RPSBLAST alignment for GI: 254780636 and conserved domain: cd06147
>gnl|CDD|99850 cd06147, Rrp6p_like_exo, DEDDy 3'-5' exonuclease domain of yeast Rrp6p, human polymyositis/scleroderma autoantigen 100kDa, and similar proteins. 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. Length = 192
Score = 45.3 bits (108), Expect = 1e-05
Identities = 40/142 (28%), Positives = 63/142 (44%), Gaps = 19/142 (13%)
Query: 23 IAVDTET------LGLMPRRDRLCIVQLSP--GDGTVDIIRIAAGQKNAPNLVGMLVDEK 74
IAVD E LG C++Q+S D VD +++ + + L + D
Sbjct: 27 IAVDLEHHSYRSYLGFT------CLMQISTREEDYIVDTLKL---RDDMHILNEVFTDPN 77
Query: 75 REKIFHYGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKA 134
K+FH DI L FG+ V +F T A+R+ +H L L++ ++ K
Sbjct: 78 ILKVFHGADSDIIWLQRDFGLYVVNLFDTGQAARVLNL--PRHSLAYLLQKYCNVDADKK 135
Query: 135 QQSSDWSADDLSDEQLQYAASD 156
Q +DW L +E ++YA D
Sbjct: 136 YQLADWRIRPLPEEMIKYARED 157