STRUCTURE OF THE THERMUS THERMOPHILUS 30S RIBOSOMAL SUBUNIT IN COMPLEX WITH A MESSENGER RNA FRAGMENT AND COGNATE TRANSFER RNA ANTICODON STEM-LOOP BOUND AT THE A SITE
DOI:10.2210/pdb1ibm/pdb   NDB ID: RR0030
1IBM
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Ribosome
    Structure Weight: 794387.27
    Molecule: 16S RIBOSOMAL RNA
    Polymer: 1 Type: rna Length: 1522
    Chains: A
    Organism: Thermus thermophilus
    Molecule: P-SITE MESSENGER RNA FRAGMENT
    Polymer: 2 Type: rna Length: 6
    Chains: X
    Molecule: ANTICODON STEM-LOOP OF PHENYLALANINE TRANSFER RNA
    Polymer: 3 Type: rna Length: 15
    Chains: Y
    Molecule: A-SITE MESSENGER RNA FRAGMENT
    Polymer: 4 Type: rna Length: 4
    Chains: Z
    Molecule: 30S RIBOSOMAL PROTEIN S2
    Polymer: 5 Type: protein Length: 256
    Chains: B
    Organism: Thermus thermophilus
    Gene Names: rpsB rps2 TTHA0861
    UniProtKB: Search PDB | P80371   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S3
    Polymer: 6 Type: protein Length: 239
    Chains: C
    Organism: Thermus thermophilus
    Gene Names: rpsC rps3 TTHA1686
    UniProtKB: Search PDB | P80372   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S4
    Polymer: 7 Type: protein Length: 209
    Chains: D
    Organism: Thermus thermophilus
    Gene Names: rpsD rps4 TTHA1665
    UniProtKB: Search PDB | P80373   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S5
    Polymer: 8 Type: protein Length: 162
    Chains: E
    Organism: Thermus thermophilus
    Gene Names: rpsE TTHA1675
    UniProtKB: Search PDB | Q5SHQ5   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S6
    Polymer: 9 Type: protein Length: 101
    Chains: F
    Organism: Thermus thermophilus
    Gene Names: rpsF TTHA0245
    UniProtKB: Search PDB | Q5SLP8   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S7
    Polymer: 10 Type: protein Length: 156
    Chains: G
    Organism: Thermus thermophilus
    Gene Names: rpsG rps7 TTHA1696
    UniProtKB: Search PDB | P17291   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S8
    Polymer: 11 Type: protein Length: 138
    Chains: H
    Organism: Thermus thermophilus
    Gene Names: rpsH TTHA1678
    UniProtKB: Search PDB | Q5SHQ2   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S9
    Polymer: 12 Type: protein Length: 128
    Chains: I
    Organism: Thermus thermophilus
    Gene Names: rpsI rps9 TTHA1464
    UniProtKB: Search PDB | P80374   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S10
    Polymer: 13 Type: protein Length: 105
    Chains: J
    Organism: Thermus thermophilus
    Gene Names: rpsJ TTHA1693
    UniProtKB: Search PDB | Q5SHN7   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S11
    Polymer: 14 Type: protein Length: 129
    Chains: K
    Organism: Thermus thermophilus
    Gene Names: rpsK rps11 TTHA1666
    UniProtKB: Search PDB | P80376   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S12
    Polymer: 15 Type: protein Length: 135
    Chains: L
    Organism: Thermus thermophilus
    Gene Names: rpsL TTHA1697
    UniProtKB: Search PDB | Q5SHN3   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S13
    Polymer: 16 Type: protein Length: 126
    Chains: M
    Organism: Thermus thermophilus
    Gene Names: rpsM rps13 TTHA1667
    UniProtKB: Search PDB | P80377   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S14
    Polymer: 17 Type: protein Length: 61
    Chains: N
    Organism: Thermus thermophilus
    Gene Names: rpsZ rpsN TTHA1679
    UniProtKB: Search PDB | Q5SHQ1   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S15
    Polymer: 18 Type: protein Length: 89
    Chains: O
    Organism: Thermus thermophilus
    Gene Names: rpsO TTHA1138
    UniProtKB: Search PDB | Q5SJ76   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S16
    Polymer: 19 Type: protein Length: 88
    Chains: P
    Organism: Thermus thermophilus
    Gene Names: rpsP TTHA1035
    UniProtKB: Search PDB | Q5SJH3   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S17
    Polymer: 20 Type: protein Length: 105
    Chains: Q
    Organism: Thermus thermophilus
    Gene Names: rpsQ TTHA1683
    UniProtKB: Search PDB | Q5SHP7   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S18
    Polymer: 21 Type: protein Length: 88
    Chains: R
    Organism: Thermus thermophilus
    Gene Names: rpsR TTHA0243
    UniProtKB: Search PDB | Q5SLQ0   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S19
    Polymer: 22 Type: protein Length: 93
    Chains: S
    Organism: Thermus thermophilus
    Gene Names: rpsS TTHA1688
    UniProtKB: Search PDB | Q5SHP2   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN S20
    Polymer: 23 Type: protein Length: 106
    Chains: T
    Organism: Thermus thermophilus
    Gene Names: rpsT rps20 TTHA1397
    UniProtKB: Search PDB | P80380   Protein Feature View
    Molecule: 30S RIBOSOMAL PROTEIN THX
    Polymer: 24 Type: protein Length: 26
    Chains: V
    Organism: Thermus thermophilus
    Gene Names: rpsU TTHA1396
    UniProtKB: Search PDB | Q5SIH3   Protein Feature View
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 2
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 3
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 4
    Scientific Name: Synthetic construct   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
    1FJF   NATIVE STRUCTURE OF THE 30S PARTICLE 
    1FJG   STRUCTURE OF THE 30S PARTICLE IN COMPLEX WITH THE ANTIBIOTICS STREPTOMYCIN, SPECTINOMYCIN AND PAROMOMYCIN 
    1IBK   STRUCTURE OF THE 30S PARTICLE IN COMPLEX WITH THE ANTIBIOTIC PAROMOMYCIN 
    1IBL   STRUCTURE OF THE 30S PARTICLE IN COMPLEX WITH MESSENGER RNA FRAGMENT AND COGNATE TRANSFER RNA ANTICODON STEM-LOOP BOUND TO THE A SITE ABND WITH THE ANTIBIOTIC PAROMOMYCIN 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    MG
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    MG Mg
    MAGNESIUM ION
    ZN
    Search 
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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:RR0030
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly       
Biological assembly 1 assigned by authors
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