>TIGR00678 holB DNA polymerase III, delta' subunit; InterPro: IPR004622 DNA-directed DNA polymerase (2.7.7.7 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=98.08 E-value=4.1e-05 Score=60.48 Aligned_cols=143 Identities=26% Similarity=0.407 Sum_probs=97.4 Q ss_pred CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCC-CCCCCHH-HCCCCHHCCC----CCCC--------- Q ss_conf 65128987267861688999999987237765300224477403-4532013-0477112035----6677--------- Q gi|254780877|r 596 RPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYME-KHSVSRL-IGSPPGYVGY----EEGG--------- 660 (853) Q Consensus 596 ~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e-~~~vs~L-iGappGYvG~----~~gg--------- 660 (853) T Consensus 12 r~~HA~LF~G~~G~Gk~~~A~~~A~~l~C~~~~-----~~~~Cg~C~~C~~~~~G~HPD~~~~~P~~~~~~~~~de~~~~ 86 (216) T TIGR00678 12 RLAHAYLFTGPEGVGKELLALALAKALLCEPRG-----GGEPCGECHSCRLIEAGNHPDLHRLEPEGQSKSLTADEAAEG 86 (216) T ss_pred CCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCC-----CCCCCCCCHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHH T ss_conf 788612544488874899999999998077857-----788888588899987079982378742347777776458976 Q ss_pred ------------CCCHHHHC-----------CCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEEC Q ss_conf ------------42113221-----------5641022021441498999999998404578879997783033155954 Q gi|254780877|r 661 ------------ALTEAVRR-----------HPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMT 717 (853) Q Consensus 661 ------------~Lte~vr~-----------~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~T 717 (853) T Consensus 87 ~~g~a~~~~~~~Ik~dq~R~l~~~~~~~~~~~~~rVviI~~Ae~mn~~AANALLKtLEEPp-----------~~t~fiL~ 155 (216) T TIGR00678 87 EEGSAKRRALPQIKVDQVRELVEFLSLTPQESGRRVVIIEDAERMNEAAANALLKTLEEPP-----------PNTLFILI 155 (216) T ss_pred HCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHEECCC-----------CCEEEEEE T ss_conf 2564211367878727899999998606421475179976732325898986510101279-----------87079885 Q ss_pred CCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHH Q ss_conf 85126876403267999999999862885772666815862889989999999999 Q gi|254780877|r 718 SNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQ 773 (853) Q Consensus 718 sN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~ 773 (853) T Consensus 156 ~~~~------DP~~------------lLpTI~SRC-q~~~f~~l~~~~~~~~L~~~ 192 (216) T TIGR00678 156 THSP------DPER------------LLPTIRSRC-QVLPFPPLSEEALLQWLIEQ 192 (216) T ss_pred CCCC------CHHH------------HCCCCCCCE-EEEEECCCCHHHHHHHHHHC T ss_conf 0888------8433------------221110320-15862599889999999970

HHsearch alignment for GI: 254780877 and conserved domain: TIGR00678