HHsearch alignment for GI: 254781193 and conserved domain: cd05160
>cd05160 DNA_polB_exo The 3'-5' exonuclease domain of family-B DNA polymerases. This domain has a fundamental role in reducing polymerase errors and is involved in proofreading activity. 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. This 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 contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The exonuclease domain of family B polymerase also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Members include E. coli DNA polymerase II, some eubacterial phage DNA polymerases, nuclear replicative DNA polymerases (alpha, delta, epsilon and zeta), and eukaryotic viral and
Probab=98.59 E-value=2e-06 Score=60.02 Aligned_cols=146 Identities=19% Similarity=0.203 Sum_probs=83.1
Q ss_pred EEEEECCCCCCCCCCCCCHHHCCCCEEEEEEEEEC--CEE---------------------EEEEECCCCHHHHHHHHHH
Q ss_conf 99981417898700044001127981999999984--803---------------------9999788810437999998
Q gi|254781193|r 4 LFIDFETRSPIDLTKCGICKYAEDVCVILFAFGFD--DHP---------------------VELWDCVHDPVMPQVLKEA 60 (675)
Q Consensus 4 i~lD~ET~~~~dl~~~Gl~~y~~~~~i~~i~~a~~--~~~---------------------v~~~d~~~~~~~~~~l~~~ 60 (675)
T Consensus 2 lsfDIE~~~~~g----fP~p--~~d~Ii~Is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~E~eLL~~F~~~ 75 (200)
T cd05160 2 LSFDIETLPNVG----GPEP--SRDPIICISYADSFQGHKVVFLLKVSTHGDDIEAGFIDGIEVEYFDDEKELLKRFFDI 75 (200)
T ss_pred EEEEEEECCCCC----CCCC--CCCEEEEEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCEEEEEECCHHHHHHHHHHH
T ss_conf 799983279999----7899--9880899999993599999988643556767654677996999969999999999999
Q ss_pred HC--CCCCEEEEEEH-HHHHHHHHH---HCCCCCC--------------------CCC-EEEHHHHHHHH--CCCCCHHH
Q ss_conf 63--88981999730-774999998---6089988--------------------420-33168899986--78999689
Q gi|254781193|r 61 LE--NTDVTIVAHNS-YFERTVLKA---CFNLDIP--------------------IHR-WICTLVLARSN--GLPSALKA 111 (675)
Q Consensus 61 L~--~~~~~kV~HNa-~FD~~~L~~---~~Gi~i~--------------------~~~-~~DTmi~A~~l--~~~~sL~~ 111 (675)
T Consensus 76 i~~~dPDii-~GyN~~~FD~pyL~~R~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~Gr~~lD~~~~~k~~~~l~sy~Ld~ 154 (200)
T cd05160 76 IREYDPDIL-TGYNIDDFDLPYLLERAKALGIKLDDIGRRSGQEKSSGETERAAVKGRVVFDLLRAVKRDFKLKSYTLDA 154 (200)
T ss_pred HHHCCCCEE-EECCCCCCCHHHHHHHHHHHCCCHHHCCCCCCCCCCCCCEEEEEECCEEEEHHHHHHHHHHCCCCCCHHH
T ss_conf 997099999-9726777848899999999698855546734545435750599736778602899999753246653999
Q ss_pred HHHHCCCCCCHHH-HHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 8998299811004-3799998620211234332346785853289999998998999999996
Q gi|254781193|r 112 VGEALKLSSQKME-EGKELIARFCKGETHECLYDRNKPNHREAWRLFGEYCKGDVTVTREIFK 173 (675)
Q Consensus 112 la~~l~l~~~k~~-~~k~l~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~Ya~~Dv~~t~~L~~ 173 (675)
T Consensus 155 Va~~~-Lg~~K~d~~~~~~~~~~----------------~~~d~~k~~~Y~~~D~~L~~~L~e 200 (200)
T cd05160 155 VAEEL-LGEGKEKVDGEIIEDLE----------------WEEDLERLLEYNLKDAELTLQILE 200 (200)
T ss_pred HHHHH-HCCCCCCCCHHHHHHHH----------------HCCCCHHHHHEEHHHHHHHHHHHC
T ss_conf 99998-49997878989999998----------------738914866025999998999759