HHsearch alignment for GI: 254780787 and conserved domain: cd03689
>cd03689 RF3_II RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the ribosome after release of the nascent polypeptide. RF3 in the GDP state binds to the ribosomal class I RF complex, followed by an exchange of GDP for GTP and release of the class I RF. Sequence comparison of class II release factors with elongation factors shows that prokaryotic RF3 is more similar to EF-G whereas eukaryotic eRF3 is more similar to eEF1A, implying that their precise function may differ.
Probab=96.17 E-value=0.018 Score=34.93 Aligned_cols=74 Identities=26% Similarity=0.374 Sum_probs=61.0
Q ss_pred EEEC------CCCCCEEEEEEEEEEEECCCEEEEEECCEEEEEEEEHHHH-HCCHHHHHHHCCCEEEEEEECCEEEEECC
Q ss_conf 8733------8987078999852178469807996699899822625766-44600668727976699972841100589
Q gi|254780787|r 798 VFAV------TKLGNVAGCKVSEGKVERGSGVRLIRNSTVIYEGKLKTLK-RFKDEVSEVHAGQDCGMAFEKYDNIQAGD 870 (884)
Q Consensus 798 vF~~------~k~~~i~G~~V~~G~i~~~~~~~v~r~~~~i~~g~i~sl~-~~k~~v~ev~~g~ecgi~~~~~~~~~~gD 870 (884)
T Consensus 3 VFKiqanmd~~h~grlaf~RV~SG~l~~G~~v~n~rtgK~~ri~r~~~~~a~~Re~ie~A~aGDIvav--~g~~~~~tGD 80 (85)
T cd03689 3 VFKIQANMDPAHRDRIAFVRVCSGKFERGMKVKHVRLGKEVRLSNPQQFFAQDRETVDEAYPGDIIGL--VNPGNFQIGD 80 (85)
T ss_pred EEEEECCCCCCCCCEEEEEEEEEEEECCCCEEEECCCCCEEEECCHHHHHHCCCEEECEEECCCEEEE--ECCCCCEECC
T ss_conf 89985379910077189999987298689999971279678835445332277008034938989998--2799873146
Q ss_pred EEE
Q ss_conf 899
Q gi|254780787|r 871 MIE 873 (884)
Q Consensus 871 ~i~ 873 (884)
T Consensus 81 TL~ 83 (85)
T cd03689 81 TLT 83 (85)
T ss_pred CCC
T ss_conf 513