HHsearch alignment for GI: 254780217 and conserved domain: TIGR01128

>TIGR01128 holA DNA polymerase III, delta subunit; InterPro: IPR005790 DNA polymerase III delta (holA, ) and delta prime (holB) subunits are distinct proteins encoded by separate genes. The delta prime subunit (holB) exhibits sequence homology to the tau and gamma subunits (dnaX), but the delta subunit (holA) does not demonstrate this same homology with dnaX. The delta, delta prime, gamma, chi and psi subunits form the gamma complex sub-assembly of DNA polymerase III holoenzyme, which couples ATP to assemble the ring-shaped beta subunit around DNA forming a DNA sliding clamp. Both delta and delta prime are monomeric in their native state, and they bind each other tightly to form a 1:1 complex. Neither delta nor delta prime alone binds tightly to the gamma subunit . ; GO: 0003677 DNA binding, 0003891 delta DNA polymerase activity, 0006260 DNA replication, 0043625 delta DNA polymerase complex.
Probab=93.21  E-value=0.82  Score=26.22  Aligned_cols=157  Identities=11%  Similarity=0.076  Sum_probs=110.6

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
T Consensus         2 ~~~y~~~G~~~~l~~~~~~~~~~~~~-~~~~~~------------------------~~~~~~~~-------------~~   43 (331)
T TIGR01128         2 APVYLLYGDEPLLLEEAADAIRAAAL-PGFDEF------------------------NLFTIDGE-------------EF   43 (331)
T ss_pred             CCCEEECCCCHHHHHHHHHHHHHHHC-CCCHHH------------------------HHHHCCCC-------------CC
T ss_conf             64035406405578999999998740-242012------------------------23210332-------------00


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-HH-----HHHHHHHHHHCCCCCCEEEEEC--CCCCC------CH-HHH
Q ss_conf             8755443102221111210353220554240-00-----1456777663034341676504--43357------30-252
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-NA-----ANALLKSLEEPPQKVLFILISH--ASPTI------LS-TIR  178 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-~A-----aNALLK~LEEPp~~t~fiLit~--~~~~i------l~-TI~  178 (347)
T Consensus        44 ~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~  123 (331)
T TIGR01128        44 DWGQLLESAQTLPLFSERRLVELRLPSGLPGAKGKLEHLLKALLEYLANPPPDTLLLIEAPYEKLDKRKKLTKWLKKALD  123 (331)
T ss_pred             HHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHH
T ss_conf             37788877641355444405665333343441002566799999873146765378874163013456777767666543


Q ss_pred             C-EEEEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             0-369886479998999999997----2788896789999997598978999881
Q gi|254780217|r  179 S-RCLSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKIL  228 (347)
Q Consensus       179 S-Rc~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll  228 (347)
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~  178 (331)
T TIGR01128       124 NKNAEIVECKTPDEQELPRWIQARLKELGLRIDPDAVQLLAELVEGNLLALAQEL  178 (331)
T ss_pred             HHCCCEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             2101231023443556689999999970786545899999987253078888777