HHsearch alignment for GI: 254780233 and conserved domain: TIGR00503
>TIGR00503 prfC peptide chain release factor 3; InterPro: IPR004548 Peptide chain release factor 3 increases the formation of ribosomal termination complexes and stimulates activity of RF-1 and RF-2. It binds to guanine nucleotides and has a strong preference for UGA stop codons. This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis sp. (strain PCC 6803), and in Staphylococcus aureus.; GO: 0005525 GTP binding, 0016149 translation release factor activity codon specific, 0006415 translational termination, 0005737 cytoplasm.
Probab=100.00 E-value=0 Score=401.91 Aligned_cols=353 Identities=25% Similarity=0.391 Sum_probs=282.7
Q ss_pred CCCCEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCC------EECCCCHHHHHCCCEEEEEEEEEEECCEEEEEECCC
Q ss_conf 24314999854689877889999998396142322000------003885779870960646799999899799997289
Q gi|254780233|r 17 MQIRNIAIIAHVDHGKTTLVDELLKQSGVFRDNQRVSE------RVMDCNDLEKERGITILAKVTSIVWNDVRINIVDTP 90 (624)
Q Consensus 17 ~~IRNiaIiaHvDhGKTTL~d~LL~~sG~~~~~~~v~~------~vmD~~~~EreRGITI~a~~~~~~~~~~~iNiiDTP 90 (624)
T Consensus 9 ~~RR~FAIISHPDAGKTT~TEK~LLyG~AIQ~AG~VK~r~S~~~A~SDWM~ME~QRGISIT~~VlQF~Y~~~l~NLLDTP 88 (530)
T TIGR00503 9 DKRRTFAIISHPDAGKTTLTEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVLQFPYRDCLVNLLDTP 88 (530)
T ss_pred HHCCCEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEEEEEECCCCCEEECCCCC
T ss_conf 50255436616888742467888874256652244122001221221378875058814441277414577456203685
Q ss_pred CCCCCHHHHHHHHHHHCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHHHHHH--------
Q ss_conf 875407999999874217899997687886478999999997299789999754366740256899999888--------
Q gi|254780233|r 91 GHADFGGEVERILCMVESVVVLVDAAEGPMPQTKFVVGKALKIGLRPIVVVNKVDRSDARADEVINEVFDLF-------- 162 (624)
Q Consensus 91 GH~DF~gEVer~l~~~DgaiLvVdA~eGv~~QT~~vl~~A~~~~l~~IvvINKiDr~~a~~~~v~~ei~dlf-------- 162 (624)
T Consensus 89 GH~DFSEDTYRTL~A~D~~~M~IDaAKG~E~~T~KL~EV~RLR~~PI~TF~NKLDR~~~~P~ELlDEvE~~L~~~~~~~~ 168 (530)
T TIGR00503 89 GHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDLPILTFINKLDRDIRDPLELLDEVENELKINCAPIT 168 (530)
T ss_pred CCCCCCCHHHHHHHHHHHHEEEHHCCCCHHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCHHHHHHHHHHHHCCCEEEEE
T ss_conf 88876404679999851230011112561234244542010004744335232065435537888888877064113430
Q ss_pred -----------------------HHCC-------------CCHHH----------------C--------C---------
Q ss_conf -----------------------6226-------------73011----------------0--------4---------
Q gi|254780233|r 163 -----------------------SALD-------------ATDAQ----------------L--------D--------- 173 (624)
Q Consensus 163 -----------------------~~l~-------------a~de~----------------l--------d--------- 173 (624)
