HHsearch alignment for GI: 254781026 and conserved domain: TIGR00678

>TIGR00678 holB DNA polymerase III, delta' subunit; InterPro: IPR004622 DNA-directed DNA polymerase ( from EC) catalyzes DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. DNA polymerase III is a complex, multi-chain enzyme responsible for most of the replicative synthesis in bacteria. The enzyme also has 3' to 5' exonuclease activity. It has a core composed of alpha, epsilon and theta chains, that associate with a tau subunit which allows the core dimerisation to form the PolIII' complex. PolIII' associates with the gamma complex (gamma, delta, delta', psi and chi chains) and with the beta chain. This domain is the N-terminal half of the delta' subunit of DNA polymerase III. Delta' is homologous to the gamma and tau subunits, which form an outgroup for phylogenetic comparison. The gamma/tau branch of the tree is much more tightly conserved than the delta' branch, and some members of that branch score more highly against this model than some proteins classified as delta'. The noise cut-off is set to detect weakly scoring delta' subunits rather than to exclude gamma/tau subunits.; GO: 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication.
Probab=95.43  E-value=0.036  Score=33.52  Aligned_cols=31  Identities=19%  Similarity=0.280  Sum_probs=28.1

Q ss_conf             2799889980387859889999999997195
Q gi|254781026|r   79 LAHNGVLFLDEIPEFSPQTLNALRQPLETGE  109 (186)
Q Consensus        79 lAh~GVLflDE~~e~~~~~l~~L~~~le~g~  109 (186)
T Consensus       117 ~~~~rVviI~~Ae~mn~~AANALLKtLEEPp  147 (216)
T ss_conf             1475179976732325898986510101279