HHsearch alignment for GI: 254780150 and conserved domain: TIGR00484

>TIGR00484 EF-G translation elongation factor G; InterPro: IPR004540 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome , , . EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. EF-G is a large, five-domain GTPase that promotes the directional movement of mRNA and tRNAs on the ribosome in a GTP-dependent manner. Unlike other GTPases, but by analogy to the myosin motor, EF-G performs its function of powering translocation in the GDP-bound form; that is, in a kinetically stable ribosome-EF-G(GDP) complex formed by GTP hydrolysis on the ribosome. The complex undergoes an extensive structural rearrangement, in particular affecting the small ribosomal subunit, which leads to mRNA-tRNA movement. Domain 4, which extends from the 'body' of the EF-G molecule much like a lever arm, appears to be essential for the structural transition to take place. In a hypothetical model, GTP hydrolysis induces a conformational change in the G domain of EF-G, which affects the interactions with neighbouring domains within EF-G. The resulting rearrangement of the domains relative to each other generates conformational strain in the ribosome to which EF-G is fixed. Because of structural features of the tRNA-ribosome complex, this conformational strain results in directional tRNA-mRNA movement. The functional parallels between EF-G and motor proteins suggest that EF-G differs from classical G-proteins in that it functions as a force-generating mechanochemical device rather than a conformational switch . Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. Escherichia coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis sp. (strain PCC 6803) has a few proteins more closely related to EF-G than to any other characterised protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G. More information about these proteins can be found at Protein of the Month: Elongation Factors . ; GO: 0003746 translation elongation factor activity, 0005525 GTP binding, 0006414 translational elongation, 0005622 intracellular.
Probab=100.00  E-value=0  Score=323.01  Aligned_cols=268  Identities=25%  Similarity=0.322  Sum_probs=201.6

Q ss_pred             EEEEEEECCCCCHHHHHHHHH------HHHHHHH--HCCCCCCCCHHHHHCCCEEEEEEEEEECCC------EEEEEEEC
Q ss_conf             799999046898878999999------8764442--001312686869862920637899982199------08999847
Q gi|254780150|r   13 LGLSTIGHVDHGKTTLTAAIT------KYYSEEK--KEYGDIDSAPEEKLRGITIATAHVSYETDK------RFYSHIDC   78 (392)
Q Consensus        13 ~ni~~iGhvd~GKSTL~~~L~------~~~~~~~--~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~------~~i~iiD~   78 (392)
T Consensus        11 RNiGI~AHIDaGKTT~~ERILFy~g~~HkIgE~~g~dG~a~MDwME~E~ERGITItSAAT~~~Wk~~~~~~~~~~N~IDT   90 (705)
T TIGR00484        11 RNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHGKDGAATMDWMEQEKERGITITSAATTVEWKGMAKQYDHRINIIDT   90 (705)
T ss_pred             CCCCEEEEECCCCCCCHHEEEECCCCCCCEEECCCCCCCEECCHHHHCCCCCEEEECHHCCHHHHHHHHCCCCEEEEEEC
T ss_conf             55432786338873201010001375010000016788511231230035871421001101021010001403788737


Q ss_pred             CCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCHHHHHHHHHHCCCCCEEEEECCCCCCCCHHHHHHCCCCCCEEEEEEE
Q ss_conf             87302467798774002331452012344332106778888631876023310023335612221101232100111014
Q gi|254780150|r   79 PGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHK  158 (392)
Q Consensus        79 PGH~~f~~~mi~g~~~~D~ailvVda~~G~~~QT~eh~~l~~~lgi~~iIv~iNKmD~v~~~~~~~~i~~~i~~~l~~~~  158 (392)
T Consensus        91 PGHVDFT~EVERSlRVLDGAv~V~~a~~GV~pQ~~TVwRQa~~Y~VPRi~-FVNK~Dk~GAn--f~~~~~~~~~rL~~~~  167 (705)
T TIGR00484        91 PGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANKYEVPRIV-FVNKMDKTGAN--FLRVVNQLKSRLGANA  167 (705)
T ss_pred             CCCEEEEEEEEEHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCEEE-EEECCCCCCCC--HHHHHHHHHHHHCCCC
T ss_conf             89412578852012256456653330268664115677654326886289-97155645787--8899999998746773


