>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=96.67 E-value=0.064 Score=32.93 Aligned_cols=146 Identities=18% Similarity=0.177 Sum_probs=91.5 Q ss_pred HHHHHHHCCCCCCEEE-ECCCCCHHHHHHHHHHH--------------------HHHCCCCCHHHHEEEEEEEEHHH--- Q ss_conf 9999862267787489-66764116689999999--------------------98548988345201445540467--- Q gi|254780163|r 215 RTIQILCRRSKNNPLY-VGDPGVGKTAIAEGFAK--------------------QIVDGMVPDILLGARIFSLDMGN--- 270 (798) Q Consensus 215 riiqIL~RR~KNn~~l-vG~~gvGktaive~la~--------------------~i~~~~vp~~l~~~~i~~ld~~~--- 270 (798) T Consensus 3 ~l~~~~~~~r~~HA~LF~G~~G~Gk~~~A~~~A~~l~C~~~~~~~~Cg~C~~C~~~~~G~HP----D~~~~~P~~~~~~~ 78 (216) T TIGR00678 3 QLQRALEKGRLAHAYLFTGPEGVGKELLALALAKALLCEPRGGGEPCGECHSCRLIEAGNHP----DLHRLEPEGQSKSL 78 (216) T ss_pred HHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCC----CEEEEEEECCCCCC T ss_conf 67889860678861254448887489999999999807785778888858889998707998----23787423477777 Q ss_pred --------HHCC---CCCCCH-HHHHHHHHHHHHCC----CCCEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHC--CC Q ss_conf --------5306---343123-78999999987203----898399973616630155444344777888876630--26 Q gi|254780163|r 271 --------LIAG---TRYRGD-FEERIKKIVKEIES----YANAILYIDEIHTLVGAGSASGISVDASNLLKPALS--SG 332 (798) Q Consensus 271 --------l~ag---~~~rg~-fe~r~~~~~~~~~~----~~~~ilfideih~ligag~~~g~~~d~an~lkP~L~--rg 332 (798) T Consensus 79 ~~de~~~~~~-g~a~~~~~~~Ik~dq~R~l~~~~~~~~~~~~~rVviI~~Ae~m---------n~~AANALLKtLEEPp~ 148 (216) T TIGR00678 79 TADEAAEGEE-GSAKRRALPQIKVDQVRELVEFLSLTPQESGRRVVIIEDAERM---------NEAAANALLKTLEEPPP 148 (216) T ss_pred CHHHHHHHHC-CCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHC---------CHHHHHHHHHHEECCCC T ss_conf 7645897625-6421136787872789999999860642147517997673232---------58989865101012798 Q ss_pred CEEEEEECCHH--HHHHHHHCCHHHHHHCEEEEECCCCHHHHHHHHHHH Q ss_conf 60388730489--999985201114320014430687868999999861 Q gi|254780163|r 333 AVRCIGSTTYS--EYRQFFEKDKALVRRFQKIDVSEPSIEDAIEIVKGI 379 (798) Q Consensus 333 ~~~~IgatT~~--ey~~~~e~d~al~rrF~~i~v~ep~~~~~~~iL~~~ 379 (798) T Consensus 149 ~t~fiL~~~~~DP~--~---lLpTI~SRCq~~~f~~l~~~~~~~~L~~~ 192 (216) T TIGR00678 149 NTLFILITHSPDPE--R---LLPTIRSRCQVLPFPPLSEEALLQWLIEQ 192 (216) T ss_pred CEEEEEECCCCCHH--H---HCCCCCCCEEEEEECCCCHHHHHHHHHHC T ss_conf 70798850888843--3---22111032015862599889999999970

HHsearch alignment for GI: 254780163 and conserved domain: TIGR00678