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(-) Description

Title :  3.0 A STRUCTURE OF FRAGMENT I FROM E. COLI 5S RRNA
 
Authors :  C. C. Correll, B. Freeborn, P. B. Moore, T. A. Steitz
Date :  08 Dec 97  (Deposition) - 02 Jan 98  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  U-Rna, Double Helix, Kinked, Internal Loop, Overhanging Base, Modified, Mismatched (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. C. Correll, B. Freeborn, P. B. Moore, T. A. Steitz
Metals, Motifs, And Recognition In The Crystal Structure Of A 5S Rrna Domain.
Cell(Cambridge, Mass. ) V. 91 705 1997
PubMed-ID: 9393863  |  Reference-DOI: 10.1016/S0092-8674(00)80457-2
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RNA (5'-R(*UP*GP*)-D(*(1SC)P*)- R(*CP*UP*GP*GP*CP*GP*GP*C)-3')
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Organelle: CYTOSOL
    Expression System Taxid: 562
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
 
Molecule 2 - RNA (5'- R(*CP*CP*GP*AP*UP*GP*GP*UP*AP*GP*UP*GP*UP*GP*GP*GP*G *UP*C)-3')
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Organelle: CYTOSOL
    Expression System Plasmid: PKK5-1 RRNB 5S CISTRON
    Expression System Strain: HB101
    Expression System Taxid: 562
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
 
Molecule 3 - RNA (5'- R(*CP*CP*CP*CP*AP*UP*GP*CP*GP*AP*GP*AP*GP*UP*AP*GP*G P*GP*AP*AP*CP*UP*GP*CP*CP*AP*GP*GP*CP*AP*U)-3')
    Chains: C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Organelle: CYTOSOL
    Expression System Plasmid: PKK5-1 RRNB 5S CISTRON
    Expression System Strain: HB101
    Expression System Taxid: 562
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 13)

Asymmetric/Biological Unit (2, 13)
No.NameCountTypeFull Name
11SC1Mod. Nucleotide5'-O-THIOPHOSPHONOCYTIDINE
2MG12Ligand/IonMAGNESIUM ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREG B:75 , A C:99BINDING SITE FOR RESIDUE MG B 201
2AC2SOFTWAREU B:74BINDING SITE FOR RESIDUE MG C 202
3AC3SOFTWAREG C:100BINDING SITE FOR RESIDUE MG C 204
4AC4SOFTWAREG C:98BINDING SITE FOR RESIDUE MG C 205
5BC1SOFTWAREU C:95BINDING SITE FOR RESIDUE MG C 213

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 364D)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 364D)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 364D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 364D)

(-) Exons   (0, 0)

(no "Exon" information available for 364D)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  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:11
                                           
                 364d A   1 UGCcUGGCGGC  11
                               |    10 
                               |       
                               4-1SC   


Chain B from PDB  Type:RNA  Length:19
                                                   
                 364d B  70 CCGAUGGUAGUGUGGGGUC  88
                                    79         


Chain C from PDB  Type:DNA/RNA  Length:31
                                                               
                 364d C  90 CCCCAUGCGAGAGUAGGGAACUGCCAGGCAU 120
                                    99       109       119
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  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 364D)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 364D)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 364D)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 364D)

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  364d
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 Related Entries

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

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