HHsearch alignment for GI: 254780787 and conserved domain: cd04088

>cd04088 EFG_mtEFG_II EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. 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. In bacteria this translocation step is catalyzed by EF-G_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. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more compl
Probab=96.43  E-value=0.0065  Score=37.90  Aligned_cols=71  Identities=23%  Similarity=0.301  Sum_probs=55.9

Q ss_pred             EEEEC---CCCCCEEEEEEEEEEEECCCEEEEEECCEEEEEEEEHHHHH----CCHHHHHHHCCCEEEEEEECCEEEEEC
Q ss_conf             88733---89870789998521784698079966998998226257664----460066872797669997284110058
Q gi|254780787|r  797 EVFAV---TKLGNVAGCKVSEGKVERGSGVRLIRNSTVIYEGKLKTLKR----FKDEVSEVHAGQDCGMAFEKYDNIQAG  869 (884)
Q Consensus       797 ~vF~~---~k~~~i~G~~V~~G~i~~~~~~~v~r~~~~i~~g~i~sl~~----~k~~v~ev~~g~ecgi~~~~~~~~~~g  869 (884)
T Consensus         4 ~VFK~~~d~~~Gri~~~RV~~G~l~~g~~v~~~~~~~~~---kv~~l~~~~g~~~~~v~~~~aGdI~a--i~gl~~~~~G   78 (83)
T cd04088           4 LVFKTIHDPFVGKLSFVRVYSGTLKAGSTLYNSTKGKKE---RVGRLLRMHGKKQEEVEEAGAGDIGA--VAGLKDTATG   78 (83)
T ss_pred             EEEEEEECCCCCEEEEEEEECCEECCCCEEEECCCCEEE---EECEEEEEECCCCEECCEECCCCEEE--EECCCCCCCC
T ss_conf             999766559888699999958998679758860651048---82204788569823946888999999--9588887056


Q ss_pred             CEE
Q ss_conf             989
Q gi|254780787|r  870 DMI  872 (884)
Q Consensus       870 D~i  872 (884)
T Consensus        79 DTl   81 (83)
T cd04088          79 DTL   81 (83)
T ss_pred             CCC
T ss_conf             753