HHsearch alignment for GI: 254780787 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=99.72  E-value=6.3e-18  Score=140.60  Aligned_cols=121  Identities=27%  Similarity=0.393  Sum_probs=107.6

Q ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHCCCC----------------------CCEECCCEEEEECCCCEEEEEECCCHHH
Q ss_conf             389862368504467778864222100123----------------------1000121499951784388885166157
Q gi|254780787|r  385 VVTIMGHVDHGKTSLLDAIRKADVAKGEIG----------------------GITQHIGAYQVAYQGKNITFLDTPGHAA  442 (884)
Q Consensus       385 vv~v~ghvd~GKt~lld~~r~~~~~~~e~g----------------------gitq~iga~~~~~~~~~~~~iDtPGh~~  442 (884)
T Consensus        13 ~FAIISHPDAGKTT~TEK~LLyG~AIQ~AG~VK~r~S~~~A~SDWM~ME~QRGISIT~~VlQF~Y~~~l~NLLDTPGH~D   92 (530)
T TIGR00503        13 TFAIISHPDAGKTTLTEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVLQFPYRDCLVNLLDTPGHED   92 (530)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEEEEEECCCCCEEECCCCCCCCC
T ss_conf             54366168887424678888742566522441220012212213788750588144412774145774562036858887


Q ss_pred             HHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCHHHHH
Q ss_conf             899986664206805999983667402357778989970994156123312443320002210
Q gi|254780787|r  443 FYEMRARGARVTDIAVLVLAADEEIMPQAIESINHAKAADVSIIVAINKIDKLGADPQKVRMS  505 (884)
Q Consensus       443 f~~~r~rg~~~~d~~ilvv~~~~g~~~qt~e~~~~~~~~~~p~iva~nk~d~~~~~~~~~~~~  505 (884)
T Consensus        93 FSEDTYRTL~A~D~~~M~IDaAKG~E~~T~KL~EV~RLR~~PI~TF~NKLDR~~~~P~ELlDE  155 (530)
T TIGR00503        93 FSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDLPILTFINKLDRDIRDPLELLDE  155 (530)
T ss_pred             CCCHHHHHHHHHHHHEEEHHCCCCHHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCHHHHHHH
T ss_conf             640467999985123001111256123424454201000474433523206543553788888