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(-) Description

Title :  COMPLEX BETWEEN GENTAMICIN C1A AND THE 16S-RRNA A-SITE
 
Authors :  E. Westhof
Date :  27 Oct 05  (Deposition) - 13 Dec 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Rna-Aminoglycoside Interactions, A Site, Uou Pairs, Aa Bulges (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Francois, R. J. Russell, J. B. Murray, F. Aboul-Ela, B. Masquida, Q. Vicens, E. Westhof
Crystal Structures Of Complexes Between Aminoglycosides And Decoding A Site Oligonucleotides: Role Of The Number Of Rings And Positive Charges In The Specific Binding Leading To Miscoding.
Nucleic Acids Res. V. 33 5677 2005
PubMed-ID: 16214802  |  Reference-DOI: 10.1093/NAR/GKI862
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 5'- R(*CP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP *CP*GP*C)-3'
    Chains: A, B
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1LLL2Ligand/Ion(2R,3R,4R,5R)-2-((1S,2S,3R,4S,6R)-4,6-DIAMINO-3-((2R,3R,6S)-3-AMINO-6-(AMINOMETHYL)-TETRAHYDRO-2H-PYRAN-2-YLOXY)-2-HYDROXYCYCLOHEXYLOXY)-5-METHYL-4-(METHYLAMINO)-TETRAHYDRO-2H-PYRAN-3,5-DIOL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREG A:15 , A A:17 , G A:18 , U A:19 , C B:26 , G B:27 , U B:28 , C B:29 , A B:30 , C B:31BINDING SITE FOR RESIDUE LLL A 50
2AC2SOFTWAREC A:3 , G A:4 , U A:5 , C A:6 , A A:7 , C A:8 , G B:38 , A B:39 , A B:40 , G B:41 , U B:42BINDING SITE FOR RESIDUE LLL B 51

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2ET3)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2ET3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2ET3)

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 2ET3)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:RNA  Length:21
                                                    
                  2et3 A  2 GCGUCACACCGGUGAAGUCGC 22
                                    11        21 


Chain B from PDB  Type:RNA  Length:21
                                                    
                  2et3 B 25 GCGUCACACCGGUGAAGUCGC 45
                                    34        44
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 2ET3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2ET3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2ET3)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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(-) Related Entries Specified in the PDB File

1j7t COMPLEX BETWEEN PAROMOMYCIN AND THE 16S-RRNA A-SITE AT 2.5A RESOLUTION
1mwl CRYSTAL STRUCTURE OF GENETICIN BOUND TO THE EUBACTERIAL 16S RRNA A SITE