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Structural insights into cognate vs. near-cognate discrimination during decoding. This entry contains the small subunit of a ribosome programmed with a near-cognate codon, A/T-site tRNA, P-site tRNA, mRNA and EF-Tu
3IZV
Split Entry
The asymmetric unit for this structure is composed of multiple PDB entries:
3IZT   3IZV  
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The complete entry has been assigned PDB ID 4V6L 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/4v6l.cif.gz
ftp://ftp.wwpdb.org/pub/pdb/data/large_structures/XML/4v6l.xml.gz
 
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Ribosome
    Structure Weight: 889959.00
    Molecule: 16S ribosomal RNA
    Polymer: 1 Type: rna Length: 1542
    Chains: A
    Organism: Escherichia coli DH1
    Molecule: A/T-site tRNA Phe
    Polymer: 2 Type: rna Length: 76
    Chains: B, E
    Organism: Escherichia coli DH1
    Molecule: Elongation factor Tu 2
    Polymer: 3 Type: protein Length: 393
    Chains: C
    Organism: Escherichia coli K-12
    Gene Names: tuf O3O_01385
    UniProtKB: Protein Feature View | Search PDB | K0BGB0  
    Molecule: mRNA
    Polymer: 4 Type: rna Length: 24
    Chains: D
    Organism: Escherichia coli
    Molecule: 30S ribosomal protein S2
    Polymer: 5 Type: protein Length: 241
    Chains: F
    Organism: Escherichia coli K-12
    Gene Names: rpsB i14_0188
    UniProtKB: Protein Feature View | Search PDB | G7RPG3  
    Molecule: 30S ribosomal protein S3
    Polymer: 6 Type: protein Length: 233
    Chains: G
    Organism: Escherichia coli K-12
    Gene Names: rpsC O3O_23220
    UniProtKB: Protein Feature View | Search PDB | K0BT95  
    Molecule: 30S ribosomal protein S4
    Polymer: 7 Type: protein Length: 206
    Chains: H
    Organism: Escherichia coli K-12
    Gene Names: rpsD O3O_23130
    UniProtKB: Protein Feature View | Search PDB | K0BSI6  
    Molecule: 30S ribosomal protein S5
    Polymer: 8 Type: protein Length: 167
    Chains: I
    Organism: Escherichia coli K-12
    Gene Names: rpsE O3O_23165
    UniProtKB: Protein Feature View | Search PDB | K0BUU8  
    Molecule: 30S ribosomal protein S6
    Polymer: 9 Type: protein Length: 135
    Chains: J
    Organism: Escherichia coli K-12
    Gene Names: rpsF b4200 JW4158
    UniProtKB: Protein Feature View | Search PDB | P02358  
    Molecule: 30S ribosomal protein S7
    Polymer: 10 Type: protein Length: 179
    Chains: K
    Organism: Escherichia coli K-12
    Gene Names: rpsG b3341 JW3303
    UniProtKB: Protein Feature View | Search PDB | P02359  
    Molecule: 30S ribosomal protein S8
    Polymer: 11 Type: protein Length: 130
    Chains: L
    Organism: Escherichia coli K-12
    Gene Names: rpsH O3O_23180
    UniProtKB: Protein Feature View | Search PDB | K0BSK1  
    Molecule: 30S ribosomal protein S9
    Polymer: 12 Type: protein Length: 130
    Chains: M
    Organism: Escherichia coli K-12
    Gene Names: rpsI O3O_22830
    UniProtKB: Protein Feature View | Search PDB | K0BSA8  
    Molecule: 30S ribosomal protein S10
    Polymer: 13 Type: protein Length: 103
    Chains: N
    Organism: Escherichia coli K-12
    Gene Names: rpsJ O3O_23255
    UniProtKB: Protein Feature View | Search PDB | K0BSL9  
    Molecule: 30S ribosomal protein S11
    Polymer: 14 Type: protein Length: 129
    Chains: O
    Organism: Escherichia coli K-12
    Gene Names: rpsK O3O_23135
    UniProtKB: Protein Feature View | Search PDB | K0BU46  
    Molecule: 30S ribosomal protein S12
    Polymer: 15 Type: protein Length: 124
    Chains: P
    Organism: Escherichia coli K-12
    Gene Names: rpsL O3O_23290
    UniProtKB: Protein Feature View | Search PDB | K0BUY0  
    Molecule: 30S ribosomal protein S13
    Polymer: 16 Type: protein Length: 118
    Chains: Q
    Organism: Escherichia coli K-12
    Gene Names: rpsM G2583_4016
    UniProtKB: Protein Feature View | Search PDB | D3QTD7  
    Molecule: 30S ribosomal protein S14
    Polymer: 17 Type: protein Length: 101
