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Recognition of the amber stop codon by release factor RF1. This entry 3MS0 contains 30S ribosomal subunit. The 50S ribosomal subunit can be found in PDB entry 3MRZ. Molecule A in the same asymmetric unit is deposited as 3MR8 (30S) and 3MS1 (50S).
DOI:10.2210/pdb3ms0/pdb   NDB ID: NA0592
3MS0
Split Entry
The asymmetric unit for this structure is composed of multiple PDB entries:
3MR8   3MRZ   3MS0   3MS1  
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The complete entry has been assigned PDB ID 4V7P and is available for download in PDBx/mmCIF and PDBML/XML formats from the FTP archive at:
ftp://ftp.wwpdb.org/pub/pdb/data/large_structures/mmCIF/4v7p.cif.gz
ftp://ftp.wwpdb.org/pub/pdb/data/large_structures/XML/4v7p.xml.gz
 
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Ribosome
    Structure Weight: 828165.67
    Molecule: 16S rRNA (1504-MER)
    Polymer: 1 Type: rna Length: 1504
    Chains: A
    Organism: Thermus thermophilus HB27
    Molecule: 30S ribosomal protein S2
    Polymer: 2 Type: protein Length: 234
    Chains: B
    Organism: Thermus thermophilus HB27
    Gene Names: rpsB rps2 TT_C0509
    UniProtKB: Protein Feature View | Search PDB | P62662  
    Molecule: 30S ribosomal protein S3
    Polymer: 3 Type: protein Length: 206
    Chains: C
    Organism: Thermus thermophilus HB27
    Gene Names: rpsC rps3 TT_C1322
    UniProtKB: Protein Feature View | Search PDB | P62663  
    Molecule: 30S ribosomal protein S4
    Polymer: 4 Type: protein Length: 208
    Chains: D
    Organism: Thermus thermophilus HB27
    Gene Names: rpsD rps4 TT_C1301
    UniProtKB: Protein Feature View | Search PDB | P62664  
    Molecule: 30S ribosomal protein S5
    Polymer: 5 Type: protein Length: 151
    Chains: E
    Organism: Thermus thermophilus HB27
    Gene Names: rpsE rps5 TT_C1311
    UniProtKB: Protein Feature View | Search PDB | P62665  
    Molecule: 30S ribosomal protein S6
    Polymer: 6 Type: protein Length: 101
    Chains: F
    Organism: Thermus thermophilus HB27
    Gene Names: rpsF rps6 TT_C1740
    UniProtKB: Protein Feature View | Search PDB | P62666  
    Molecule: 30S ribosomal protein S7
    Polymer: 7 Type: protein Length: 155
    Chains: G
    Organism: Thermus thermophilus HB27
    Gene Names: rpsG rps7 TT_C1332
    UniProtKB: Protein Feature View | Search PDB | P62667  
    Molecule: 30S ribosomal protein S8
    Polymer: 8 Type: protein Length: 138
    Chains: H
    Organism: Thermus thermophilus HB27
    Gene Names: rpsH rps8 TT_C1314
    UniProtKB: Protein Feature View | Search PDB | P62668  
    Molecule: 30S ribosomal protein S9
    Polymer: 9 Type: protein Length: 127
    Chains: I
    Organism: Thermus thermophilus HB27
    Gene Names: rpsI rps9 TT_C1100
    UniProtKB: Protein Feature View | Search PDB | P62669  
    Molecule: 30S ribosomal protein S10
    Polymer: 10 Type: protein Length: 98
    Chains: J
    Organism: Thermus thermophilus HB27
    Gene Names: rpsJ rps10 TT_C1329
    UniProtKB: Protein Feature View | Search PDB | P62653  
    Molecule: 30S ribosomal protein S11
    Polymer: 11 Type: protein Length: 119
    Chains: K
    Organism: Thermus thermophilus HB27
    Gene Names: rpsK rps11 TT_C1302
    UniProtKB: Protein Feature View | Search PDB | P62654  
    Molecule: 30S ribosomal protein S12
    Polymer: 12 Type: protein Length: 124
    Chains: L
    Organism: Thermus thermophilus HB27
    Gene Names: rpsL rps12 TT_C1333
    UniProtKB: Protein Feature View | Search PDB | P61941  
    Molecule: 30S ribosomal protein S13
    Polymer: 13 Type: protein Length: 117
    Chains: M
    Organism: Thermus thermophilus HB27
    Gene Names: rpsM rps13 TT_C1303
    UniProtKB: Protein Feature View | Search PDB | P62655  
    Molecule: 30S ribosomal protein S14
    Polymer: 14 Type: protein Length: 60
    Chains: N
    Organism: Thermus thermophilus HB27
    Gene Names: rpsZ rps14 rpsN TT_C1315
    UniProtKB: Protein Feature View | Search PDB | P62656  
    Molecule: 30S ribosomal protein S15
    Polymer: 15 Type: protein Length: 88
    Chains: O
    Organism: Thermus thermophilus HB27
    Gene Names: rpsO rps15 TT_C0773
    UniProtKB: Protein Feature View | Search PDB | P62657  
    Molecule: 30S ribosomal protein S16
