HHsearch alignment for GI: 254780277 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=97.60 E-value=0.00014 Score=51.93 Aligned_cols=162 Identities=18% Similarity=0.138 Sum_probs=82.9
Q ss_pred CCCCCCCCCCC----CCCCCCCCCEEECCCCCCCCCCCCCCEECCCCC-CCCCCC-CC-CCCCHHHHHHHHHHHHC--CC
Q ss_conf 23233222433----110012442010257766544345502313744-333456-50-01788999974444202--22
Q gi|254780277|r 390 ASFKIITDTMD----AFHSKPIAIAISTLDQKDDTSFKVETIFIDLSV-HTSQDS-TG-KNTLTKEILSYLKKFFE--NE 460 (976)
Q Consensus 390 ia~DtETt~ld----~~~~~ivGisls~~~~~~~~~~~~~~~yip~~~-~~~~d~-~~-~~~~~~evl~~L~~lle--~~ 460 (976)
T Consensus 2 lsfDIE~~~~~gfP~p~~d~Ii~Is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~E~eLL~~F~~~i~~~dP 81 (200)
T cd05160 2 LSFDIETLPNVGGPEPSRDPIICISYADSFQGHKVVFLLKVSTHGDDIEAGFIDGIEVEYFDDEKELLKRFFDIIREYDP 81 (200)
T ss_pred EEEEEEECCCCCCCCCCCCEEEEEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCEEEEEECCHHHHHHHHHHHHHHCCC
T ss_conf 79998327999978999880899999993599999988643556767654677996999969999999999999997099
Q ss_pred CCHHHHCCC-CHHHHHHH----HCCCCCC---------------------C--CCCHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf 100110032-12378898----6188666---------------------4--210023455431687667724667762
Q gi|254780277|r 461 HFLKIGHNI-KYDKLVLH----RYGISMR---------------------G--FEDIMLMSYVLDSGRSSHDIASIAQKW 512 (976)
Q Consensus 461 ~i~kIgHN~-KfD~~~L~----~~GI~l~---------------------~--i~DTmlaayLLdp~~~~~~L~~la~~y 512 (976)
T Consensus 82 Dii-~GyN~~~FD~pyL~~R~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~Gr~~lD~~~~~k-~~~~l~sy~Ld~Va~~~ 159 (200)
T cd05160 82 DIL-TGYNIDDFDLPYLLERAKALGIKLDDIGRRSGQEKSSGETERAAVKGRVVFDLLRAVK-RDFKLKSYTLDAVAEEL 159 (200)
T ss_pred CEE-EECCCCCCCHHHHHHHHHHHCCCHHHCCCCCCCCCCCCCEEEEEECCEEEEHHHHHHH-HHHCCCCCCHHHHHHHH
T ss_conf 999-9726777848899999999698855546734545435750599736778602899999-75324665399999998
Q ss_pred CCCCCCCCCCCCCCCCCCHHHCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 244422335654322210000001233332221111124567
Q gi|254780277|r 513 LSYTRKEILKSRKSSIPIDKISDSQVQEHAIENSNVILQLWL 554 (976)
Q Consensus 513 L~~~~~e~~~~~k~~~~~~~i~~e~~~~Yaa~Da~~t~~L~~ 554 (976)
T Consensus 160 Lg~~K~d~~~~~~~~~-~~~~d~~k~~~Y~~~D~~L~~~L~e 200 (200)
T cd05160 160 LGEGKEKVDGEIIEDL-EWEEDLERLLEYNLKDAELTLQILE 200 (200)
T ss_pred HCCCCCCCCHHHHHHH-HHCCCCHHHHHEEHHHHHHHHHHHC
T ss_conf 4999787898999999-8738914866025999998999759