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(-)Asym./Biol. Unit
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(-) Description

Title :  CRYSTAL STRUCTURE OF ARCHAEAL TRANSLATION TERMINATION FACTOR, ARF1
 
Authors :  K. Kobayashi, I. Kikuno, R. Ishitani, K. Ito, O. Nureki
Date :  01 Apr 10  (Deposition) - 03 Nov 10  (Release) - 24 Nov 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Saito, K. Kobayashi, M. Wada, I. Kikuno, A. Takusagawa, M. Mochizuki, T. Uchiumi, R. Ishitani, O. Nureki, K. Ito
Omnipotent Role Of Archaeal Elongation Factor 1 Alpha (Ef1{Alpha}) In Translational Elongation And Termination, And Quality Control Of Protein Synthesis
Proc. Natl. Acad. Sci. Usa V. 107 19242 2010
PubMed-ID: 20974926  |  Reference-DOI: 10.1073/PNAS.1009599107

(-) Compounds

Molecule 1 - PEPTIDE CHAIN RELEASE FACTOR SUBUNIT 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Strain: BL21(DE3) CODONPLUS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: AEROPYRUM PERNIX
    Organism Taxid: 56636
    Synonym: TRANSLATION TERMINATION FACTOR ARF1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 3AGK)

(-) Sites  (0, 0)

(no "Site" information available for 3AGK)

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:97 -A:108

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3AGK)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3AGK)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3AGK)

(-) Exons   (0, 0)

(no "Exon" information available for 3AGK)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:345
 aligned with RF1_AERPE | Q9YAF1 from UniProtKB/Swiss-Prot  Length:373

    Alignment length:362
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366  
            RF1_AERPE     7 EERLTISKRELARLLKELKKWSAPATVLLSLYIPPGRPLSDVMTLLRQEYSITDNIKLKRTRQAVKRALSAAMDRLQMLTSTPPNGLVLFCGEDMSTGKFECFMFSPPEPIRVFYYRTDKRFITDFLEDMVEDNNAIGIIIVERDQATIGLLKGARLEVLKELEGFVPGKHKMGGQSQRRYERIIEQMVDEFFKKVGEEASNLLVPLAEKGVLKGVIVAGPGLAKQEFVEGNYLDYRLKKILAPELVDVAYQGLQGLKEAVMKAEKVVEAQMYRDAVNAMEEFKLHLAKGTGMIVYGEKDVEAALEMGAVKTLLIHESREDLEEWVEKAKSSGAQVIVVPESLAEAEWFLKTFGGLAGILRF 368
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhh.hhhhhhhhhhhhh........eeeeee....hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.........eeeeee.-----..eeeee.........eeeee....hhhhhh......eeeeeeee..eeeeeeee..eeeeeeeee....------------hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeee..hhhhhhhhh...hhhhhh......ee...hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh....eeehhhhhhhhhhh..eeeeeee....hhhhhhhhhh....eeeee.....hhhhhhhhhh.eeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3agk A   7 EERLTISKRELARLLKELKKWSAPATVLLSLYIPPGRPLSDVMTLLRQEYSITDNIKLKRTRQAVKRALSAAMDRLQMLTSTPPNGLVLFCGE-----KFECFMFSPPEPIRVFYYRTDKRFITDFLEDMVEDNNAIGIIIVERDQATIGLLKGARLEVLKELEGFVP------------YERIIEQMVDEFFKKVGEEASNLLVPLAEKGVLKGVIVAGPGLAKQEFVEGNYLDYRLKKILAPELVDVAYQGLQGLKEAVMKAEKVVEAQMYRDAVNAMEEFKLHLAKGTGMIVYGEKDVEAALEMGAVKTLLIHESREDLEEWVEKAKSSGAQVIVVPESLAEAEWFLKTFGGLAGILRF 368
                                    16        26        36        46        56        66        76        86        96  |    106       116       126       136       146       156       166       | -         -|      196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366  
                                                                                                                       99   105                                                                  174          187
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3AGK)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3AGK)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3AGK)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (RF1_AERPE | Q9YAF1)
molecular function
    GO:0016149    translation release factor activity, codon specific    A translation release factor that is specific for one or more particular termination codons; acts at the ribosomal A-site and require polypeptidyl-tRNA at the P-site.
biological process
    GO:0006412    translation    The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
    GO:0006415    translational termination    The process resulting in the release of a polypeptide chain from the ribosome, usually in response to a termination codon (UAA, UAG, or UGA in the universal genetic code).
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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        RF1_AERPE | Q9YAF1: 3vmf

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