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