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