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