Q ss_pred             E-------------------------------------------------------------------------------
Q ss_conf             5-------------------------------------------------------------------------------
Q gi|254780150|r  159 Y-------------------------------------------------------------------------------  159 (392)
Q Consensus       159 ~-------------------------------------------------------------------------------  159 (392)
T Consensus       168 ~~~qlpiGaE~~f~GviDLv~~ka~~~~~~~~g~~~~~~~iP~~~~~~~~~~~~~l~e~~a~~~~~LM~~yl~G~e~~~~  247 (705)
T TIGR00484       168 VPIQLPIGAEDKFIGVIDLVEMKAYFFEEGDKGTKIDEKEIPSDLLEQAKELRENLVEAVAELDEELMEKYLEGEELTIE  247 (705)
T ss_pred             EEEEECCCCCCCCCEEEEEEEEEEEEECCCCCCCEEHHHCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCCCCCCHH
T ss_conf             46641125665631045543015677506776640012226478999999999999998842007889985089653689


Q ss_pred             -----------EEE-EECCCCEEEEEEECCCCCCCCCCCCCHHHHHHCCCCCCCC--------------------CCCCC
Q ss_conf             -----------322-1023311467641144456521233203443102522221--------------------00001
Q gi|254780150|r  160 -----------SDD-TPIIRGSALCALQGTNKELGEDSIHALMKAVDTHIPTPQR--------------------SLDAP  207 (392)
Q Consensus       160 -----------~~~-~pii~~sa~~g~~~~n~~~~~~~~~~Ll~~i~~~~~~p~~--------------------~~~~p  207 (392)
T Consensus       248 ~ik~~~r~g~l~~~~~pv~~GSafK----------NKGv~~lLDAV~~yLP~P~dv~~~~~~~~~~~~~e~~~~~sd~~~  317 (705)
T TIGR00484       248 EIKNAIRKGVLNLELIPVLCGSAFK----------NKGVQLLLDAVVDYLPSPTDVPAIKGIDPDTNEEEIELKASDEEP  317 (705)
T ss_pred             HHHHHHHCCEEEEEEEEEEECCCCH----------HHHHHHHHHHHHHHCCCCCCHHHHHCCCCCCCCCCEEEEECCCCC
T ss_conf             9988875131124688887503300----------025888999999747897431543023556677613675156765


Q ss_pred             CCEECCCCCCCCCCCCCEEEEEEECCCCCCCEEEEEECCCCCCCEEEECCCCC-CCCCCCCCCCHHHHHHHCCCCCCEEE
Q ss_conf             10000000135544543014874245348967999506874321254121001-21144321001366641124543220
Q gi|254780150|r  208 FLMHIEGSCGIEGRGTVVTGCIKRGRIKAGSDVEIIGMGGKKLKVKCTDVEMF-RKKLDEAIAGDNVGLLLRGVNRADVP  286 (392)
Q Consensus       208 ~r~~I~~vf~i~g~G~Vv~GrV~sG~l~~Gd~i~i~p~~~~~~~~kv~si~~~-~~~v~~a~aGd~v~l~Lkgi~~~di~  286 (392)
T Consensus       318 f~~LAFK~~tdpfvG~LTf~RvY~G~l~~G~~v~Ns~~~k~ervgRl~~MHa~~re~I~~~~aGdI~A~----~Glkd~~  393 (705)
T TIGR00484       318 FVALAFKVATDPFVGQLTFVRVYSGVLKSGSYVKNSRKSKKERVGRLVKMHANKREEIKEVRAGDIAAA----IGLKDTT  393 (705)
T ss_pred             CEEEEEEECCCCCCCEEEEEEEEEEEECCCCEEEECHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEE----ECCEECC
T ss_conf             122345640587311278999976151279777602000014432333100377210012135636887----3130025


Q ss_pred             CHHEEECCCCC
Q ss_conf             21177326777
Q gi|254780150|r  287 RGRVVCAPGSI  297 (392)
Q Consensus       287 rGdvl~~~~~~  297 (392)
T Consensus       394 TGdTl~d~~~~  404 (705)
T TIGR00484       394 TGDTLCDEKAD  404 (705)
T ss_pred             CCCCCCCCCCC
T ss_conf             67632256420