HHsearch alignment for GI: 254781193 and conserved domain: cd05779

>cd05779 DNA_polB_epsilon_exo The 3'-5' exonuclease domain of eukaryotic DNA polymerase epsilon. DNA polymerase epsilon is a family-B DNA polymerase with a catalytic subunit that contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (alpha and delta are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase epsilon plays a role in elongating the leading strand during DNA replication. It is also involved in DNA repair. The catalytic subunit contains both polymerase and 3'-5' exonuclease activities. The N-terminal 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. DNA polymerase epsilon also carries a unique large C-terminal domain with an unknown function. Phylogenetic analyses indicate that it is ort
Probab=98.51  E-value=3.3e-06  Score=58.60  Aligned_cols=149  Identities=20%  Similarity=0.241  Sum_probs=78.5

Q ss_pred             CEEEEEECCCCCCCCCCCCCHHHCCCCEEEEEEEEECCEE---------------------------EEEEECCCCHHHH
Q ss_conf             6899981417898700044001127981999999984803---------------------------9999788810437
Q gi|254781193|r    2 ATLFIDFETRSPIDLTKCGICKYAEDVCVILFAFGFDDHP---------------------------VELWDCVHDPVMP   54 (675)
Q Consensus         2 k~i~lD~ET~~~~dl~~~Gl~~y~~~~~i~~i~~a~~~~~---------------------------v~~~d~~~~~~~~   54 (675)
T Consensus         3 rilsfDIE~~~~~-~---~-fP~~~~D~Ii~Is~~~~~~g~~i~~~~~~~~~i~~~~~~~~~~~~g~~~v~~~~~E~~ll   77 (204)
T cd05779           3 RVLAFDIETTKLP-L---K-FPDAETDQIMMISYMIDGQGYLIVNREIVSEDIEDFEYTPKPEYEGPFKVFNEPDEKALL   77 (204)
T ss_pred             EEEEEEEEEECCC-C---C-CCCCCCCEEEEEEEEEECCCEEEEECCCCCCCCCCCCCCCCCCCCCCEEEEECCCHHHHH
T ss_conf             7999999950799-9---9-989888908999999916877987434013533000146785665764898369999999


Q ss_pred             HHHHHHHC--CCCCEEEEEEH-HHHHHHHHH---HCCCCCCC---------------CCE-EEHHH-HHH--HHC-CCCC
Q ss_conf             99999863--88981999730-774999998---60899884---------------203-31688-999--867-8999
Q gi|254781193|r   55 QVLKEALE--NTDVTIVAHNS-YFERTVLKA---CFNLDIPI---------------HRW-ICTLV-LAR--SNG-LPSA  108 (675)
Q Consensus        55 ~~l~~~L~--~~~~~kV~HNa-~FD~~~L~~---~~Gi~i~~---------------~~~-~DTmi-~A~--~l~-~~~s  108 (675)
T Consensus        78 ~~f~~~i~~~~pdi-i~gyN~~~FD~pyl~~Ra~~~~~~~~~~~~~~~~~~~~~~~~~~vhiDly~~v~rd~~l~~~sy~  156 (204)
T cd05779          78 QRFFEHIREVKPHI-IVTYNGDFFDWPFVEARAAIHGLSMEEEIGFRKDSEGEYKSRYIIHMDCFRWVKRDSYLPQGSQG  156 (204)
T ss_pred             HHHHHHHHHCCCCE-EEECCCCCCCHHHHHHHHHHHCCCHHHHCCCCCCCCCCEECCCCEEEECHHHHHHHCCCCCCCCC
T ss_conf             99999998649999-98558767767999999999599825531800067772762672563007765101217556877


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             68989982998110043799998620211234332346785853289999998998999999996
Q gi|254781193|r  109 LKAVGEALKLSSQKMEEGKELIARFCKGETHECLYDRNKPNHREAWRLFGEYCKGDVTVTREIFK  173 (675)
Q Consensus       109 L~~la~~l~l~~~k~~~~k~l~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~Ya~~Dv~~t~~L~~  173 (675)
T Consensus       157 Ln~Vs~~~-Lg~~K~dv~~~~m~~l~----------------~~~~~~la~Y~~~Da~~Ty~l~~  204 (204)
T cd05779         157 LKAVTKAK-LGYDPVELDPEDMVPLA----------------REDPQTLASYSVSDAVATYYLYM  204 (204)
T ss_pred             HHHHHHHH-HCCCCCCCCHHHHHHHH----------------CCCHHHHHHCCHHHHHHHHHHHC
T ss_conf             89999999-68997508999999998----------------28915555240999999999769