641002332013453112587689998988775399999999
Q gi|254780127|r  110 KNACLA-LNFSEHLTKMEEGKALIARFCKGSIDSPPYDCTRANHVQAWQLFGEYCKRDVEATRELF  174 (675)
Q Consensus       110 ~~la~~-lgl~~~~~kd~~gk~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ya~~Dv~~~~~L~  174 (675)
T Consensus       160 d~Va~~~LGe~K~d---~~~-------------------~--~~~~d~~k~i~YNi~D~~Lv~~L~  201 (204)
T cd05783         160 DAVAKALLGEGKVE---LEK-------------------N--ISELNLYELAEYNYRDAELTLELT  201 (204)
T ss_pred             HHHHHHHHCCCCCC---CCC-------------------C--CCCCCHHHHHEEEHHHHHHHHHHH
T ss_conf             89999983888600---676-------------------4--442586785514267767777862