Co-crystal Structure of Anisomycin Bound to the 50S Ribosomal Subunit
DOI:10.2210/pdb1k73/pdb   NDB ID: RR0042
1K73
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Ribosome
    Structure Weight: 1458426.55
    Molecule: 23S RRNA
    Polymer: 1 Type: rna Length: 2922
    Chains: A
    Organism: Haloarcula marismortui
    Molecule: 5S RRNA
    Polymer: 2 Type: rna Length: 122
    Chains: B
    Organism: Haloarcula marismortui
    Molecule: RIBOSOMAL PROTEIN L2
    Polymer: 3 Type: protein Length: 239
    Chains: C
    Organism: Haloarcula marismortui
    Gene Names: rpl2 rrnAC1608
    UniProtKB: Search PDB | P20276   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L3
    Polymer: 4 Type: protein Length: 337
    Chains: D
    Organism: Haloarcula marismortui
    Gene Names: rpl3 rrnAC1611
    UniProtKB: Search PDB | P20279   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L4
    Polymer: 5 Type: protein Length: 246
    Chains: E
    Organism: Haloarcula marismortui
    Gene Names: rpl4 rrnAC1610
    UniProtKB: Search PDB | P12735   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L5
    Polymer: 6 Type: protein Length: 176
    Chains: F
    Organism: Haloarcula marismortui
    Gene Names: rpl5 rrnAC1598
    UniProtKB: Search PDB | P14124   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L6
    Polymer: 7 Type: protein Length: 177
    Chains: G
    Organism: Haloarcula marismortui
    Gene Names: rpl6 rrnAC1596
    UniProtKB: Search PDB | P14135   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L7AE
    Polymer: 8 Type: protein Length: 119
    Chains: H
    Organism: Haloarcula marismortui
    Gene Names: rpl7ae rrnAC0103
    UniProtKB: Search PDB | P12743   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L10
    Polymer: 9 Type: protein Length: 348
    Chains: I
    Organism: Haloarcula marismortui
    Gene Names: rpl10 rpl10e rplP0 rrnAC1417
    UniProtKB: Search PDB | P15825   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L10E
    Polymer: 10 Type: protein Length: 167
    Chains: J
    Organism: Haloarcula marismortui
    Gene Names: rpl10e rrnAC2357
    UniProtKB: Search PDB | P60617   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L13
    Polymer: 11 Type: protein Length: 145
    Chains: K
    Organism: Haloarcula marismortui
    Gene Names: rpl13 rrnAC0065
    UniProtKB: Search PDB | P29198   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L14
    Polymer: 12 Type: protein Length: 132
    Chains: L
    Organism: Haloarcula marismortui
    Gene Names: rpl14 rrnAC1602
    UniProtKB: Search PDB | P22450   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L15
    Polymer: 13 Type: protein Length: 164
    Chains: M
    Organism: Haloarcula marismortui
    Gene Names: rpl15 rrnAC1590
    UniProtKB: Search PDB | P12737   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L15E
    Polymer: 14 Type: protein Length: 194
    Chains: N
    Organism: Haloarcula marismortui
    Gene Names: rpl15e rrnAC2065
    UniProtKB: Search PDB | P60618   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L18
    Polymer: 15 Type: protein Length: 186
    Chains: O
    Organism: Haloarcula marismortui
    Gene Names: rpl18 rrnAC1593
    UniProtKB: Search PDB | P14123   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L18E
    Polymer: 16 Type: protein Length: 115
    Chains: P
    Organism: Haloarcula marismortui
    Gene Names: rpl18e rrnAC0064
    UniProtKB: Search PDB | P12733   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L19E
    Polymer: 17 Type: protein Length: 148
    Chains: Q
    Organism: Haloarcula marismortui
    Gene Names: rpl19e rrnAC1594
    UniProtKB: Search PDB | P14119   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L21E
    Polymer: 18 Type: protein Length: 95
    Chains: R
    Organism: Haloarcula marismortui
    Gene Names: rpl21e rrnAC0260
    UniProtKB: Search PDB | P12734   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L22
    Polymer: 19 Type: protein Length: 154
    Chains: S
    Organism: Haloarcula marismortui
    Gene Names: rpl22 rrnAC1606
    UniProtKB: Search PDB | P10970   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L23
    Polymer: 20 Type: protein Length: 84
    Chains: T
    Organism: Haloarcula marismortui
    Gene Names: rpl23p rrnAC1609
    UniProtKB: Search PDB | P12732   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L24
    Polymer: 21 Type: protein Length: 119
    Chains: U
    Organism: Haloarcula marismortui
    Gene Names: rpl24p rrnAC1601
    UniProtKB: Search PDB | P10972   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L24E
    Polymer: 22 Type: protein Length: 66
    Chains: V
    Organism: Haloarcula marismortui
    Gene Names: rpl24e rrnAC0104
    UniProtKB: Search PDB | P14116   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L29
    Polymer: 23 Type: protein Length: 70
    Chains: W
    Organism: Haloarcula marismortui
