HHsearch alignment for GI: 254780661 and conserved domain: cd06125
>cd06125 DnaQ_like_exo The DnaQ-like exonuclease superfamily is a structurally conserved group of 3'-5' exonucleases, which catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. It is also called the DEDD superfamily, after the four invariant acidic residues present in the catalytic site of its members. The superfamily consists of DNA- and RNA-processing enzymes such as the proofreading domains of DNA polymerases, other DNA exonucleases, RNase D, RNase T, Oligoribonuclease and RNA exonucleases (REX). The DnaQ-like exonuclease domain contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, which 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 conservation patterns of the three motifs may vary among different subfamilies. DnaQ-like exonucleases are classified as DEDDy or DEDDh exonucleases depending on the variation of motif
Probab=99.82 E-value=1.9e-19 Score=143.74 Aligned_cols=116 Identities=29% Similarity=0.212 Sum_probs=97.0
Q ss_pred EEEECCCCCCCC-CCCEEEEEEEEEECCCCEECCEEEEEEECCCCCCCCCHHHHHHHCCCHHHHHHCCCCHHHHHHHHHH
Q ss_conf 999752788987-7260489999998389728040022662178887785789898579988996079997999999999
Q gi|254780661|r 6 VIYDYETFGRDV-ALDRPAQFAGVRVDRQWEKIESTEVFFCKPADDYLPDPEAVFITGITPQKALRDGVVEAEFSRRIHQ 84 (471)
Q Consensus 6 v~~D~ETtG~~~-~~~~iiq~~~i~~d~~~~~~~~~~~~~~~~~~~~~p~p~a~~v~git~~~~~~~~~~~~e~~~~i~~ 84 (471)
T Consensus 1 Vv~D~ETTGl~~~~~d~Iiei~~v~~~~-~---~~~~~-~v--~p~~~i~~~~~~i~gi~~~~v~~~p-~~~~~~~~~~~ 72 (130)
T cd06125 1 VAFDIETTGLNGNARDEIIEIALVVVHI-G---EKFVF-DV--KPDDLIDPYAFTISGITDEVVERAA-TEAELLIELLA 72 (130)
T ss_pred CEEEEECCCCCCCCCCEEEEEEEEEEEC-C---CEEEE-EE--CCCCCCCHHHHHCCCCCHHHHHHHH-HHHHHHHHHHH
T ss_conf 9898018996999998589999999718-9---88999-97--9999899779410375999983306-08999999999
Q ss_pred HHHCCCCEEEEEECHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHH
Q ss_conf 95117965999505578999999999850785321325688710015888
Q gi|254780661|r 85 FFSVPNTCIIGYNNIRFDDYYSRNIFYRNFYDSYRWSWDNGNSRWDLLDV 134 (471)
Q Consensus 85 ~~~~~~~~~ig~N~~~FD~~~lr~~~~r~~~~~y~~~~~~~~~~~D~l~~ 134 (471)
T Consensus 73 f~~~~~~ilVgHN~-~FD~~fL~~~~~r~g~~~~----~~~~~~iDTl~l 117 (130)
T cd06125 73 FLRDKDDILVGHNI-SFDLPYLLNRAAELGIPYP----ILGRIVFDTLAL 117 (130)
T ss_pred HHCCCCCEEEEECH-HHHHHHHHHHHHHCCCCCC----CCCCCEEECHHH
T ss_conf 97699999999194-7749999999998499998----789968686098