    Polymer: 16 Type: protein Length: 83
    Chains: P
    Organism: Thermus thermophilus HB27
    Gene Names: rpsP rps16 TT_C0673
    UniProtKB: Protein Feature View | Search PDB | P62238  
    Molecule: 30S ribosomal protein S17
    Polymer: 17 Type: protein Length: 99
    Chains: Q
    Organism: Thermus thermophilus HB27
    Gene Names: rpsQ rps17 TT_C1319
    UniProtKB: Protein Feature View | Search PDB | P62658  
    Molecule: 30S ribosomal protein S18
    Polymer: 18 Type: protein Length: 70
    Chains: R
    Organism: Thermus thermophilus HB27
    Gene Names: rpsR rps18 TT_C1742
    UniProtKB: Protein Feature View | Search PDB | P62659  
    Molecule: 30S ribosomal protein S19
    Polymer: 19 Type: protein Length: 78
    Chains: S
    Organism: Thermus thermophilus HB27
    Gene Names: rpsS rps19 TT_C1324
    UniProtKB: Protein Feature View | Search PDB | P62660  
    Molecule: 30S ribosomal protein S20
    Polymer: 20 Type: protein Length: 99
    Chains: T
    Organism: Thermus thermophilus HB27
    Gene Names: rpsT rps20 TT_C1031
    UniProtKB: Protein Feature View | Search PDB | P62661  
    Molecule: 30S ribosomal protein Thx
    Polymer: 21 Type: protein Length: 24
    Chains: U
    Organism: Thermus thermophilus HB27
    Gene Names: rpsU TT_C1030
    UniProtKB: Protein Feature View | Search PDB | P62613  
    Molecule: Peptide chain release factor 1
    Polymer: 22 Type: protein Length: 354
    Chains: V
    Organism: Thermus thermophilus HB27
    Gene Names: prfA TT_C1577
    UniProtKB: Protein Feature View | Search PDB | Q72HB8  
    Molecule: P-site tRNA-fMet
    Polymer: 23 Type: rna Length: 77
    Chains: W
    Organism: Escherichia coli BL21(DE3)
    Molecule: messenger RNA (5'-R(*AP*AP*UP*GP*UP*AP*G)-3')
    Polymer: 24 Type: rna Length: 9
    Chains: X
     
  •   Structure Validation Hide

    Download full validation report    

     

  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 2
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 3
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 4
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 5
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 6
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 7
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 8
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 9
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 10
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 11
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 12
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 13
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 14
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 15
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 16
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 17
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 18
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 19
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 20
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 21
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 22
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 23
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 24
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    1zbt  Crystal structure of Peptide chain release factor 1 (RF-1) (SMU.1085) from Streptococcus mutans at 2.34 A resolution 
    3D5A  Structural basis for translation termination on the 70S ribosome. This file contains the 30S subunit, release factor 1 (RF1), two tRNA, and mRNA molecules of one 70S ribosome. The entire crystal structure contains two 70S ribosomes as described in remark 400. 
    3F1E  Crystal structure of a translation termination complex formed with release factor RF2. This file contains the 30S subunit, RF2, two tRNA, and mRNA molecules of one 70S ribosome. The entire crystal structure contains two 70S ribosomes as described in remark 400. 
    3MR8  30S subunit in molecule A 
    3MRZ  50S subunit 
    3MS1  50S subunit in molecule A 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    ZN
    Search 
    Download 
    ZN Zn
    ZINC ION
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: NA0592
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly       
Composite of PDB entries (3MR8 and 3MS1)