HHsearch alignment for GI: 254780818 and conserved domain: TIGR01406
>TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit; InterPro: IPR006309 These represent DnaQ, the DNA polymerase III epsilon subunit, as found in most Proteobacteria. It consists largely of an exonuclease region as described in IPR006055 from INTERPRO. In Gram-positive bacteria, closely related regions are found both in the Gram-positive type DNA polymerase III alpha subunit and as an additional N-terminal domain of a DinG-family helicase. Both are not included in this set of sequences, as they are smaller proteins.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication.
Probab=100.00 E-value=0 Score=500.41 Aligned_cols=226 Identities=42% Similarity=0.698 Sum_probs=191.9
Q ss_pred CEEEEECCCCCCCC-C-----CCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCC--CCCCHH
Q ss_conf 58999846788888-8-----888999999999999880313798985888228865724202101232248--521002
Q gi|254780818|r 8 RKIVFDIETTGLDS-K-----NDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDK--PSFSSI 79 (245)
Q Consensus 8 r~iv~D~ETTGl~~-~-----~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~--p~f~ev 79 (245)
T Consensus 1 R~IiLDTETTGl~~~~G~~~~GhRivEIGavE~vnr~~tG~~fH~Y~~P~-Rd~p~eA~kVHGiT~efL~dKnaP~Fk~I 79 (246)
T TIGR01406 1 REIILDTETTGLDPKGGLPYIGHRIVEIGAVELVNRMLTGKNFHVYVKPE-RDIPAEAAKVHGITDEFLKDKNAPKFKEI 79 (246)
T ss_pred CEEEECCCCCCCCCCCCCCCCCCEEEEEEEEEEECCCCCCCCEEEEECCC-CCCHHHCEECCCCCHHHHCCCCCCCHHHH
T ss_conf 92671155568776677685686268882185673503887312433688-87730021013764688468898952578
Q ss_pred HHHHHHHHHCCCCEEEEECCCCCCCEEEECHHCCC---CCC-CCCCHHCCCHHCCCCCCCCCCCCHHHHHHHHCCCCCCC
Q ss_conf 34477753002320231023224311210000011---222-21000011000000017764222378999718754555
Q gi|254780818|r 80 FSEFWDFFNEQNAEWIAHNAKFDVGFINAELQRIN---KDP-LDPSRIIDTLSIARRKHPSSRNDLNSLCKRYGITISHR 155 (245)
Q Consensus 80 ~~~f~~fi~~~~~~lVaHNa~FD~~fL~~el~r~~---~~~-~~~~~~iDTl~lar~~~p~~~~~L~~l~~~~~i~~~~r 155 (245)
T Consensus 80 a~~Fl~Fi~--~~~LvIHNA~FD~gFlN~EL~~Lg~~~~~~~~~~~~~~DTL~mAR~~FPG~~~sLDALCkRf~vDns~R 157 (246)
T TIGR01406 80 ADEFLDFIK--GSELVIHNAAFDVGFLNYELERLGLKEIKKISDFCRVIDTLAMARERFPGKRNSLDALCKRFKVDNSHR 157 (246)
T ss_pred HHHHHHHHC--CCEEEEECCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHCCCCCCC
T ss_conf 999999845--988999757021678999998728732100013667865689997237898664678774304250002
Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-----HHHHHHHHHHHHH
Q ss_conf 66640269999999999997305766665444321111011122234432112356345789-----9999999999987
Q gi|254780818|r 156 SKHGALLDSHLLSDVYIKMMVGGSQINFGFKTNEDRFFKEEKKTVPNISLLKRDKPLFTRIT-----KEELDEHDKTIQT 230 (245)
Q Consensus 156 ~~H~Al~Da~~~a~v~~~ll~g~~q~~l~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~e~~~H~~~l~~ 230 (245)
T Consensus 158 ~LHGAL~DA~LLAeVYl~ltGGq~~~~~~~~~~~~~~~~~~~-~~~--~~~~~~~~~~~~p~dWq~~~~E~~~H~~~L~~ 234 (246)
T TIGR01406 158 QLHGALLDAELLAEVYLALTGGQESLLEMLVASESGEAAKAS-KKA--EQKKAKRLKVLAPRDWQVSEEELQAHEAYLDK 234 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCHHHHHHHH-HHH--HHHCCCCCCCEECCCCCCCHHHHHHHHHHHHH
T ss_conf 134789999999999998628805777753122013456677-754--55302368704047441238899999999999
Q ss_pred CCC---CHHHHH
Q ss_conf 087---811456
Q gi|254780818|r 231 LGK---NAIWDR 239 (245)
Q Consensus 231 l~k---~~lW~k 239 (245)
T Consensus 235 ~~~~~g~~lW~~ 246 (246)
T TIGR01406 235 LKKEAGTCLWRK 246 (246)
T ss_pred HHHHCCCEECCC
T ss_conf 875168022269