HHsearch alignment for GI: 254780636 and conserved domain: cd06147
>cd06147 Rrp6p_like_exo Yeast Rrp6p and its human homolog, the Polymyositis/scleroderma autoantigen 100kDa (PM/Scl-100), are exosome-associated proteins involved in the degradation and processing of precursors to stable RNAs. Both proteins contain a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. The motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. PM/Scl-100, an autoantigen present in the nucleolar compartment of the cell, reacts with autoantibodies produced by about 50% of patients with polymyositis-scleroderma overlap syndrome.
Probab=100.00 E-value=0 Score=297.09 Aligned_cols=178 Identities=22% Similarity=0.237 Sum_probs=153.9
Q ss_pred CCCCCHHH-HCCCCCCEEEECCCCCCCCCCCEEEEEEEEECCCCEEEECCCCCCCCCHHHHHHHHCCCCCEEECCCCHHH
Q ss_conf 57888578-42489827997177789854450799998418942899746577857067767773236402301000016
Q gi|254780636|r 8 EGDIPAEC-AARYVDAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFHYGRFDI 86 (207)
Q Consensus 8 ~~dl~~~~-~l~~~~~iaiDtEt~~l~~~~~~l~LiQl~~~~~~~~l~~~~~~~~~~~~L~~ll~d~~i~KV~Hn~~~D~ 86 (207)
T Consensus 11 ~~~L~~~~~~L~~~~~ialDtE~~~~~~~~~~l~LiQiat~~~~-yliD~l~l~~~~~~L~~ll~~~~I~KV~H~~~~Dl 89 (192)
T cd06147 11 EEKLEELVEKLKNCKEIAVDLEHHSYRSYLGFTCLMQISTREED-YIVDTLKLRDDMHILNEVFTDPNILKVFHGADSDI 89 (192)
T ss_pred HHHHHHHHHHHHCCCEEEEECCCCCCCCCCCEEEEEEEECCCCC-EEEEECCCCCCHHHHHHHHCCCCEEEEEECHHHHH
T ss_conf 99999999998269969997973788569982799999509988-79874343003799999975988379985578779
Q ss_pred HHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCEECCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 88865420000000457898865211000000887776542002467520036565443236899998645999999999
Q gi|254780636|r 87 AVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDWSADDLSDEQLQYAASDVVHLHALRLQ 166 (207)
Q Consensus 87 ~~L~~~~gi~~~~i~DT~ias~l~~~~~~~~~L~~L~~~~lg~~ldK~~q~SdW~~rpLs~~Qi~YAA~Dv~~l~~L~~~ 166 (207)
T Consensus 90 ~~L~~~~gi~~~n~fDT~iaa~~l~~--~~~sL~~Lv~~~lg~~l~K~~q~SdW~~RPLs~~Ql~YAA~Dv~~Ll~ly~~ 167 (192)
T cd06147 90 IWLQRDFGLYVVNLFDTGQAARVLNL--PRHSLAYLLQKYCNVDADKKYQLADWRIRPLPEEMIKYAREDTHYLLYIYDR 167 (192)
T ss_pred HHHHHHHCCCCCCCHHHHHHHHHHCC--CCHHHHHHHHHHHCCCCCCCCEECCCCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 99999858987660428999998488--8111999999993958873231143799989999999999999999999999
Q ss_pred HHHHHHHCC-CHHHHHHHHHHHH
Q ss_conf 999999749-1899999996400
Q gi|254780636|r 167 FTEKLQRLG-RSDLATSCCNFLM 188 (207)
Q Consensus 167 l~~~L~~~~-~~~~~~~e~~~l~ 188 (207)
T Consensus 168 L~~~L~e~~~~~~~~~~~~~~~~ 190 (192)
T cd06147 168 LRNELLERANALAPNLLESVLNC 190 (192)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHH
T ss_conf 99999984286416788999972