HHsearch alignment for GI: 254780636 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=97.74 E-value=0.00018 Score=45.23 Aligned_cols=142 Identities=18% Similarity=0.188 Sum_probs=76.1
Q ss_pred CEEEECCCCCCC----CCCCEEEEEEEEEC-CCCEEEE----------------------CCCCCCCCCHHHHHHH--HC
Q ss_conf 279971777898----54450799998418-9428997----------------------4657785706776777--32
Q gi|254780636|r 22 AIAVDTETLGLM----PRRDRLCIVQLSPG-DGTVDII----------------------RIAAGQKNAPNLVGML--VD 72 (207)
Q Consensus 22 ~iaiDtEt~~l~----~~~~~l~LiQl~~~-~~~~~l~----------------------~~~~~~~~~~~L~~ll--~d 72 (207)
T Consensus 1 vlsfDIE~~~~~gfP~p~~d~Ii~Is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~E~eLL~~F~~~i~~~d 80 (200)
T cd05160 1 VLSFDIETLPNVGGPEPSRDPIICISYADSFQGHKVVFLLKVSTHGDDIEAGFIDGIEVEYFDDEKELLKRFFDIIREYD 80 (200)
T ss_pred CEEEEEEECCCCCCCCCCCCEEEEEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCEEEEEECCHHHHHHHHHHHHHHCC
T ss_conf 97999832799997899988089999999359999998864355676765467799699996999999999999999709
Q ss_pred CCCCEEECCC-CHHHHHHHHHH---HCCCCC-----------------------HHHHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf 3640230100-00168886542---000000-----------------------04578988652110000008877765
Q gi|254780636|r 73 EKREKIFHYG-RFDIAVLFYTF---GVRVRP-----------------------VFCTKIASRLTRTYTNQHGLKDNLKE 125 (207)
Q Consensus 73 ~~i~KV~Hn~-~~D~~~L~~~~---gi~~~~-----------------------i~DT~ias~l~~~~~~~~~L~~L~~~ 125 (207)
T Consensus 81 PDii-~GyN~~~FD~pyL~~R~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~Gr~~lD~~~~~k~~-~~l~sy~Ld~Va~~ 158 (200)
T cd05160 81 PDIL-TGYNIDDFDLPYLLERAKALGIKLDDIGRRSGQEKSSGETERAAVKGRVVFDLLRAVKRD-FKLKSYTLDAVAEE 158 (200)
T ss_pred CCEE-EECCCCCCCHHHHHHHHHHHCCCHHHCCCCCCCCCCCCCEEEEEECCEEEEHHHHHHHHH-HCCCCCCHHHHHHH
T ss_conf 9999-972677784889999999969885554673454543575059973677860289999975-32466539999999
Q ss_pred HHCCCCCC-C-CEECCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 42002467-5-2003656544323689999864599999999
Q gi|254780636|r 126 LLGINISK-A-QQSSDWSADDLSDEQLQYAASDVVHLHALRL 165 (207)
Q Consensus 126 ~lg~~ldK-~-~q~SdW~~rpLs~~Qi~YAA~Dv~~l~~L~~ 165 (207)
T Consensus 159 ~Lg~~K~d~~~~~~~~~~~~~d~~k~~~Y~~~D~~L~~~L~e 200 (200)
T cd05160 159 LLGEGKEKVDGEIIEDLEWEEDLERLLEYNLKDAELTLQILE 200 (200)
T ss_pred HHCCCCCCCCHHHHHHHHHCCCCHHHHHEEHHHHHHHHHHHC
T ss_conf 849997878989999998738914866025999998999759