    Gene Names: rpl29p rrnAC1604
    UniProtKB: Search PDB | P10971   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L30
    Polymer: 24 Type: protein Length: 154
    Chains: X
    Organism: Haloarcula marismortui
    Gene Names: rpl30p rrnAC1591
    UniProtKB: Search PDB | P14121   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L31E
    Polymer: 25 Type: protein Length: 91
    Chains: Y
    Organism: Haloarcula marismortui
    Gene Names: rpl31e rrnAC3113
    UniProtKB: Search PDB | P18138   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L32E
    Polymer: 26 Type: protein Length: 240
    Chains: Z
    Organism: Haloarcula marismortui
    Gene Names: rpl32e rrnAC1595
    UniProtKB: Search PDB | P12736   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L37Ae
    Polymer: 27 Type: protein Length: 73
    Chains: 1
    Organism: Haloarcula marismortui
    Gene Names: rpl37ae rrnAC1669
    UniProtKB: Search PDB | P60619   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L37E
    Polymer: 28 Type: protein Length: 56
    Chains: 2
    Organism: Haloarcula marismortui
    Gene Names: rpl37e rrnAC0797.1
    UniProtKB: Search PDB | P32410   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L39E
    Polymer: 29 Type: protein Length: 48
    Chains: 3
    Organism: Haloarcula marismortui
    Gene Names: rpl39e rrnAC3112
    UniProtKB: Search PDB | P22452   Protein Feature View
    Molecule: RIBOSOMAL PROTEIN L44E
    Polymer: 30 Type: protein Length: 92
    Chains: 4
    Organism: Haloarcula marismortui
    Gene Names: rpl44e rrnAC3514
    UniProtKB: Search PDB | P32411   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: Haloarcula marismortui   Taxonomy    
    Polymer: 2
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 3
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 4
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 5
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 6
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 7
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 8
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 9
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 10
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 11
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 12
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 13
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 14
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 15
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 16
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 17
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 18
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 19
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 20
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 21
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 22
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 23
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 24
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 25
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 26
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 27
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 28
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 29
    Scientific Name: Haloarcula marismortui   Taxonomy    
    Polymer: 30
    Scientific Name: Haloarcula marismortui   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    1DFU   Crystal Structure Of E. Coli Ribosomal Protein L25 Complexed With A 5S Rrna Fragment 
    1FFK   Native Structure of 50S subunit 
    1FFZ   Co-crystal structure of 50S subunit with CCdAP-Puromycin 
    1FG0   Large Ribosomal Subunit Complexed With A 13 Bp Minihelix- Puromycin Compound 
    1JJ2   Refined Native Structure of 50S Subunit 
    1K8A   CO-CRYSTAL STRUCTURE OF CARBOMYCIN A BOUND TO THE 50S RIBOSOMAL SUBUNIT 
    1K9M   CO-CRYSTAL STRUCTURE OF TYLOSIN BOUND TO THE 50S RIBOSOMAL SUBUNIT 
    1KC8   CO-CRYSTAL STRUCTURE OF BLASTICIDIN S BOUND TO THE 50S RIBOSOMAL SUBUNIT 
    1KD1   CO-CRYSTAL STRUCTURE OF SPIRAMYCIN BOUND TO THE 50S RIBOSOMAL SUBUNIT 
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure:RR0042
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly       
Biological assembly 1 assigned by authors
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  •   MyPDB Personal Annotations Hide
     
  •   Deposition Summary Hide
    Authors:   Hansen, J.,  Ban, N.,  Nissen, P.,  Moore, P.B.,  Steitz, T.A.

    Deposition:   2001-10-18
    Release:   2003-07-22
    Last Modified (REVDAT):   2009-02-24
     
  •   Revision History    Hide
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    2011-07-13
    Version format compliance
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   3.01
    R-Value: 0.212 (obs.)
    R-Free: 0.246
    Space Group: C 2 2 21
    Unit Cell:
      Length [Å] Angles [°]
    a = 213.24 α = 90.00 
    b = 300.75 β = 90.00 
    c = 574.81 γ = 90.00