1MJ1 image
Deposition Date 2002-08-26
Release Date 2002-11-01
Last Version Date 2024-02-14
Entry Detail
PDB ID:
1MJ1
Keywords:
RIBOSOME
Title:
FITTING THE TERNARY COMPLEX OF EF-Tu/tRNA/GTP AND RIBOSOMAL PROTEINS INTO A 13 A CRYO-EM MAP OF THE COLI 70S RIBOSOME
Biological Source:
Source Organism:
Escherichia coli (Taxon ID: 562)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
13.00 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
1MJ1 validation report
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Elongation Factor Tu
Chain IDs:E (auth: A)
Chain Length:405
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:Q01698 Pfam ID:PF00009, PF03144, PF03143
Polymer Type:polyribonucleotide
Molecule:Phe-tRNA
Chain IDs:A (auth: D), B (auth: C)
Chain Length:76
Number of Molecules:2
Biological Source:Escherichia coli
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:L11 ribosomal protein
Chain IDs:H (auth: L)
Chain Length:141
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P29395 Pfam ID:PF03946, PF00298
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:S12 ribosomal protein
Chain IDs:F (auth: O)
Chain Length:135
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:Q5SHN3 Pfam ID:PF00164
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:S13 ribosomal protein
Chain IDs:G (auth: P)
Chain Length:126
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P80377 Pfam ID:PF00416
Polymer Type:polyribonucleotide
Molecule:sarcin-ricin loop of 23SrRNA
Chain IDs:C (auth: Q)
Chain Length:41
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polyribonucleotide
Molecule:helix 69 of 23S rRNA
Chain IDs:D (auth: R)
Chain Length:27
Number of Molecules:1
Biological Source:Escherichia coli
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
1MA A A ?
2MG A G 2N-METHYLGUANOSINE-5'-MONOPHOSPHATE
5MC A C 5-METHYLCYTIDINE-5'-MONOPHOSPHATE
5MU A U 5-METHYLURIDINE 5'-MONOPHOSPHATE
7MG A G ?
H2U A U 5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE
M2G A G N2-DIMETHYLGUANOSINE-5'-MONOPHOSPHATE
OMC A C O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE
OMG A G O2'-METHYLGUANOSINE-5'-MONOPHOSPHATE
PSU A U PSEUDOURIDINE-5'-MONOPHOSPHATE
YG A G WYBUTOSINE
Ligand Molecules
NA
Primary Citation
Ribosome Interactions of Aminoacyl-tRNA and Elongation Factor TU in the Codon Recognition Complex
Nat.Struct.Biol. 9 849 854 (2002)
PMID: 12379845

Abstact

The mRNA codon in the ribosomal A-site is recognized by aminoacyl-tRNA (aa-tRNA) in a ternary complex with elongation factor Tu (EF-Tu) and GTP. Here we report the 13 A resolution three-dimensional reconstruction determined by cryo-electron microscopy of the kirromycin-stalled codon-recognition complex. The structure of the ternary complex is distorted by binding of the tRNA anticodon arm in the decoding center. The aa-tRNA interacts with 16S rRNA, helix 69 of 23S rRNA and proteins S12 and L11, while the sarcin-ricin loop of 23S rRNA contacts domain 1 of EF-Tu near the nucleotide-binding pocket. These results provide a detailed snapshot view of an important functional state of the ribosome and suggest mechanisms of decoding and GTPase activation.

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Primary Citation of related structures
1MJ1
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