HHsearch alignment for GI: 254780454 and conserved domain: cd00140
>cd00140 beta_clamp Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric ring formed by PCNA (found in eukaryotes and archaea) and the processivity factor (found in bacteriophages T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds.
Probab=100.00 E-value=0 Score=626.11 Aligned_cols=364 Identities=41% Similarity=0.673 Sum_probs=345.9
Q ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEE-ECCCCEEEEEHHHHHHHHH
Q ss_conf 958985999999999875020378886101338999989979999967828999999777-5268079994998778874
Q gi|254780454|r 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS-VDVCGSITVSAHLLYDIVR 79 (385)
Q Consensus 1 Mk~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~-i~~~G~~~v~a~~l~~iik 79 (385)
T Consensus 1 Mk~~i~k~~L~~~l~~v~~~i~~~~~~piL~~ili~~~~~~l~l~atd~e~~i~~~i~~~~v~~~G~~~v~ak~l~~ivk 80 (365)
T cd00140 1 MKFTINREALLEALQKVSRAIESRNTIPILSNVLIEASDGGLTLTATDLEISIKTTIPAEEVEEEGSVTVPAKKLLDIVR 80 (365)
T ss_pred CEEEEEHHHHHHHHHHHHHHCCCCCCHHHHCCEEEEEECCEEEEEEECCCEEEEEEEECCEECCCEEEEEEHHHHHHHHH
T ss_conf 98999899999999999866188986288758899998999999998886699999967265456299998899999986
Q ss_pred CCCCCCCEEEEEECCCCEEEEEEECCCEEEEECCCCCCCCCCCCCCCCEEEECCCHHHHHHHCCEEEECCCCCCCCCEEE
Q ss_conf 07777730477733675089998678202430366211432123324304505611355420220230024556521011
Q gi|254780454|r 80 KLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNG 159 (385)
Q Consensus 80 ~L~~~~~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~~~~~~~~~~~~i~~~~l~~~i~~t~~a~s~d~~r~~L~G 159 (385)
T Consensus 81 ~lp~~-~i~l~~~~---~~l~I~~~~~~~~l~~~~~~~fP~~~~~~~~~~~~i~~~~l~~~i~~v~~a~s~d~~r~~L~G 156 (365)
T cd00140 81 KLPDE-EVTLETEE---NRLTIKSGKSRFSLNTLPAEEFPELPEIENGSSFTIPASELKELIKKTAFAVSTDETRPILNG 156 (365)
T ss_pred HCCCC-CEEEEEEC---CEEEEEECCEEEEEECCCHHHCCCCCCCCCCEEEEECHHHHHHHHHHHHHHHCCCCCCEEEEE
T ss_conf 38886-33899979---999999898499984589688889876688718998599999999755645465566313689
Q ss_pred EEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCEEEECCEEEEEE
Q ss_conf 66776178734899985341576666435787533100000100012222102776464331334553010025069998
Q gi|254780454|r 160 IFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSV 239 (385)
Q Consensus 160 v~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~~i~~~~~~~~~~s 239 (385)
T Consensus 157 v~~~~~~~--~l~~vATDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~~i~~~~~~~~~~s 234 (365)
T cd00140 157 VLLEIEDN--KLRAVATDGHRLALREIELESGAEEDFNVIVPRKTLNELLKLLEDDDEEVEISISENQILFKLGNTTFTS 234 (365)
T ss_pred EEEEEECC--EEEEEEECCCEEEEEEECCCCCCCCCEEEEEEHHHHHHHHHHHCCCCCCEEEEECCCEEEEEECCEEEEE
T ss_conf 99999799--8999996414104698425777776516998699999999862568872899985877999989999999
Q ss_pred EECCCCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEECCCCCEEEEEEEEEEECCCC
Q ss_conf 51266553221013555661799848998888988741012355530256517659999807873268999998962884
Q gi|254780454|r 240 RLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIESMNVYYNECP 319 (385)
Q Consensus 240 rLi~g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~~~~~G~~ 319 (385)
T Consensus 235 rlieg~yP~y~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~v~l~~~~~~l~iss~~~e~g~~~e~i~~~~~G~~ 314 (365)
T cd00140 235 RLIEGEFPDYERVIPKEFEKSLTVDREELLEALKRVSLLSNEKNRGVKLEISEGQLKLSANNPEIGEAEEELEVEYEGEE 314 (365)
T ss_pred EECCCCCCCHHHCCCCCCCEEEEECHHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEEEECCCCCEEEEEEEEEEECCCC
T ss_conf 86177999756508998984899638999999987713503788439999649979999868886069999998850886
Q ss_pred EEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCCCCCCEEEEEEEEE
Q ss_conf 39996388998898735753346633899965898758994377654445556676379983212
Q gi|254780454|r 320 MDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKDNKVNAFYVLMPMR 384 (385)
Q Consensus 320 ~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~~~~~~~~liMPvr 384 (385)
T Consensus 315 ~~i~fN~~yL~d~L~~~~~-----~~v~l~~~~~~~p~~i~~~~~---------~~~~~liMP~r 365 (365)
T cd00140 315 LEIGFNPKYLLDALKAIDS-----EEVRLSFTDSNSPVLITPEDD---------DNFLYLIMPVR 365 (365)
T ss_pred EEEEECHHHHHHHHHCCCC-----CEEEEEECCCCCCEEEECCCC---------CCEEEEEEECC
T ss_conf 7999989999999851899-----879999868999789984899---------96689998139