Crystal structure of the E. coli ribosome bound to clindamycin. This file contains the 30S subunit of the first 70S ribosome.
DOI:10.2210/pdb3ofx/pdb   NDB ID: NA0690
3OFX
Split Entry
The asymmetric unit for this structure is composed of multiple PDB entries:
3OFX    3OFY    3OFZ    3OG0   
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The complete entry has been assigned PDB ID 4V7V 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/4v7v.cif.gz
ftp://ftp.wwpdb.org/pub/pdb/data/large_structures/XML/4v7v.xml.gz
 
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Ribosome/antibiotic
    Structure Weight: 762713.47
    Molecule: 16S rRNA
    Polymer: 1 Type: rna Length: 1533
    Chains: A
    Organism: Escherichia coli
    Molecule: 30S ribosomal protein S2
    Polymer: 2 Type: protein Length: 218
    Chains: B
    Organism: Escherichia coli K-12
    Gene Names: rpsB b0169 JW0164
    UniProtKB: Protein Feature View | Search PDB | P0A7V0  
    Molecule: 30S ribosomal protein S3
    Polymer: 3 Type: protein Length: 206
    Chains: C
    Organism: Escherichia coli K-12
    Gene Names: rpsC b3314 JW3276
    UniProtKB: Protein Feature View | Search PDB | P0A7V3  
    Molecule: 30S ribosomal protein S4
    Polymer: 4 Type: protein Length: 205
    Chains: D
    Organism: Escherichia coli K-12
    Gene Names: rpsD ramA b3296 JW3258
    UniProtKB: Protein Feature View | Search PDB | P0A7V8  
    Molecule: 30S ribosomal protein S5
    Polymer: 5 Type: protein Length: 150
    Chains: E
    Organism: Escherichia coli K-12
    Gene Names: rpsE spc b3303 JW3265
    UniProtKB: Protein Feature View | Search PDB | P0A7W1  
    Molecule: 30S ribosomal protein S6
    Polymer: 6 Type: protein Length: 100
    Chains: F
    Organism: Escherichia coli K-12
    Gene Names: rpsF b4200 JW4158
    UniProtKB: Protein Feature View | Search PDB | P02358  
    Molecule: 30S ribosomal protein S7
    Polymer: 7 Type: protein Length: 151
    Chains: G
    Organism: Escherichia coli K-12
    Gene Names: rpsG b3341 JW3303
    UniProtKB: Protein Feature View | Search PDB | P02359  
    Molecule: 30S ribosomal protein S8
    Polymer: 8 Type: protein Length: 129
    Chains: H
    Organism: Escherichia coli K-12
    Gene Names: rpsH b3306 JW3268
    UniProtKB: Protein Feature View | Search PDB | P0A7W7  
    Molecule: 30S ribosomal protein S9
    Polymer: 9 Type: protein Length: 127
    Chains: I
    Organism: Escherichia coli K-12
    Gene Names: rpsI b3230 JW3199
    UniProtKB: Protein Feature View | Search PDB | P0A7X3  
    Molecule: 30S ribosomal protein S10
    Polymer: 10 Type: protein Length: 98
    Chains: J
    Organism: Escherichia coli K-12
    Gene Names: rpsJ nusE b3321 JW3283
    UniProtKB: Protein Feature View | Search PDB | P0A7R5  
    Molecule: 30S ribosomal protein S11
    Polymer: 11 Type: protein Length: 117
    Chains: K
    Organism: Escherichia coli K-12
    Gene Names: rpsK b3297 JW3259
    UniProtKB: Protein Feature View | Search PDB | P0A7R9  
    Molecule: 30S ribosomal protein S12
    Polymer: 12 Type: protein Length: 123
    Chains: L
    Organism: Escherichia coli K-12
    Gene Names: rpsL strA b3342 JW3304
    UniProtKB: Protein Feature View | Search PDB | P0A7S3  
    Molecule: 30S ribosomal protein S13
    Polymer: 13 Type: protein Length: 114
    Chains: M
    Organism: Escherichia coli K-12
    Gene Names: rpsM b3298 JW3260
    UniProtKB: Protein Feature View | Search PDB | P0A7S9  
    Molecule: 30S ribosomal protein S14
    Polymer: 14 Type: protein Length: 100
    Chains: N
    Organism: Escherichia coli K-12
    Gene Names: rpsN b3307 JW3269
    UniProtKB: Protein Feature View | Search PDB | P0AG59  
    Molecule: 30S ribosomal protein S15
    Polymer: 15 Type: protein Length: 88
    Chains: O
    Organism: Escherichia coli K-12
    Gene Names: rpsO secC b3165 JW3134
    UniProtKB: Protein Feature View | Search PDB | P0ADZ4  
    Molecule: 30S ribosomal protein S16
    Polymer: 16 Type: protein Length: 82
    Chains: P
    Organism: Escherichia coli K-12
    Gene Names: rpsP b2609 JW2590
    UniProtKB: Protein Feature View | Search PDB | P0A7T3  
    Molecule: 30S ribosomal protein S17
    Polymer: 17 Type: protein Length: 80
    Chains: Q
    Organism: Escherichia coli K-12
    Gene Names: rpsQ neaA b3311 JW3273
    UniProtKB: Protein Feature View | Search PDB | P0AG63  
    Molecule: 30S ribosomal protein S18
    Polymer: 18 Type: protein Length: 55
    Chains: R
    Organism: Escherichia coli K-12
    Gene Names: rpsR b4202 JW4160
    UniProtKB: Protein Feature View | Search PDB | P0A7T7  
    Molecule: 30S ribosomal protein S19
    Polymer: 19 Type: protein Length: 79
    Chains: S
    Organism: Escherichia coli K-12
    Gene Names: rpsS b3316 JW3278
    UniProtKB: Protein Feature View | Search PDB | P0A7U3  
    Molecule: 30S ribosomal protein S20
    Polymer: 20 Type: protein Length: 85
    Chains: T
    Organism: Escherichia coli K-12
    Gene Names: rpsT b0023 JW0022
    UniProtKB: Protein Feature View | Search PDB | P0A7U7  
    Molecule: 30S ribosomal protein S21
    Polymer: 21 Type: protein Length: 51
    Chains: U
    Organism: Escherichia coli K-12
    Gene Names: rpsU b3065 JW3037
    UniProtKB: Protein Feature View | Search PDB | P68679  
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 2
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 3
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 4
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 5
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 6
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 7
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 8
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 9
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 10
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 11
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 12
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 13
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 14
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 15
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 16
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 17
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 18
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 19
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 20
    Scientific Name: Escherichia coli   Taxonomy    
    Polymer: 21
    Scientific Name: Escherichia coli   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    3OAQ    
    3OAR    
    3OAS    
    3OAT    
    3OFA    
    3OFB    
    3OFC    
    3OFD    
    3OFO    
    3OFP    
    3OFQ    
    3OFR    
    3OFY   30S subunit of 70S Ribosome 2 
    3OFZ   50S subunit of 70S Ribosome 1 
    3OG0   50S subunit of 70S Ribosome 2 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    MG
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    MG Mg
    MAGNESIUM ION
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure:NA0690
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly       
Composite of PDB entries (3OFX and 3OFZ)