HHsearch alignment for GI: 254781110 and conserved domain: cd01452

>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=97.42  E-value=0.0071  Score=37.26  Aligned_cols=157  Identities=13%  Similarity=0.114  Sum_probs=103.4

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEECCCC-CCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             76653067889998999985104678765543022320487-64312445778488999999864046788765388999
Q gi|254781110|r  221 QDKKRTKMAALKNALLLFLDSIDLLSHVKEDVYMGLIGYTT-RVEKNIEPSWGTEKVRQYVTRDMDSLILKPTDSTPAMK  299 (420)
Q Consensus       221 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~lt~~~~~~~~~i~~~~~~~~~g~T~~~~gl~  299 (420)
T Consensus        19 GDy~PtR~~AQ~dAvn~i~~~k~~~Np---En~VGl~tmag~~~~Vl~TlT~D~gkiL~~lh~i~---~~G~~~~~~~Iq   92 (187)
T cd01452          19 GDYPPTRFQAQADAVNLICQAKTRSNP---ENNVGLMTMAGNSPEVLVTLTNDQGKILSKLHDVQ---PKGKANFITGIQ   92 (187)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHCCC---CCCEEEEEECCCCCEEEEECCCCHHHHHHHCCCCC---CCCEECHHHHHH
T ss_conf             898971899999999999977751495---33113576158986689844865788987532677---187651887999


Q ss_pred             HHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCHHHHHHHHHHHCCCEEEEEEECCCCCHHHHH
Q ss_conf             99986131012334554334776778776662489960686777776534899999999789879999954897789999
Q gi|254781110|r  300 QAYQILTSDKKRSFFTNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVNTIKICDKAKENFIKIVTISINASPNGQRLL  379 (420)
Q Consensus       300 ~~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~k~iil~TDG~~~~~~~~~~~~~~c~~~k~~gi~i~tIgf~~~~~~~~~l  379 (420)
T Consensus        93 iA~LALKHRq----------------nk~~~qRIv~FV-gSPi~~-~ek~l~~laKklKKnnV~vDII~FGe~~~n~~kL  154 (187)
T cd01452          93 IAQLALKHRQ----------------NKNQKQRIVAFV-GSPIEE-DEKDLVKLAKRLKKNNVSVDIINFGEIDDNTEKL  154 (187)
T ss_pred             HHHHHHHCCC----------------CCCCCEEEEEEE-CCCCCC-CHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHH
T ss_conf             9999972346----------------777544799997-898755-7899999999875558535899946888998999


Q ss_pred             HH---HH-CC-CCCEEEECCHHH-HHHH
Q ss_conf             98---62-18-982798179899-9999
Q gi|254781110|r  380 KT---CV-SS-PEYHYNVVNADS-LIHV  401 (420)
Q Consensus       380 ~~---ca-s~-~~~yf~a~~~~~-L~~a  401 (420)
T Consensus       155 ~~f~~~vn~~~~Shlv~ippg~~lLSd~  182 (187)
T cd01452         155 TAFIDAVNGKDGSHLVSVPPGENLLSDA  182 (187)
T ss_pred             HHHHHHHCCCCCCEEEEECCCCCHHHHH
T ss_conf             9999984589982599947998645676