HHsearch alignment for GI: 254781110 and conserved domain: cd01475
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=99.67 E-value=3.8e-14 Score=110.64 Aligned_cols=179 Identities=17% Similarity=0.221 Sum_probs=134.5
Q ss_pred CCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEECCCCCCCCCCCC
Q ss_conf 43201221022324223357876666753467665306788999899998510467876554302232048764312445
Q gi|254781110|r 190 IFLIELVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDVYMGLIGYTTRVEKNIEP 269 (420)
Q Consensus 190 ~~~~~~~~d~s~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 269 (420)
T Consensus 2 plDlvFllD~S~Svg--------------------~~nF~~~k~Fv~~lv~~f~---I~~~~trVgvv~ys~~~~~~f~l 58 (224)
T cd01475 2 PTDLVFLIDSSRSVR--------------------PENFELVKQFLNQIIDSLD---VGPDATRVGLVQYSSTVKQEFPL 58 (224)
T ss_pred CEEEEEEEECCCCCC--------------------HHHHHHHHHHHHHHHHHCC---CCCCCEEEEEEEECCCEEEEEEC
T ss_conf 743999994889989--------------------8999999999999998568---79985299999965827899966
Q ss_pred C--CCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCC
Q ss_conf 7--78488999999864046788765388999999861310123345543347767787766624899606867777765
Q gi|254781110|r 270 S--WGTEKVRQYVTRDMDSLILKPTDSTPAMKQAYQILTSDKKRSFFTNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSN 347 (420)
Q Consensus 270 t--~~~~~~~~~i~~~~~~~~~g~T~~~~gl~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~k~iil~TDG~~~~~~~~ 347 (420)
T Consensus 59 ~~~~~k~~l~~aI~~i~~--~gggT~Tg~AL~~~~~~~f~~~~G----------~Rp~~~~vpkvlIviTDG~s~D---- 122 (224)
T cd01475 59 GRFKSKADLKRAVRRMEY--LETGTMTGLAIQYAMNNAFSEAEG----------ARPGSERVPRVGIVVTDGRPQD---- 122 (224)
T ss_pred CCCCCHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHHCCCCCC----------CCCCCCCCCEEEEEECCCCCCC----
T ss_conf 886788999999986361--388446999999999972770239----------9875568985999971798766----
Q ss_pred CHHHHHHHHHHHCCCEEEEEEECCCCCHHHHHHHHHCCC--CCEEEECCHHHHHHHHHHHHHHHH
Q ss_conf 348999999997898799999548977899999862189--827981798999999999998742
Q gi|254781110|r 348 VNTIKICDKAKENFIKIVTISINASPNGQRLLKTCVSSP--EYHYNVVNADSLIHVFQNISQLMV 410 (420)
Q Consensus 348 ~~~~~~c~~~k~~gi~i~tIgf~~~~~~~~~l~~cas~~--~~yf~a~~~~~L~~aF~~Ia~~I~ 410 (420)
T Consensus 123 -~v~~~A~~lr~~GV~ifaVGVg~-~~~-~eL~~IAs~P~~~hvf~v~~F~~l~~l~~~l~~~iC 184 (224)
T cd01475 123 -DVSEVAAKARALGIEMFAVGVGR-ADE-EELREIASEPLADHVFYVEDFSTIEELTKKFQGKIC 184 (224)
T ss_pred -CHHHHHHHHHHCCCEEEEEECCC-CCH-HHHHHHHCCCCHHCEEEECCHHHHHHHHHHHHHHHC
T ss_conf -38999999998798899996374-798-999998559737568994798899999999876118