HHsearch alignment for GI: 254780277 and conserved domain: cd06127
>cd06127 DEDDh DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved sequence motifs termed ExoI, ExoII and ExoIII. DEDDy exonucleases are classified as such because of the presence of specific Hx(4)D conserved pattern at the ExoIII motif. The four conserved acidic residues are clustered around the active site and serve as ligands for the two metal ions required for catalysis. Most DEDDh exonucleases are the proofreading subunits (epsilon) or domains of bacterial DNA polymerase III, the main replicating enzyme in bacteria, which functions as the chromosomal replicase. Other members include other DNA and RNA exonucleases such as RNase T, Oligoribonuclease, and RNA exonuclease (REX), among others.
Probab=98.63 E-value=1.2e-07 Score=74.35 Aligned_cols=142 Identities=15% Similarity=0.152 Sum_probs=88.2
Q ss_pred CCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCEEC-CCC---------CCCCCCCCCCCCCHHHHHHHHHHHHCC
Q ss_conf 2323322243311001244201025776654434550231-374---------433345650017889999744442022
Q gi|254780277|r 390 ASFKIITDTMDAFHSKPIAIAISTLDQKDDTSFKVETIFI-DLS---------VHTSQDSTGKNTLTKEILSYLKKFFEN 459 (976)
Q Consensus 390 ia~DtETt~ld~~~~~ivGisls~~~~~~~~~~~~~~~yi-p~~---------~~~~~d~~~~~~~~~evl~~L~~lle~ 459 (976)
T Consensus 1 v~~D~ETTGl~~~~~~Iieia~v~~~~~~~~~~-~~~~~i~P~~~~~~~~~~i~gi~~~~~~~~~~~~~~~~~~~~~l~~ 79 (159)
T cd06127 1 VVLDTETTGLDPKGDRIIEIGAVKVDGGIEIVE-RFETLVNPGRPIPPEATAIHGITDEMLADAPPFEEVLPEFLEFLGG 79 (159)
T ss_pred CEEEEECCCCCCCCCCEEEEEEEEEECCEEEEE-EEEEEECCCCCCCHHHHHHHCCCHHHHCCCCCHHHHHHHHHHHCCC
T ss_conf 989826799999998469999999999956520-0799988999999889876067789958999689999999873156
Q ss_pred CCCHHHHCCCCHHHHHHHH----CCCCCC--CCCCHHHHHHHHCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCHHH
Q ss_conf 2100110032123788986----188666--4210023455431687667724667762244422335654322210000
Q gi|254780277|r 460 EHFLKIGHNIKYDKLVLHR----YGISMR--GFEDIMLMSYVLDSGRSSHDIASIAQKWLSYTRKEILKSRKSSIPIDKI 533 (976)
Q Consensus 460 ~~i~kIgHN~KfD~~~L~~----~GI~l~--~i~DTmlaayLLdp~~~~~~L~~la~~yL~~~~~e~~~~~k~~~~~~~i 533 (976)
T Consensus 80 ~--~lv~hN~~FD~~~L~~~~~~~~~~~~~~~~iDt~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------- 142 (159)
T cd06127 80 R--VLVAHNASFDLRFLNRELRRLGGPPLPNPWIDTLRLARRLLPGLRSHRLGLLLAARYGIPLE--------------- 142 (159)
T ss_pred C--EEEECCHHHHHHHHHHHHHHCCCCCCCCCEEEHHHHHHHHCCCCCCCCHHHHHHHHCCCCCC---------------
T ss_conf 3--46515888999999999998399988996664799999973888899999999997698879---------------
Q ss_pred CCHHHHHHHHHHHHHHHHHH
Q ss_conf 00123333222111112456
Q gi|254780277|r 534 SDSQVQEHAIENSNVILQLW 553 (976)
Q Consensus 534 ~~e~~~~Yaa~Da~~t~~L~ 553 (976)
T Consensus 143 ----~aH~Al~D~~at~~l~ 158 (159)
T cd06127 143 ----GAHRALADALATAELL 158 (159)
T ss_pred ----CCCCHHHHHHHHHHHH
T ss_conf ----8959899999999996