HHsearch alignment for GI: 254781172 and conserved domain: cd00141
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=97.26 E-value=0.00085 Score=48.53 Aligned_cols=81 Identities=17% Similarity=0.205 Sum_probs=44.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHCCCCCHHHHHCCCCCCH
Q ss_conf 4210014568999987522346667763010111168999999882--99899999789776125117787613888678
Q gi|254781172|r 529 GFGDVSVTNLYDSINKRRNISLERFIFSLGIRHVGAEIARSLAKYY--LSYQNFAQEINNIIAHNNDDWLSLIRVPLVGD 606 (731)
Q Consensus 529 GfgeKsa~nL~~sIe~sK~~~L~r~L~ALGI~~vG~~~Ak~La~~f--~si~~l~~~~~~~~~~~~~~~e~L~~I~GiG~ 606 (731)
T Consensus 21 ~fr~rAY~~Aa~~l~~~-~~~i~~~~~~~~lpGIG~~ia~kI~Eil~tG~~~~le----~l~~~~p~~l~~l~~I~GiGp 95 (307)
T cd00141 21 PFRVRAYRKAARALESL-PEPIESLEEAKKLPGIGKKIAEKIEEILETGKLRKLE----ELREDVPPGLLLLLRVPGVGP 95 (307)
T ss_pred CHHHHHHHHHHHHHHHC-CCCCCCHHHHCCCCCCCHHHHHHHHHHHHHCCHHHHH----HHHCCCCHHHHHHHCCCCCCH
T ss_conf 26699999999999869-9564789987179996489999999999979808999----986656378999964788788
Q ss_pred HHHHHHHH
Q ss_conf 99999999
Q gi|254781172|r 607 IIAQAIVE 614 (731)
Q Consensus 607 ~~A~si~~ 614 (731)
T Consensus 96 k~a~~l~~ 103 (307)
T cd00141 96 KTARKLYE 103 (307)
T ss_pred HHHHHHHH
T ss_conf 99999998