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(-) Description

Title :  CRYSTAL STRUCTURE OF A BROMINATED RNA HELIX WITH FOUR MISMATCHED BASE PAIRS
 
Authors :  A. C. Anderson, R. H. O'Neil, D. J. Filman, C. A. Frederick
Date :  26 Apr 99  (Deposition) - 26 Nov 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Keywords :  Brominated Cytosine, Mismatched Base Pairs, Rna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. C. Anderson, R. H. O'Neil, D. J. Filman, C. A. Frederick
Crystal Structure Of A Brominated Rna Helix With Four Mismatched Base Pairs: An Investigation Into Rna Conformational Variability.
Biochemistry V. 38 12577 1999
PubMed-ID: 10504226  |  Reference-DOI: 10.1021/BI9904508
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 5'-R(*UP*GP*(CBV)P*(CBV) P*AP*GP*UP*UP*CP*GP*CP*UP*GP*GP*C)-3'
    Chains: A, B, C, D, E, F
    Engineered: YES
    Other Details: SYNTHESIZED BY THE SOLID-PHASE PHOSPHORAMIDITE METHOD
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB    
Biological Unit 2 (1x):   CD  
Biological Unit 3 (1x):     EF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric Unit (1, 12)
No.NameCountTypeFull Name
1CBV12Mod. Nucleotide5-BROMOCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1CBV4Mod. