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70S ribosome translocation intermediate GDPNP-II containing elongation factor EFG/GDPNP, mRNA, and tRNA bound in the pe*/E state. This entry contains 30S ribosomal subunit A. The full asymmetric unit also contains PDB entries 4KBU (50S subunit A), 4KBV (30S subunit B), and 4KBW (50S subunit B).
DOI:10.2210/pdb4kbt/pdb   NDB ID: NA2383
4KBT
Split Entry
The asymmetric unit for this structure is composed of multiple PDB entries:
4KBT   4KBU   4KBV   4KBW  
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The complete entry has been assigned PDB ID 4V9J 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/4v9j.cif.gz
ftp://ftp.wwpdb.org/pub/pdb/data/large_structures/XML/4v9j.xml.gz
 
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Ribosome/antibiotic
    Structure Weight: 869408.99
    Molecule: 30S ribosomal protein S2
    Polymer: 1 Type: protein Length: 235
    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: 2 Type: protein Length: 207
    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: 3 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: 4 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: 5 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: 6 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: 7 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: 8 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: 9 Type: protein Length: 99
    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: 10 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: 11 Type: protein Length: 125
    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: 12 Type: protein Length: 125
    Chains: M
    Organism Thermus thermophilus HB27
    Gene Names rpsM rps13 TT_C1303
    UniProtKB:   Protein Feature View | Search PDB | P62655  
    Molecule: 30S ribosomal protein S14 type Z
    Polymer: 13 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: 14 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: 15 Type: protein Length: 84
    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: 16 Type: protein Length: 100
    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: 17 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: 18 Type: protein Length: 79
    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: 19 Type: protein Length: 99
    Chains: T
    Organism Thermus thermophilus HB27
    Gene Names rpsT rps20 TT_C1031
    UniProtKB:   Protein Feature View | Search PDB | P62661  
    Molecule: 16S ribosomal RNA
    Polymer: 20 Type: rna Length: 1511
    Chains: A
    Organism Thermus thermophilus HB27
    Molecule: messenger RNA
    Polymer: 21 Type: rna Length: 18
    Chains: V
    Organism Thermus thermophilus HB27
    Molecule: tRNA-Met
    Polymer: 22 Type: rna Length: 77
    Chains: W
    Organism Escherichia coli
    Molecule: Elongation factor G
    Polymer: 23 Type: protein Length: 687
    Chains: Y
    Organism Thermus thermophilus HB27
    Gene Names fusA TT_C1331
    UniProtKB:   Protein Feature View | Search PDB | Q72I01  
    Molecule: Viomycin
    Polymer: 24 Type: protein Length: 6
    Chains: U
    Organism Streptomyces
     
  •   Structure Validation Hide

    Download full validation report    

     
  •   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   Taxonomy    
    Polymer: 23
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 24
    Scientific Name: Streptomyces   Taxonomy    
     
  •   Biologically Interesting Molecules (BIRD) Hide
    Identifier Image Name Type Class Chain ID  
    PRD_000226 Search  PRD_000226 Viomycin Oligopeptide Antibiotic U
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    GNP
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    GNP C10 H17 N6 O13 P3
    PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
    MG
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    MG Mg
    MAGNESIUM ION
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    KBE
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    KBE C6 H14 N2 O2 LYS lPeptideLinking
    DPP
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    DPP C3 H8 N2 O2 ALA lPeptideLinking
    UAL
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    UAL C4 H7 N3 O3 glycine
    5OH
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    5OH C6 H12 N4 O3 ALA lPeptideLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: NA2383
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly       
Composite of PDB entries (4KBT and 4KBU)