HHsearch alignment for GI: 254781067 and conserved domain: TIGR00037
>TIGR00037 eIF_5A translation initiation factor eIF-5A; InterPro: IPR001884 Translation initiation factor 5A (IF-5A) is reported to be involved in the first step of peptide bond formation in translation, to be involved in cell-cycle regulation and to be a cofactor for the Rev and Rex transactivator proteins of human immunodeficiency virus-1 and T-cell leukaemia virus I, respectively , , . IF-5A contains an unusual amino acid, hypusine N-epsilon-(4-aminobutyl-2-hydroxy)lysine), that is required for its function. The first step in the post-translational modification of lysine to hypusine is catalyzed by the enzyme deoxyhypusine synthase, the structure of which has been reported. The crystal structure of IF-5A from the archaeon Pyrobaculum aerophilum has been determined to 1.75 A. Unmodified P. aerophilum IF-5A is found to be a beta structure with two domains and three separate hydrophobic cores. The lysine (Lys42) that is post-translationally modified by deoxyhypusine synthase is found at one end of the IF-5A molecule in a turn between beta strands beta4 and beta5; this lysine residue is freely solvent accessible. The C-terminal domain is found to be homologous to the cold-shock protein CspA of E. coli, which has a well characterised RNA-binding fold, suggesting that IF-5A is involved in RNA binding . ; GO: 0003743 translation initiation factor activity, 0006413 translational initiation.
Probab=99.64 E-value=1.1e-15 Score=116.96 Aligned_cols=113 Identities=27% Similarity=0.274 Sum_probs=98.6
Q ss_pred EEHHHCCCCCEEEECCEEEEEEEEEEECCCC-CCCEEEEEEEECCCCCCEEEEECCCCCEEEEEECCCEEEEEEEECCEE
Q ss_conf 6643216775899889379999987536888-763899999982468710013427872001010564057899619889
Q gi|254781067|r 4 VIASAVRKGNVLDVDGKLYIVLVAKNFHPGK-GTPITQVEMRRISDGVKVSNRWRTTEQVERAFVEDQRFQFLYQDQEGF 82 (189)
Q Consensus 4 i~an~lk~G~~i~~dg~~~~V~~~~~~kpgk-g~a~v~~klknL~tG~~~e~~f~~~ekve~~~ie~~~~qylY~dg~~~ 82 (189)
T Consensus 7 v~v~~Lr~g~yVvIdg~PC~IvdiS~SkpGKHG~AKar~~aigIF~~~K~e~v~P~~~k~~VPiv~r~~~Q~l~i~g~~~ 86 (137)
T TIGR00037 7 VEVSALRVGGYVVIDGEPCKIVDISTSKPGKHGHAKARVVAIGIFDGQKREFVSPVTSKVEVPIVDRREAQVLAIMGGVV 86 (137)
T ss_pred EEEEECCCCCEEEECCCCCEEEECCCCCCCCCCCCEEEEEEEECCCCCCEEEECCCCCCEEECEEECCCCEEEEECCCEE
T ss_conf 46345124866887686760676131498986752789988612266542101775562141437367503888618837
Q ss_pred EEEECCCCCCCCCCHH--HHHHHHHHCC-CCCEEEEE
Q ss_conf 9994688764321154--3001332013-78615689
Q gi|254781067|r 83 HFMNPETYDQVTVSEE--VIGDQKVYFQ-EGMEVKLL 116 (189)
Q Consensus 83 ~FMd~etyeqi~i~~~--~ig~~~~fL~-eg~~v~i~ 116 (189)
T Consensus 87 qLMdl~tyet~e~~~PeGEL~d~l~~g~DEGkDLmV~ 123 (137)
T TIGR00037 87 QLMDLETYETFELPIPEGELGDSLEEGFDEGKDLMVE 123 (137)
T ss_pred EEECCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf 8632788730220278775734300013666022034