>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=99.72 E-value=3.1e-17 Score=124.91 Aligned_cols=147 Identities=26% Similarity=0.346 Sum_probs=108.5 Q ss_pred CCCCE-EEECCCCCCHHHHHHHHHHHCCCC-------------CCCC-C------------CCC---------------- Q ss_conf 76707-997378855778999999861898-------------5312-5------------764---------------- Q gi|254780552|r 53 ALDHV-LFVGPPGLGKTTLAQVVARELGVN-------------FRST-S------------GPV---------------- 89 (334) Q Consensus 53 ~~~h~-Lf~GPpG~GKTtlA~iiA~~l~~~-------------~~~~-s------------~~~---------------- 89 (334) T Consensus 12 r~~HA~LF~G~~G~Gk~~~A~~~A~~l~C~~~~~~~~Cg~C~~C~~~~~G~HPD~~~~~P~~~~~~~~~de~~~~~~g~a 91 (216) T TIGR00678 12 RLAHAYLFTGPEGVGKELLALALAKALLCEPRGGGEPCGECHSCRLIEAGNHPDLHRLEPEGQSKSLTADEAAEGEEGSA 91 (216) T ss_pred CCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHCCCC T ss_conf 78861254448887489999999999807785778888858889998707998237874234777777645897625642 Q ss_pred -------CCCHHHHHHHHHHH------HCCCHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCCCCCCCCCEEECCCCCCEE Q ss_conf -------43346766666641------01637888757616989999999986347510025678765200046674005 Q gi|254780552|r 90 -------IAKAGDLAALLTNL------EDRDVLFIDEIHRLSIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTL 156 (334) Q Consensus 90 -------~~~~~dl~~~~~~~------~~~~vlfiDEihrl~~~~q~~Ll~~mE~~~i~i~~~~~~~a~~~~~~~~~f~l 156 (334) T Consensus 92 ~~~~~~~I-k~dq~R~l~~~~~~~~~~~~~rVviI~~Ae~mn~~AANALLKtLEE----------Pp~~--------t~f 152 (216) T TIGR00678 92 KRRALPQI-KVDQVRELVEFLSLTPQESGRRVVIIEDAERMNEAAANALLKTLEE----------PPPN--------TLF 152 (216) T ss_pred CCCCCCCC-CHHHHHHHHHHHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHEEC----------CCCC--------EEE T ss_conf 11367878-7278999999986064214751799767323258989865101012----------7987--------079 Q ss_pred EECCCCC--CCCCHHHHHCCCCEEECCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCHHHH Q ss_conf 5204554--33554544201206732645479999987776541210111111123320221015678 Q gi|254780552|r 157 IAATTRV--GLLTNPLQDRFGIPIRLNFYEIEDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTPRIA 222 (334) Q Consensus 157 I~ATt~~--~~l~~~l~sR~~~~~~~~~~~~~el~~il~~~~~~~~i~~~~~al~~ia~~s~Gd~R~A 222 (334) T Consensus 153 iL~~~~~DP~~lLpTI~SRCq-~~~f~~l~~~~~~~~L~~~g~~~~~---~~~a~~~~~~~~G~p~~a 216 (216) T TIGR00678 153 ILITHSPDPERLLPTIRSRCQ-VLPFPPLSEEALLQWLIEQGISENV---PEAAELLLALAGGSPGRA 216 (216) T ss_pred EEECCCCCHHHHCCCCCCCEE-EEEECCCCHHHHHHHHHHCCCCCCC---HHHHHHHHHHHCCCCCCC T ss_conf 885088884332211103201-5862599889999999970878780---689999999846851239

HHsearch alignment for GI: 254780552 and conserved domain: TIGR00678