HHsearch alignment for GI: 254780127 and conserved domain: cd05781
>cd05781 DNA_polB_B3_exo The 3'-5' exonuclease domain of archaeal proteins with similarity to Sulfurisphaera ohwakuensis DNA polymerase B3. B3 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. B3 exhibits both 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. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some archaea possess multiple family-B DNA polymerases. B3 is mainly found in crenarch
Probab=99.07 E-value=1e-08 Score=75.87 Aligned_cols=155 Identities=17% Similarity=0.234 Sum_probs=92.9
Q ss_pred CCEEEEEECCCCCCCCCCCCCHHHCCCCEEEEEEEEECCCEEEEEECCCCC--HHHHHHHHHHC--CCCCEEEEEEH-HH
Q ss_conf 978999804067887000460000268829999999838228999788842--21799999864--88981998630-77
Q gi|254780127|r 1 MSKLFIDIETRSPQPLPKVGVWAYAEQAVITLCAYAWDDEPVKLWDRTEQS--AMPSDLLQYLR--DETVMCVAHNS-LF 75 (675)
Q Consensus 1 mk~l~lD~ET~s~~dl~~~Gl~~y~~~~~I~~i~~a~~~~~~~~~d~~~~~--~~~~~l~~~L~--~~~~~kv~HNa-~F 75 (675)
T Consensus 3 lk~lsfDIE~~~~~gfp~------~~~d~Ii~Is~~~~~g~~~~~~~~~~~E~~ll~~f~~~i~~~~Pdii-~gyN~~~F 75 (188)
T cd05781 3 LKTLAFDIEVYSKYGTPN------PRRDPIIVISLATSNGDVEFILAEGLDDRKIIREFVKYVKEYDPDII-VGYNSNAF 75 (188)
T ss_pred CEEEEEEEEECCCCCCCC------CCCCCEEEEEEEECCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCEE-EECCCCCC
T ss_conf 419999988768999899------88897899999968997699984799989999999999987299999-96698675
Q ss_pred HHHHHHH---HCCCCCC--------------------CCCEEEHHHHHH-HHC-CCCCHHHHHHHHCCCCCCHH-HHHCH
Q ss_conf 5999998---6299878--------------------650454588999-858-89997899998088986527-66376
Q gi|254780127|r 76 ERILFKK---TLGIDIP--------------------SKRWICTSVLAR-TNG-LPSSLKNACLALNFSEHLTK-MEEGK 129 (675)
Q Consensus 76 D~~vL~~---~lGi~i~--------------------~~~~~DTmi~A~-~l~-~p~sL~~la~~lgl~~~~~k-d~~gk 129 (675)
T Consensus 76 D~pyl~~Ra~~~~i~l~~gr~~~~~~~~~~~~~~~i~Gr~~iDl~~~~~~~~~l~sysL~~Va~~lg~~~k~e~~~~~~~ 155 (188)
T cd05781 76 DWPYLVERARVLGVKLDVGRRGGSEPSTGVYGHYSITGRLNVDLYDFAEEIPEVKVKTLENVAEYLGVMKKSERVLIEWY 155 (188)
T ss_pred CHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEECHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCCCCHH
T ss_conf 78999999999699850155677651225420699878999977899976247564579999998541224544657999
Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 576641002332013453112587689998988775399999999872
Q gi|254780127|r 130 ALIARFCKGSIDSPPYDCTRANHVQAWQLFGEYCKRDVEATRELFKRL 177 (675)
Q Consensus 130 ~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ya~~Dv~~~~~L~~~L 177 (675)
T Consensus 156 ~I~~--------------~~-~~~~~r~~l~~YnlqDa~L~~~L~~KL 188 (188)
T cd05781 156 RIYE--------------YW-DDEKKRDILLKYNRDDARSTYGLAEKL 188 (188)
T ss_pred HHHH--------------HH-HCCCCHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 9999--------------87-084121699999788799999998429