HHsearch alignment for GI: 254780833 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=99.87 E-value=5e-20 Score=139.25 Aligned_cols=178 Identities=22% Similarity=0.388 Sum_probs=140.2
Q ss_pred CCCCEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEEECCCCEEECCCC--CCHHHHHHHH
Q ss_conf 67406998527631156678721489899999875002335555311047987886367417816665--5878999997
Q gi|254780833|r 167 IGLDMMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKIVQTFPLA--WGVQHIQEKI 244 (371)
Q Consensus 167 ~~idi~~viD~SgSm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~lt--~~~~~~~~~i 244 (371)
T Consensus 1 gplDlvFllD~S~Svg~------~nF~~~k~Fv~~lv~~f~I---~~~~trVgvv~ys~~~~~~f~l~~~~~k~~l~~aI 71 (224)
T cd01475 1 GPTDLVFLIDSSRSVRP------ENFELVKQFLNQIIDSLDV---GPDATRVGLVQYSSTVKQEFPLGRFKSKADLKRAV 71 (224)
T ss_pred CCEEEEEEEECCCCCCH------HHHHHHHHHHHHHHHHCCC---CCCCEEEEEEEECCCEEEEEECCCCCCHHHHHHHH
T ss_conf 97439999948899898------9999999999999985687---99852999999658278999668867889999999
Q ss_pred HCCCC-CCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEEECCCCCCCCCCHHHHHHHHHHHHHCCCEEEEEE
Q ss_conf 40156-88745642378899998742110123467776661699998404588888897899999999997898799999
Q gi|254780833|r 245 NRLIF-GSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYKKYIIFLTDGENSSPNIDNKESLFYCNEAKRRGAIVYAIG 323 (371)
Q Consensus 245 ~~l~~-~g~T~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~k~ivl~TDG~~~~~~~~~~~~~~~c~~~k~~gi~i~tIg 323 (371)
T Consensus 72 ~~i~~~gggT~Tg~AL~~~~~~~f~~~~G~R---p~~~~vpkvlIviTDG~s~D~------v~~~A~~lr~~GV~ifaVG 142 (224)
T cd01475 72 RRMEYLETGTMTGLAIQYAMNNAFSEAEGAR---PGSERVPRVGIVVTDGRPQDD------VSEVAAKARALGIEMFAVG 142 (224)
T ss_pred HHHHCCCCCCHHHHHHHHHHHHHCCCCCCCC---CCCCCCCEEEEEECCCCCCCC------HHHHHHHHHHCCCEEEEEE
T ss_conf 8636138844699999999997277023998---755689859999717987663------8999999998798899996
Q ss_pred ECCCCCHHHHHHHCC-C--CEEEEECCHHHHHHHHHHHHHHHH
Q ss_conf 418642798998338-9--808982898999999999999640
Q gi|254780833|r 324 VQAEAADQFLKNCAS-P--DRFYSVQNSRKLHDAFLRIGKEMV 363 (371)
Q Consensus 324 ~~~~~~~~~l~~cAs-~--~~~y~~~~~~~L~~af~~I~~~i~ 363 (371)
T Consensus 143 Vg-~~~~~eL~~IAs~P~~~hvf~v~~F~~l~~l~~~l~~~iC 184 (224)
T cd01475 143 VG-RADEEELREIASEPLADHVFYVEDFSTIEELTKKFQGKIC 184 (224)
T ss_pred CC-CCCHHHHHHHHCCCCHHCEEEECCHHHHHHHHHHHHHHHC
T ss_conf 37-4798999998559737568994798899999999876118