>cd00577 PCNA Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY].

Probab=98.23 E-value=0.00038 Score=44.14 Aligned_cols=202 Identities=13% Similarity=0.139 Sum_probs=123.6 Q ss_pred EHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEE--EEEEEEEEE------ECCCCEEEEEHHHHHHH Q ss_conf 5999999999875020378886101338999989979999967828--999999777------52680799949987788 Q gi|254780454|r 6 ERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEI--EITGAIPAS------VDVCGSITVSAHLLYDI 77 (385) Q Consensus 6 ~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~--~i~~~i~~~------i~~~G~~~v~a~~l~~i 77 (385) T Consensus 5 ~a~~~k~i~~~l~~l~---------~e~~~~~~~~Gi~i~~~D~s~v~lv~~~L~~~~F~~Y~~~~~~~~gv~~~~L~ki 75 (248) T cd00577 5 NAKLLKKIVDALSKLV---------DEANFDITEDGISLQAMDSSHVALVSLFLPKELFEEYRCDEEISLGVNLKSLLKI 75 (248) T ss_pred HHHHHHHHHHHHHHHH---------CCEEEEEECCEEEEEEECCCCEEEEEEEECHHHCEEEECCCCEEEEEEHHHHHHH T ss_conf 2699999999999875---------8199999078579999999977999999774319078149988999998999999 Q ss_pred HHCCCCCCCEEEEEECCCCEEEEEEECC----CEEEEECCCCCC-CCCCCCCCCCEEEECCCHHHHHHHCCEEEECCCCC Q ss_conf 7407777730477733675089998678----202430366211-43212332430450561135542022023002455 Q gi|254780454|r 78 VRKLQDGAQISFFKENELGTEVNISHGD----SNFYLQSFPESE-FPSTKEEEYVYSFELASSVLKNLVERTHFAMATEE 152 (385) Q Consensus 78 ik~L~~~~~i~~~~~~~~~~~i~i~~~~----~~~~l~~~~~~~-fP~~~~~~~~~~~~i~~~~l~~~i~~t~~a~s~d~ 152 (385) T Consensus 76 Lk~~~~~d~l~l~~~~~~~l~i~~~~~~~~~~~~~~l~l~d~~~~~~~~p~~e~~~~i~~~s~~~~~~~~~l~~~-~-d~ 153 (248) T cd00577 76 LKCAGNEDCVTLRADDEDPLKILFESSKGDVTSEFSLKLMDIDSEQLPIPELEYDATVTLPSDELKDIVRDLESI-S-DS 153 (248) T ss_pred HHHHCCCCEEEEEECCCCCEEEEEEECCCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHH-C-CC T ss_conf 864248971899963799179999957986799999503367644678987665689997199999999999960-9-94 Q ss_pred CCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCC------CCCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCCC Q ss_conf 652101166776178734899985341576666435787------53310000010001222210277646433133455 Q gi|254780454|r 153 IRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQ------IAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSES 226 (385) Q Consensus 153 ~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~------~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~ 226 (385) T Consensus 154 -------v~i~~~~~~~~~~~~g-d~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~yL~~~~k~~~l-s~~V~i~~~~~ 224 (248) T cd00577 154 -------VTISASKDGFKFSAEG-ELGGASVTLLPKDSDLLVTIECSEPVSSTYSLKYLKDFTKAAPL-SDKVTLSFGSD 224 (248) T ss_pred -------EEEEEECCEEEEEEEE-CCCCEEEEEEECCCCEEEEEECCCCEEEEEEHHHHHHHHHHHCC-CCEEEEEECCC T ss_conf -------9999939989999994-48857999930898606898549736899989999998625046-98799997699 Q ss_pred C Q ss_conf 3 Q gi|254780454|r 227 R 227 (385) Q Consensus 227 ~ 227 (385) T Consensus 225 ~ 225 (248) T cd00577 225 G 225 (248) T ss_pred C T ss_conf 7

HHsearch alignment for GI: 254780454 and conserved domain: cd00577