    Chains: R
    Organism: Escherichia coli K-12
    Gene Names: rpsN O3O_23185
    UniProtKB: Protein Feature View | Search PDB | K0BU60  
    Molecule: 30S ribosomal protein S15
    Polymer: 18 Type: protein Length: 89
    Chains: S
    Organism: Escherichia coli O157:H7
    Gene Names: rpsO ECSP_4140
    UniProtKB: Protein Feature View | Search PDB | C6UUI7  
    Molecule: 30S ribosomal protein S16
    Polymer: 19 Type: protein Length: 82
    Chains: T
    Organism: Escherichia coli K-12
    Gene Names: rpsP O3O_19265
    UniProtKB: Protein Feature View | Search PDB | K0BQZ7  
    Molecule: 30S ribosomal protein S17
    Polymer: 20 Type: protein Length: 84
    Chains: U
    Organism: Escherichia coli K-12
    Gene Names: rpsQ O3O_23205
    UniProtKB: Protein Feature View | Search PDB | K0BSK7  
    Molecule: 30S ribosomal protein S18
    Polymer: 21 Type: protein Length: 75
    Chains: V
    Organism: Escherichia coli K-12
    Gene Names: rpsR O3O_02760
    UniProtKB: Protein Feature View | Search PDB | K0BH81  
    Molecule: 30S ribosomal protein S19
    Polymer: 22 Type: protein Length: 92
    Chains: W
    Organism: Escherichia coli K-12
    Gene Names: rpsS O3O_23230
    UniProtKB: Protein Feature View | Search PDB | K0BSL4  
    Molecule: 30S ribosomal protein S20
    Polymer: 23 Type: protein Length: 87
    Chains: X
    Organism: Escherichia coli K-12
    Gene Names: rpsT O3O_03950
    UniProtKB: Protein Feature View | Search PDB | K0BHE1  
    Molecule: 30S ribosomal protein S21
    Polymer: 24 Type: protein Length: 71
    Chains: Y
    Organism: Escherichia coli K-12
    Gene Names: rpsU O3O_22020
    UniProtKB: Protein Feature View | Search PDB | K0BSH9  
     

  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Escherichia coli dh1   Taxonomy    
    Polymer: 2
    Scientific Name: Escherichia coli dh1   Taxonomy    
    Polymer: 3
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 4
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 5
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 6
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 7
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 8
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 9
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 10
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 11
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 12
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 13
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 14
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 15
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 16
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 17
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 18
    Scientific Name: Escherichia coli o157:h7   Taxonomy    
    Polymer: 19
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 20
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 21
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 22
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 23
    Scientific Name: Escherichia coli k-12   Taxonomy    
    Polymer: 24
    Scientific Name: Escherichia coli k-12   Taxonomy    
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    PSU
    Search 
    PSU C9 H13 N2 O9 P U rnaLinking
    7MG
    Search 
    7MG C11 H18 N5 O8 P G rnaLinking
    2MG
    Search 
    2MG C11 H16 N5 O8 P G rnaLinking
    5MC
    Search 
    5MC C10 H16 N3 O8 P C rnaLinking
    4OC
    Search 
    4OC C11 H18 N3 O8 P C rnaLinking
    UR3
    Search 
    UR3 C10 H15 N2 O9 P U rnaLinking
    MA6
    Search 
    MA6 C12 H18 N5 O7 P A rnaLinking
    4SU
    Search 
    4SU C9 H13 N2 O8 P S U rnaLinking
    H2U
    Search 
    H2U C9 H15 N2 O9 P U rnaLinking
    MIA
    Search 
    MIA C16 H26 N5 O7 P S A rnaLinking
    3AU
    Search 
    3AU C13 H20 N3 O11 P U rnaLinking
    5MU
    Search 
    5MU C10 H15 N2 O9 P U rnaLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly       
Composite of PDB entries (3IZV and 3IZT)