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Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome. This file, 2QNH, contains the 30S ribosome subunit, two TRNA, and MRNA molecules. 50S ribosome subunit is in the file 1VSP.
DOI:10.2210/pdb2qnh/pdb   NDB ID: RR0197
2QNH
Split Entry
The asymmetric unit for this structure is composed of multiple PDB entries:
1VSP   2QNH  
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The complete entry has been assigned PDB ID 4V4J 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/4v4j.cif.gz
ftp://ftp.wwpdb.org/pub/pdb/data/large_structures/XML/4v4j.xml.gz
 
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Ribosome
    Structure Weight: 838769.20
    Molecule: 16S RNA
    Polymer: 1 Type: rna Length: 1522
    Chains: y
    Organism: Thermus thermophilus HB27
    Molecule: P-site tRNAfMET
    Polymer: 2 Type: rna Length: 77
    Chains: z
    Organism: Thermus thermophilus HB27
    Molecule: E-site tRNA
    Polymer: 3 Type: rna Length: 76
    Chains: 2
    Organism: Thermus thermophilus HB27
    Molecule: MRNA
    Polymer: 4 Type: rna Length: 18
    Chains: 3
    Organism: Thermus thermophilus HB27
    Molecule: 30S ribosomal protein S2
    Polymer: 5 Type: protein Length: 256
    Chains: c
    Organism: Thermus thermophilus HB27
    Gene Names: rpsB rps2 TT_C0509
    UniProtKB: Protein Feature View | Search PDB | P62662  
    Molecule: 30S ribosomal protein S3
    Polymer: 6 Type: protein Length: 239
    Chains: d
    Organism: Thermus thermophilus HB27
    Gene Names: rpsC rps3 TT_C1322
    UniProtKB: Protein Feature View | Search PDB | P62663  
    Molecule: 30S ribosomal protein S4
    Polymer: 7 Type: protein Length: 209
    Chains: e
    Organism: Thermus thermophilus HB27
    Gene Names: rpsD rps4 TT_C1301
    UniProtKB: Protein Feature View | Search PDB | P62664  
    Molecule: 30S ribosomal protein S5
    Polymer: 8 Type: protein Length: 162
    Chains: f
    Organism: Thermus thermophilus HB27
    Gene Names: rpsE rps5 TT_C1311
    UniProtKB: Protein Feature View | Search PDB | P62665  
    Molecule: 30S ribosomal protein S6
    Polymer: 9 Type: protein Length: 101
    Chains: g
    Organism: Thermus thermophilus HB27
    Gene Names: rpsF rps6 TT_C1740
    UniProtKB: Protein Feature View | Search PDB | P62666  
    Molecule: 30S ribosomal protein S7
    Polymer: 10 Type: protein Length: 156
    Chains: h
    Organism: Thermus thermophilus HB27
    Gene Names: rpsG rps7 TT_C1332
    UniProtKB: Protein Feature View | Search PDB | P62667  
    Molecule: 30S ribosomal protein S8
    Polymer: 11 Type: protein Length: 138
    Chains: i
    Organism: Thermus thermophilus HB27
    Gene Names: rpsH rps8 TT_C1314
    UniProtKB: Protein Feature View | Search PDB | P62668  
    Molecule: 30S ribosomal protein S9
    Polymer: 12 Type: protein Length: 128
    Chains: j
    Organism: Thermus thermophilus HB27
    Gene Names: rpsI rps9 TT_C1100
    UniProtKB: Protein Feature View | Search PDB | P62669  
    Molecule: 30S ribosomal protein S10
    Polymer: 13 Type: protein Length: 105
    Chains: k
    Organism: Thermus thermophilus HB27
    Gene Names: rpsJ rps10 TT_C1329
    UniProtKB: Protein Feature View | Search PDB | P62653  
    Molecule: 30S ribosomal protein S11
    Polymer: 14 Type: protein Length: 129
    Chains: l
    Organism: Thermus thermophilus HB27
    Gene Names: rpsK rps11 TT_C1302
    UniProtKB: Protein Feature View | Search PDB | P62654  
    Molecule: 30S ribosomal protein S12
    Polymer: 15 Type: protein Length: 132
    Chains: m
    Organism: Thermus thermophilus HB27
    Gene Names: rpsL rps12 TT_C1333
    UniProtKB: Protein Feature View | Search PDB | P61941  
    Molecule: 30S ribosomal protein S13
    Polymer: 16 Type: protein Length: 126
    Chains: n
    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: 17 Type: protein Length: 61
    Chains: o
    Organism: Thermus thermophilus HB27
    Gene Names: rpsZ rps14 rpsN TT_C1315
    UniProtKB: Protein Feature View | Search PDB | P62656  
    Molecule: 30S ribosomal protein S15
    Polymer: 18 Type: protein Length: 89
    Chains: p
    Organism: Thermus thermophilus HB27
    Gene Names: rpsO rps15 TT_C0773
    UniProtKB: Protein Feature View | Search PDB | P62657  
    Molecule: 30S ribosomal protein S16
    Polymer: 19 Type: protein Length: 88
    Chains: q
    Organism: Thermus thermophilus HB27
    Gene Names: rpsP rps16 TT_C0673
    UniProtKB: Protein Feature View | Search PDB | P62238  
    Molecule: 30S ribosomal protein S17
    Polymer: 20 Type: protein Length: 105
    Chains: r
    Organism: Thermus thermophilus HB27
    Gene Names: rpsQ rps17 TT_C1319
    UniProtKB: Protein Feature View | Search PDB | P62658  
    Molecule: 30S ribosomal protein S18
    Polymer: 21 Type: protein Length: 88
    Chains: s
    Organism: Thermus thermophilus HB27
    Gene Names: rpsR rps18 TT_C1742
    UniProtKB: Protein Feature View | Search PDB | P62659  
    Molecule: 30S ribosomal protein S19
    Polymer: 22 Type: protein Length: 93
    Chains: t
    Organism: Thermus thermophilus HB27
    Gene Names: rpsS rps19 TT_C1324
    UniProtKB: Protein Feature View | Search PDB | P62660  
    Molecule: 30S ribosomal protein S20
    Polymer: 23 Type: protein Length: 106
    Chains: u
    Organism: Thermus thermophilus HB27
    Gene Names: rpsT rps20 TT_C1031
    UniProtKB: Protein Feature View | Search PDB | P62661  
    Molecule: 30S ribosomal protein Thx
    Polymer: 24 Type: protein Length: 27
    Chains: v
    Organism: Thermus thermophilus HB27
    Gene Names: rpsU TT_C1030
    UniProtKB: Protein Feature View | Search PDB | P62613  
     
  •   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: Thermus thermophilus   Taxonomy    
    Polymer: 24
    Scientific Name: Thermus thermophilus   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    1VSP  same structure, 50S SUBUNIT 
     
  •   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
    M2G
    Search 
    M2G C12 H18 N5 O8 P G rnaLinking
    5MC
    Search 
    5MC C10 H16 N3 O8 P C rnaLinking
    2MG
    Search 
    2MG C11 H16 N5 O8 P G rnaLinking
    MA6
    Search 
    MA6 C12 H18 N5 O7 P A rnaLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: RR0197
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly       
Composite of PDB entries (1VSP and 2QNH)