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(-) Description

Title :  CRYSTAL STRUCTURE OF THE HOMO SAPIENS CYTOPLASMIC RIBOSOMAL DECODING SITE IN PRESENCE OF PAROMAMINE DERIVATIVE NB30
 
Authors :  J. Kondo, M. Hainrichson, I. Nudelman, D. Shallom-Shezifi, T. Baasov, E. Westhof
Date :  02 Dec 06  (Deposition) - 06 Nov 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Aminoglycoside, Antibiotics, Ribosome, Decoding Site, Homo Sapiens, Eukaryote, Cytoplasmic, Translation Inhibition, Stop Codon Readthrough, Rna (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Kondo, M. Hainrichson, I. Nudelman, D. Shallom-Shezifi, C. M. Barbieri, D. S. Pilch, E. Westhof, T. Baasov
Differential Selectivity Of Natural And Synthetic Aminoglycosides Towards The Eukaryotic And Prokaryotic Decoding A Sites.
Chembiochem V. 8 1700 2007
PubMed-ID: 17705310  |  Reference-DOI: 10.1002/CBIC.200700271
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RNA (5'- R(*UP*UP*GP*CP*GP*UP*CP*GP*CP*UP*CP*CP*GP*GP*AP*AP*AP*AP*GP *UP*CP*GP*C)-3')
    ChainsA, B
    EngineeredYES
    Other DetailsCHEMICALLY SYNTHESIZED
    SyntheticYES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1SPM1Ligand/IonSPERMINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREG A:13 , G A:14 , C B:32BINDING SITE FOR RESIDUE SPM A 51

(-) SS Bonds  (0, 0)

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(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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Chain A from PDB  Type:RNA  Length:22
                                                     
                  2o3y A  2 UGCGUCGCUCCGGAAAAGUCGC 23
                                    11        21  

Chain B from PDB  Type:RNA  Length:21
                                                    
                  2o3y B 26 GCGUCGCUCCGGAAAAGUCGC 46
                                    35        45 

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 Classification and Annotation

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 Related Entries

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(-) Related Entries Specified in the PDB File

2fqn HOMO SAPIENS CYTOPLASMIC A SITE WITHOUT ANY AMINOGLYCOSIDES (CYTO-FREE)
2g5k HOMO SAPIENS CYTOPLASMIC A SITE COMPLEXED WITH APRAMYCIN (CYTO/APRAMYCIN)
2o3v CRYSTAL STRUCTURE OF THE HOMO SAPIENS CYTOPLASMIC RIBOSOMAL DECODING SITE COMPLEXED WITH PAROMAMINE DERIVATIVE NB33
2o3w CRYSTAL STRUCTURE OF THE HOMO SAPIENS CYTOPLASMIC RIBOSOMAL DECODING SITE IN PRESENCE OF PAROMOMYCIN
2o3x CRYSTAL STRUCTURE OF THE PROKARYOTIC RIBOSOMAL DECODING SITE COMPLEXED WITH PAROMAMINE DERIVATIVE NB30