Crystal structure of YfiA bound to the 70S ribosome. This PDB entry contains coordinates for the 30S subunit with bound YfiA of the 2nd ribosome in the ASU
DOI:10.2210/pdb3v2e/pdb   NDB ID: NA1510
3V2E
Split Entry
The asymmetric unit for this structure is composed of multiple PDB entries:
3V2C    3V2D    3V2E    3V2F   
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The complete entry has been assigned PDB ID 4V8I 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/4v8i.cif.gz
ftp://ftp.wwpdb.org/pub/pdb/data/large_structures/XML/4v8i.xml.gz
 
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Ribosome/inhibitor
    Structure Weight: 802265.35
    Molecule: 16S Ribosomal RNA
    Polymer: 1 Type: rna Length: 1522
    Chains: A
    Organism: Thermus thermophilus
    Molecule: 30S Ribosomal Protein S2
    Polymer: 2 Type: protein Length: 256
    Chains: B
    Organism: Thermus thermophilus
    Gene Names: rpsB rps2 TTHA0861
    UniProtKB: Protein Feature View | Search PDB | P80371  
    Molecule: 30S Ribosomal Protein S3
    Polymer: 3 Type: protein Length: 239
    Chains: C
    Organism: Thermus thermophilus
    Gene Names: rpsC rps3 TTHA1686
    UniProtKB: Protein Feature View | Search PDB | P80372  
    Molecule: 30S Ribosomal Protein S4
    Polymer: 4 Type: protein Length: 209
    Chains: D
    Organism: Thermus thermophilus
    Gene Names: rpsD rps4 TTHA1665
    UniProtKB: Protein Feature View | Search PDB | P80373  
    Molecule: 30S Ribosomal Protein S5
    Polymer: 5 Type: protein Length: 162
    Chains: E
    Organism: Thermus thermophilus
    Gene Names: rpsE TTHA1675
    UniProtKB: Protein Feature View | Search PDB | Q5SHQ5  
    Molecule: 30S Ribosomal Protein S6
    Polymer: 6 Type: protein Length: 101
    Chains: F
    Organism: Thermus thermophilus
    Gene Names: rpsF TTHA0245
    UniProtKB: Protein Feature View | Search PDB | Q5SLP8  
    Molecule: 30S Ribosomal Protein S7
    Polymer: 7 Type: protein Length: 156
    Chains: G
    Organism: Thermus thermophilus
    Gene Names: rpsG rps7 TTHA1696
    UniProtKB: Protein Feature View | Search PDB | P17291  
    Molecule: 30S Ribosomal Protein S8
    Polymer: 8 Type: protein Length: 138
    Chains: H
    Organism: Thermus thermophilus
    Gene Names: rpsH TTHA1678
    UniProtKB: Protein Feature View | Search PDB | Q5SHQ2  
    Molecule: 30S Ribosomal Protein S9
    Polymer: 9 Type: protein Length: 128
    Chains: I
    Organism: Thermus thermophilus
    Gene Names: rpsI rps9 TTHA1464
    UniProtKB: Protein Feature View | Search PDB | P80374  
    Molecule: 30S Ribosomal Protein S10
    Polymer: 10 Type: protein Length: 105
    Chains: J
    Organism: Thermus thermophilus
    Gene Names: rpsJ TTHA1693
    UniProtKB: Protein Feature View | Search PDB | Q5SHN7  
    Molecule: 30S Ribosomal Protein S11
    Polymer: 11 Type: protein Length: 129
    Chains: K
    Organism: Thermus thermophilus
    Gene Names: rpsK rps11 TTHA1666
    UniProtKB: Protein Feature View | Search PDB | P80376  
    Molecule: 30S Ribosomal Protein S12
    Polymer: 12 Type: protein Length: 132
    Chains: L
    Organism: Thermus thermophilus
    Gene Names: rpsL TTHA1697
    UniProtKB: Protein Feature View | Search PDB | Q5SHN3  
    Molecule: 30S Ribosomal Protein S13
    Polymer: 13 Type: protein Length: 126
    Chains: M
    Organism: Thermus thermophilus
    Gene Names: rpsM rps13 TTHA1667
    UniProtKB: Protein Feature View | Search PDB | P80377  
    Molecule: 30S Ribosomal Protein S14
    Polymer: 14 Type: protein Length: 61
    Chains: N
    Organism: Thermus thermophilus
    Gene Names: rpsZ rpsN TTHA1679
    UniProtKB: Protein Feature View | Search PDB | Q5SHQ1  
    Molecule: 30S Ribosomal Protein S15
    Polymer: 15 Type: protein Length: 89
    Chains: O
    Organism: Thermus thermophilus
    Gene Names: rpsO TTHA1138
    UniProtKB: Protein Feature View | Search PDB | Q5SJ76  
    Molecule: 30S Ribosomal Protein S16
    Polymer: 16 Type: protein Length: 88
    Chains: P
    Organism: Thermus thermophilus
    Gene Names: rpsP TTHA1035
    UniProtKB: Protein Feature View | Search PDB | Q5SJH3  
    Molecule: 30S Ribosomal Protein S17
    Polymer: 17 Type: protein Length: 105
    Chains: Q
    Organism: Thermus thermophilus
    Gene Names: rpsQ TTHA1683
    UniProtKB: Protein Feature View | Search PDB | Q5SHP7  
    Molecule: 30S Ribosomal Protein S18
    Polymer: 18 Type: protein Length: 88
    Chains: R
    Organism: Thermus thermophilus
    Gene Names: rpsR TTHA0243
    UniProtKB: Protein Feature View | Search PDB | Q5SLQ0  
    Molecule: 30S Ribosomal Protein S19
    Polymer: 19 Type: protein Length: 93
    Chains: S
    Organism: Thermus thermophilus
    Gene Names: rpsS TTHA1688
    UniProtKB: Protein Feature View | Search PDB | Q5SHP2  
    Molecule: 30S Ribosomal Protein S20
    Polymer: 20 Type: protein Length: 106
    Chains: T
    Organism: Thermus thermophilus
    Gene Names: rpsT rps20 TTHA1397
    UniProtKB: Protein Feature View | Search PDB | P80380  
    Molecule: 30S Ribosomal Protein THX
    Polymer: 21 Type: protein Length: 27
    Chains: U
    Organism: Thermus thermophilus
    Gene Names: rpsU TTHA1396
    UniProtKB: Protein Feature View | Search PDB | Q5SIH3  
    Molecule: Ribosome-associated inhibitor A
    Polymer: 22 Type: protein Length: 119
    Chains: Y
    Organism: Escherichia coli K-12
    Gene Names: raiA yfiA b2597 JW2578
    UniProtKB: Protein Feature View | Search PDB | P0AD49  
     
  •   Structure Validation Hide

    View the 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: Escherichia coli k-12   Taxonomy   Expression System: Escherichia coli  
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    MG
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    MG Mg
    MAGNESIUM ION
    ZN
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    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:NA1510
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly       
Composite of PDB entries (3V2C and 3V2D)