HHsearch alignment for GI: 254780150 and conserved domain: cd03700
>cd03700 eEF2_snRNP_like_II EF2_snRNP_like_II: this subfamily represents domain II of elongation factor (EF) EF-2 found eukaryotes and archaea and, the C-terminal portion of the spliceosomal human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and, its yeast counterpart Snu114p. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. This translocation step is catalyzed by EF-2_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Yeast Snu114p is essential for cell viability and for splicing in vivo. U5-116 kD binds GTP. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p.
Probab=98.24 E-value=1e-06 Score=60.76 Aligned_cols=69 Identities=23% Similarity=0.390 Sum_probs=51.6
Q ss_pred CCCCCEEEEEEECCCCCCCEEEEEECC------CCCCCEEEECCCCC----CCCCCCCCCCHHHHHHHCCCCCCEEECHH
Q ss_conf 445430148742453489679995068------74321254121001----21144321001366641124543220211
Q gi|254780150|r 220 GRGTVVTGCIKRGRIKAGSDVEIIGMG------GKKLKVKCTDVEMF----RKKLDEAIAGDNVGLLLRGVNRADVPRGR 289 (392)
Q Consensus 220 g~G~Vv~GrV~sG~l~~Gd~i~i~p~~------~~~~~~kv~si~~~----~~~v~~a~aGd~v~l~Lkgi~~~di~rGd 289 (392)
T Consensus 14 ~~~fia~gRV~SGtl~~G~~V~vlgp~y~~~~~~~~~~~~I~~l~~~~G~~~~~v~~~~AGnIv~i--~Gld--~~~~g~ 89 (93)
T cd03700 14 KGGFIAFGRVFSGTIRKGQKVRVLGPNYSPEDEEDLSKKTIQRLYLMMGRYREPVDEVPAGNIVLI--VGLD--QLKSGT 89 (93)
T ss_pred CCEEEEEEEEEECEEECCCEEEEECCCCCCCCCCEEEEEEEEEEEEEECCCEEECCEECCCCEEEE--ECCC--CCEEEE
T ss_conf 978999999986668089999997887888877613388986999995688999098889999999--7765--443775
Q ss_pred EEE
Q ss_conf 773
Q gi|254780150|r 290 VVC 292 (392)
Q Consensus 290 vl~ 292 (392)
T Consensus 90 ~~t 92 (93)
T cd03700 90 TAT 92 (93)
T ss_pred EEE
T ss_conf 983