T Consensus 169 ~PIG~G~~F~GVY~~~~~~~yLy~r~G~~~~~~~~~~~~~L~~P~L~~~~G~D~~~~l~dELELv~~A~~EFd~~~~~~G 248 (530)
T TIGR00503 169 YPIGCGKLFKGVYHLLKDEIYLYQRSGTGGTIKAVRVVKGLNNPALDSAVGSDLAQQLRDELELVEGASNEFDLAAFLGG 248 (530)
T ss_pred CCCCCCCCCHHHHHHHCCEEEEEECCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 56578843113554301406676305888416677776326880156776578999998899999863024568998538
Q ss_pred --HHHHHHHHHCCEECCCCCCCCCCCCHHHHHHHHCCCCCCCCC----------CCHHHCCCCCCCCC---CCCCEEEEE
Q ss_conf --266887886591646742233486413555321024542233----------20000011110136---777349999
Q gi|254780233|r 174 --FPILYGSGRFGWMSDSSDGSRDQGMVPLLNLIVDHVPPPVIS----------EGEFKMIGTILEKD---PFLGRIVTG 238 (624)
Q Consensus 174 --~Pv~~~Sa~~G~~~~~~~~~~~~gl~~Lld~Ii~~iP~P~~~----------e~pl~~~V~~i~~d---~y~Gria~g 238 (624)
T Consensus 249 E~TPVFFG~Al~N-----------FGV~~~L~~l~~~A~~P~~~~~~~~TvE~~~e~FsGFVFK~QANMDPKHRDRvAFl 317 (530)
T TIGR00503 249 ELTPVFFGTALGN-----------FGVDHFLDGLLQYAPKPEARQSDTRTVEPTEEKFSGFVFKLQANMDPKHRDRVAFL 317 (530)
T ss_pred CCCCEECCCCHHH-----------HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCEEEEE
T ss_conf 6463111000101-----------00899999999860788876567754023433544228886337988633505777
Q ss_pred EECCCCCCCCCEEEEECCCCCCEEECCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCCCCC
Q ss_conf 96078051598899960578501211455301103665344411254554322223321012211055652112336666
Q gi|254780233|r 239 RIHSGTIKSNQNIKALSPDGALVEVGRVSKILAFRGIDRQPIDEAHAGDIVSIAGLVKATVADTFCDPSIDEPLKAQPID 318 (624)
Q Consensus 239 RV~sGtlk~Gd~V~vl~~~g~~~~~~kV~~L~~~~G~~r~~v~ea~AGDIvaIaGl~~~~iGDTL~~~~~p~~Lp~i~i~ 318 (624)
T Consensus 318 RV~SGKyEK~M~~k~~R----~gK~V~~S~~~~~~A~~R~~v~~AYaGD~iGL~N~G~~~IGDT~~~GE~-~~f~gIP~F 392 (530)
T TIGR00503 318 RVVSGKYEKGMKLKHVR----TGKDVVLSDALTLMAGDREHVEEAYAGDIIGLHNHGTIQIGDTFTQGEK-LKFTGIPNF 392 (530)
T ss_pred EEECCEEECCCEECCCC----CCCEEEECCHHHHHHCCHHHHHHCCCCCEEEECCCCCEEECCCCCCCCE-EEECCCCCC
T ss_conf 76413463475661421----3553686323565440212231127776531068842674772024865-663877886
Q ss_pred CCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEE-CCC-CCEEEEEECCHHHHHHHHHHHHHCCEEEE
Q ss_conf 5421578612686554444321017889999999730283799998-599-97599996364568888741233480330
Q gi|254780233|r 319 PPTVTMTFGVNDSPLAGTEGDKVTSRMIRDRLFKEAEGNIALKIEE-SSS-KDAFFVSGRGELQLAVLIETMRREGFELA 396 (624)
Q Consensus 319 ~Ptis~~f~vn~sP~ag~eg~~~ts~~l~~rL~ke~~~dvsL~ve~-~~~-~~~~~v~GrGeLHL~IliE~mRREG~E~~ 396 (624)
T Consensus 393 ~PELF~~~R~~D-P~--------~~K~l~KG~~~L~EEG-AVQv~~~l~~~krD~I~~AVG~LQF~VV~~RL~~E-Y~VE 461 (530)
T TIGR00503 393 APELFRRLRLKD-PL--------KQKQLLKGLVQLSEEG-AVQVLRPLDNNKRDLIVGAVGVLQFDVVVYRLKEE-YNVE 461 (530)
T ss_pred CHHHHHHHHCCC-CH--------HHHHHHCCCHHCCCCC-HHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHCC-CCEE
T ss_conf 678999862138-34--------5566550410002264-32323113214776055420114688998873001-3403