HHsearch alignment for GI: 254780454 and conserved domain: TIGR00663

>TIGR00663 dnan DNA polymerase III, beta subunit; InterPro: IPR001001 Describes the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication.
Probab=100.00  E-value=0  Score=427.94  Aligned_cols=377  Identities=31%  Similarity=0.531  Sum_probs=339.9

Q ss_pred             CEEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCE--EEEEEECCEEEEEEEE---EEEECCCCEEEEEHHHHH
Q ss_conf             95898599999999987502037888610133899998997--9999967828999999---777526807999499877
Q gi|254780454|r    1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGL--LEIKASGPEIEITGAI---PASVDVCGSITVSAHLLY   75 (385)
Q Consensus         1 Mk~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~--l~l~atd~~~~i~~~i---~~~i~~~G~~~v~a~~l~   75 (385)
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~l~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~   80 (406)
T TIGR00663         1 MKFSIEKDDLLKELSKVSRVLSNRPTIPILSNVLLEVEDDKNYLTLTGTDLDISLESSIPGETVSSEQPGSVTIPAKKFL   80 (406)
T ss_pred             CEEEEEHHHHHHHHHHHHHHHCCCCCCCHHCCEEEEEECCCCEEEEEEECCEEEEEEEECCCEEEEECCCEEEEECHHHH
T ss_conf             95774012456789999886505766400113278997477579998505404688875154012311653897032556


Q ss_pred             HHHHCCCC--CCCEEEEEECCC--CEEEEEEECCCE--EEEECCCCCCCCCCCCCCC----CEEEECCCHHHHHHHCCEE
Q ss_conf             88740777--773047773367--508999867820--2430366211432123324----3045056113554202202
Q gi|254780454|r   76 DIVRKLQD--GAQISFFKENEL--GTEVNISHGDSN--FYLQSFPESEFPSTKEEEY----VYSFELASSVLKNLVERTH  145 (385)
Q Consensus        76 ~iik~L~~--~~~i~~~~~~~~--~~~i~i~~~~~~--~~l~~~~~~~fP~~~~~~~----~~~~~i~~~~l~~~i~~t~  145 (385)
T Consensus        81 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~d~~~~~~~~~~~l~~~~~~~~  160 (406)
T TIGR00663        81 DIVRALPDDGDSEIELEVDNDKGDSHLLLITSGKSRDDFKLPTLDADEFPNLPTIEGNEDYGVSIELPSDVLKELINQTA  160 (406)
T ss_pred             HHHHHCCCCCCEEEEEEECCCCCCEEEEEECCCCCCCEEEECCCCHHHCCCCCCCCCCCCCCEEEEECHHHHHHHHHHHH
T ss_conf             77761445476048998727753124333305664211220577742355678877755411136764289998763432


Q ss_pred             EECCCCCCCCCEEEEEEEEC-CCCCEEEEEEECCEEEEEEEEE--CCCCCCCCCHHCCCCCHHHHHHHHCCCCCCCCCCC
Q ss_conf             30024556521011667761-7873489998534157666643--57875331000001000122221027764643313
Q gi|254780454|r  146 FAMATEEIRYYLNGIFFHIN-EEDLKLCAVATDGHRLAVAEVD--IVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVS  222 (385)
Q Consensus       146 ~a~s~d~~r~~L~Gv~~~~~-~~~~~l~~vaTDg~RLa~~~~~--~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~  222 (385)
T Consensus       161 f~~~~~~~~~~l~G~~~~~d~~~~~~l~~~~td~~rl~~~~~~~~~~~~~~~~~~~~~P~k~~~e~~~~~~~~~~~~~~~  240 (406)
T TIGR00663       161 FAAGEDETRPVLNGVLIKFDEQEGDTLLLVATDGHRLAVCELKKWLELSDEEDFSVIIPGKALLELLKLLSDNGELVLLI  240 (406)
T ss_pred             HHCCCCCCCHHHCCEEEEECCCCCCEEEEEEECCCEEEEEEECCEEECCCCCCCEEEECHHHHHHHHHHHCCCCCCEEEE
T ss_conf             11012322010101146630235866899960770577775110000034232225744268888887616777503566


Q ss_pred             ------CCCCCEEEECCEEEEEEEECCCCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECC--E
Q ss_conf             ------34553010025069998512665532210135556617998489988889887410123555302565176--5
Q gi|254780454|r  223 ------LSESRIHLNIESLSMSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSD--K  294 (385)
Q Consensus       223 ------~~~~~i~~~~~~~~~~srLi~g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~--~  294 (385)
T Consensus       241 ~~g~g~~~~~~~~~~~~~~~~~~~l~~g~~P~~~~~~p~~~~~~~~~~~~~l~~~~~r~~~l~~~~~~~~~~~~~~~~~~  320 (406)
T TIGR00663       241 LGGVGVIGDTLVYIELGNYKFTSKLIDGNYPDYKSVLPKEFKNSVTVNREELKEALKRVSLLADEKRNLVLTLLEKGLEK  320 (406)
T ss_pred             ECCCEECCCCEEEEEECCEEEEEEEECCCCCCCHHCCCCCCCCEEEECHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEE
T ss_conf             41420105627999875758887754277885000031124424564188999898777654215452478863146201


Q ss_pred             EEEEECCCC--CEEEEEEEEEE-ECCCCEEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCC
Q ss_conf             999980787--32689999989-628843999638899889873575334663389996589875899437765444555
Q gi|254780454|r  295 LCMTVDNPD--MGKAIESMNVY-YNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKD  371 (385)
Q Consensus       295 l~i~~~~~e--~g~~~e~i~~~-~~G~~~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~  371 (385)
T Consensus       321 l~~~~~~~~~~~g~~~~~~~~~~~~ge~~~~~~n~~y~~d~l~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~---~~  392 (406)
T TIGR00663       321 LKLSADTQENEIGEAEEEIEADLYDGEDLVIAFNPKYLLDALKALKS-----EEIRLQFNDPSKPLLIEPENDED---GP  392 (406)
T ss_pred             EEEECCCCCCCCCCHHHHHHHHHCCCCCEEEEEEHHHHHHHHHHCCC-----CEEEEEECCCCCCEEEECCCCCC---CC
T ss_conf             22212676542231121111111026531466402666645552474-----22899983787505885178887---75


Q ss_pred             CCCCEEEEEEEEEC
Q ss_conf             66763799832129
Q gi|254780454|r  372 NKVNAFYVLMPMRI  385 (385)
Q Consensus       372 ~~~~~~~liMPvri  385 (385)
T Consensus       393 ~~~~~~~l~~p~~~  406 (406)
T TIGR00663       393 LPADCTYLIMPVRL  406 (406)
T ss_pred             CCCCEEEEEEEECC
T ss_conf             56422689875229