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Crystal structure of the bacterial ribosome from Escherichia coli in complex with spectinomycin and neomycin. This file contains the 50S subunit of the first 70S ribosome, with neomycin bound. The entire crystal structure contains two 70S ribosomes.
 
 
DOI:10.2210/pdb2qoz/pdb   NDB ID: RR0194
2QOZ
 
Split Entry
The asymmetric unit for this structure is composed of multiple PDB entries:
2QOY   2QOZ   2QP0   2QP1  
Download All Files   
 
 
 
Primary Citation
spinning wheel
 
 
  •  
    Move Section Molecular Description Hide
    Classification: Ribosome
    Structure Weight: 1359341.61
     
    Molecule:5S rRNA
    Polymer:1Type:polyribonucleotideLength:120
    Chains:A
    Molecule:23S rRNA
    Polymer:2Type:polyribonucleotideLength:2904
    Chains:B
    Molecule:50S ribosomal protein L11
    Polymer:3Type:polypeptide(L)Length:141
    Chains:I
    Molecule:50S ribosomal protein L2
    Polymer:4Type:polypeptide(L)Length:272
    Chains:C
    Molecule:50S ribosomal protein L3
    Polymer:5Type:polypeptide(L)Length:209
    Chains:D
    Molecule:50S ribosomal protein L14
    Polymer:6Type:polypeptide(L)Length:123
    Chains:K
    Molecule:50S ribosomal protein L19
    Polymer:7Type:polypeptide(L)Length:114
    Chains:P
    Molecule:50S ribosomal protein L4
    Polymer:8Type:polypeptide(L)Length:201
    Chains:E
    Molecule:50S ribosomal protein L30
    Polymer:9Type:polypeptide(L)Length:58
    Chains:Y
    Molecule:50S ribosomal protein L32
    Polymer:10Type:polypeptide(L)Length:56
    Chains:0
    Molecule:50S ribosomal protein L36
    Polymer:11Type:polypeptide(L)Length:38
    Chains:4
    Molecule:50S ribosomal protein L33
    Polymer:12Type:polypeptide(L)Length:54
    Chains:1
    Molecule:50S ribosomal protein L35
    Polymer:13Type:polypeptide(L)Length:64
    Chains:3
    Molecule:50S ribosomal protein L25
    Polymer:14Type:polypeptide(L)Length:94
    Chains:V
    Molecule:50S ribosomal protein L34
    Polymer:15Type:polypeptide(L)Length:46
    Chains:2
    Molecule:50S ribosomal protein L15
    Polymer:16Type:polypeptide(L)Length:144
    Chains:L
    Molecule:50S ribosomal protein L16
    Polymer:17Type:polypeptide(L)Length:136
    Chains:M
    Molecule:50S ribosomal protein L29
    Polymer:18Type:polypeptide(L)Length:63
    Chains:X
    Molecule:50S ribosomal protein L9
    Polymer:19Type:polypeptide(L)Length:149
    Chains:H
    Molecule:50S ribosomal protein L13
    Polymer:20Type:polypeptide(L)Length:142
    Chains:J
    Molecule:50S ribosomal protein L17
    Polymer:21Type:polypeptide(L)Length:127
    Chains:N
    Molecule:50S ribosomal protein L18
    Polymer:22Type:polypeptide(L)Length:117
    Chains:O
    Molecule:50S ribosomal protein L20
    Polymer:23Type:polypeptide(L)Length:117
    Chains:Q
    Molecule:50S ribosomal protein L22
    Polymer:24Type:polypeptide(L)Length:110
    Chains:S
    Molecule:50S ribosomal protein L24
    Polymer:25Type:polypeptide(L)Length:103
    Chains:U
    Molecule:50S ribosomal protein L5
    Polymer:26Type:polypeptide(L)Length:178
    Chains:F
    Molecule:50S ribosomal protein L6
    Polymer:27Type:polypeptide(L)Length:176
    Chains:G
    Molecule:50S ribosomal protein L21
    Polymer:28Type:polypeptide(L)Length:103
    Chains:R
    Molecule:50S ribosomal protein L23
    Polymer:29Type:polypeptide(L)Length:100
    Chains:T
    Molecule:50S ribosomal protein L28
    Polymer:30Type:polypeptide(L)Length:78
    Chains:Z
    Molecule:50S ribosomal protein L27
    Polymer:31Type:polypeptide(L)Length:84
    Chains:W
     
     
  •  
    Move Section Source Hide
    Polymer: 1
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 2
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 3
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 4
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 5
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 6
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 7
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 8
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 9
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 10
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 11
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 12
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 13
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 14
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 15
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 16
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 17
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 18
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 19
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 20
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 21
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 22
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 23
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 24
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 25
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 26
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 27
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 28
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 29
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 30
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
    Polymer: 31
    Scientific Name: Escherichia coli Go to NCBI Taxonomy entry  
     
     
  •  
    Move Section Related PDB Entries Hide
    Id Details
    2QOY   
    2QP1   
    2QPZ   
     
     
  •  
    Move Section Ligand Chemical Component Hide
    Identifier Name Formula Interaction View Links
    MG     MAGNESIUM ION Mg 3DLigand Explorer Link out to Ligand Expos:MG Link out to SuperLigands:MG Link out to SuperHapten:MG
    NMY     NEOMYCIN C23 H46 N6 O13 3DLigand Explorer Link out to Ligand Expos:NMY Link out to SuperLigands:NMY Link out to SuperHapten:NMY
    ZN     ZINC ION Zn 3DLigand Explorer Link out to Ligand Expos:ZN Link out to SuperLigands:ZN Link out to SuperHapten:ZN
     
     
  •  
    Move Section Derived Data Hide
     
     
Reset Layout
 
< Biological Assembly 1    Help >
View in Jmol
Composite of PDB entries (2QOY and 2QOZ)
 
 
 
  •  
    Move Section Deposition Summary Hide
    Authors:   Borovinskaya, M.A.,   Shoji, S.,   Holton, J.M.,   Fredrick, K.,   Cate, J.H.D.

    Deposition:   2007-07-21
    Release:   2007-08-14
    Last Modified (REVDAT):   2009-11-03
     
     
  •  
    Move Section Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Experimental Data:   Download Structure Factors
    View a histogram of Resolution Resolution[Å]: 3.50
    R-Value: 0.264 (work)
    R-Free: 0.306
    Space Group: P 21 21 21
    Unit Cell:
      Length [Å] Angles [°]
    a = 208.85 α = 90.00 
    b = 379.20 β = 90.00 
    c = 739.28 γ = 90.00