>TIGR00057 TIGR00057 Sua5/YciO/YrdC/YwlC family protein; InterPro: IPR004388 This entry includes the Sua5, YciO, YrdC and YwlC proteins. The yrdC family of genes codes for proteins that occur both independently and as a domain in proteins that have been implicated in regulation. An example for the latter case is the sua5 gene from yeast. Sua5 was identified as a suppressor of a translation initiation defect in cytochrome c and is required for normal growth in yeast . However, the function of the Sua5 protein remains unknown; Sua5 could act either at the transcriptional or the post-transcriptional levels to compensate for an aberrant translation start codon in the cyc gene. The crystal structure of the YrdC protein from Escherichia coli was determined at a resolution of 2.0 A. It structure suggests that YrdC may be a nucleic acid binding protein. An investigation of YrdC's binding affinities for single- and double-stranded RNA and DNA fragments as well as tRNAs demonstrates that YrdC binds preferentially to double-stranded RNA . .

Probab=100.00 E-value=0 Score=460.65 Aligned_cols=196 Identities=40% Similarity=0.590 Sum_probs=185.7 Q ss_pred HHHHHHHHHHHCCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHH-CCCHHHHHHHHCC Q ss_conf 999999999975985999077800040279999999999997088810654999679899776420-0520468998505 Q gi|254780760|r 10 NALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHAS-VDPLSLHLAKLFW 88 (330) Q Consensus 10 ~~i~~a~~~L~~G~~v~~PTeTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~~-~~~~~~~l~~~fw 88 (330) T Consensus 11 ~~i~~A~~~l~~G~ivv~PTDTvYGiGa~a~ne~AV~r~~~iK~R~~~kPl~v~v~d~~~i~~~~~~v~~~A~~Lm~~f~ 90 (215) T TIGR00057 11 KVIEQAVKILRKGGIVVYPTDTVYGIGADATNEDAVKRLYEIKGRPSNKPLIVLVSDLSEIEKLAEDVPDDAKKLMKKFL 90 (215) T ss_pred HHHHHHHHHHHCCCEEEECCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHCCCCCHHHHHHHHHCC T ss_conf 89999999997494798718545540467547688999998616898697799973735644431165557999998608 Q ss_pred CCCEEEEECCCCCCCCCCCCCC--CCCCCCCCCHHH-HHHHHHHHCCCEEECCCCCCCCCCCCC--HHHHHHHHHHCCCC Q ss_conf 8871886146787811655544--457633224156-676664201421212343334854330--17777664406554 Q gi|254780760|r 89 PGPLTLVLDLLSTTDIHPLSTA--NLKTACFRVPCG-FTKKLIETYGHPLAIPSANRSGQISIT--NVKHILSSSICKEI 163 (330) Q Consensus 89 PGplT~il~~~~~~~i~~~~t~--~~~tvavRiP~h-~~~~ll~~~~~Piaa~SAN~sG~~Spt--~a~~v~~~~~~~~i 163 (330) T Consensus 91 PGplT~vL~~~~da~~p~~~~~G~~r~tvgiR~P~~~ia~~L~~~~g~Pi~~~SANlsg~p~~~~s~~e~~~-~~L~~~V 169 (215) T TIGR00057 91 PGPLTLVLKKTPDALIPRLVSGGSKRGTVGIRVPDHPIALELLEELGKPIVAPSANLSGKPSATMSDVEEIV-DELDKLV 169 (215) T ss_pred CCCCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCHHHHH-HHHCCEE T ss_conf 996248870366643664001678877027860885799999996389867622678856876557889999-8613703 Q ss_pred CCCCCCCC---CCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHCC Q ss_conf 21127664---566767306996269824344248878888774227 Q gi|254780760|r 164 PLIIDGGI---SKIGLESTIVNVQCEKKVRILRPGGLEIETLKRAIS 207 (330) Q Consensus 164 ~~ildgg~---~~~GieSTiid~~~~~~~~IlR~G~i~~~~i~~~l~ 207 (330) T Consensus 170 d~iid~g~nkd~~~~~~STi~dlt-~~~p~~LR~G~~~k~~i~~~l~ 215 (215) T TIGR00057 170 DLIIDGGPNKDCLGGEPSTIVDLT-EDTPKVLREGKVSKEEIEKVLG 215 (215) T ss_pred EEEEECCCCCCCCCCCCCEEEECC-CCCEEEEECCCCCHHHHHHHHC T ss_conf 478807855332573342267314-6840688359840212576619

HHsearch alignment for GI: 254780760 and conserved domain: TIGR00057