HHsearch alignment for GI: peg_472 and conserved domain: TIGR00678

>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=100.00  E-value=0  Score=437.68  Aligned_cols=188  Identities=31%  Similarity=0.509  Sum_probs=171.5

Q ss_pred             HHHHHHHHCCCCCEEEHHCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCC--CCC-
Q ss_conf             99999998287670620107879888899999999961468777886658789997799997798778222453--322-
Q 537021.9.peg.4    9 KTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELDA--ASH-   85 (369)
Q Consensus         9 ~~l~~~~~~~~~~ha~lf~G~~G~GK~~~a~~~A~~l~c~~~~~~~~~~~~c~~c~~c~~i~~~~~~d~~e~~~--~s~-   85 (369)
T Consensus         2 ~~l~~~~~~~r~~HA~LF~G~~G~Gk~~~A~~~A~~l~C~~~~~~----~~Cg~C~~C~~~~~G~HPD~~~~~P~~~~~~   77 (216)
T TIGR00678         2 QQLQRALEKGRLAHAYLFTGPEGVGKELLALALAKALLCEPRGGG----EPCGECHSCRLIEAGNHPDLHRLEPEGQSKS   77 (216)
T ss_pred             HHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCC----CCCCCCHHHHHHHHCCCCCEEEEEEECCCCC
T ss_conf             567889860678861254448887489999999999807785778----8888588899987079982378742347777


Q ss_pred             ---------------------CCHHHHHHHHHHHHHHHHCCCCCEEEEECHHHCCCCHHHHHHHHHHHCCCCCCEEEEEC
Q ss_conf             ---------------------33455566555445654204652377511566480016789999972122111466506
Q 537021.9.peg.4   86 ---------------------TSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFATT  144 (369)
Q Consensus        86 ---------------------~~id~ir~l~~~~~~~p~~~~~kv~iid~a~~m~~~a~NaLLK~lEEPp~~~~fil~t~  144 (369)
T Consensus        78 ~~~de~~~~~~g~a~~~~~~~Ik~dq~R~l~~~~~~~~~~~~~rVviI~~Ae~mn~~AANALLKtLEEPp~~t~fiL~~~  157 (216)
T TIGR00678        78 LTADEAAEGEEGSAKRRALPQIKVDQVRELVEFLSLTPQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITH  157 (216)
T ss_pred             CCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHEECCCCCEEEEEECC
T ss_conf             77645897625642113678787278999999986064214751799767323258989865101012798707988508


Q ss_pred             CC--CCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHCCCCCCCHH
Q ss_conf             75--43303567543332102454001356787643101345625-66445653167642001
Q 537021.9.peg.4  145 EI--RKIPITVLSRCQRFDLHRISIGDLIELFTKILQEESIEFDP-EAVAMIARASDGSARDG  204 (369)
Q Consensus       145 ~~--~~ll~TI~SRcq~~~f~~l~~~~i~~~L~~i~~~E~i~~d~-~~l~~ia~~s~GslR~A  204 (369)
T Consensus       158 ~~DP~~lLpTI~SRCq~~~f~~l~~~~~~~~L~~----~g~~~~~~~~a~~~~~~~~G~p~~a  216 (216)
T TIGR00678       158 SPDPERLLPTIRSRCQVLPFPPLSEEALLQWLIE----QGISENVPEAAELLLALAGGSPGRA  216 (216)
T ss_pred             CCCHHHHCCCCCCCEEEEEECCCCHHHHHHHHHH----CCCCCCCHHHHHHHHHHHCCCCCCC
T ss_conf             8884332211103201586259988999999997----0878780689999999846851239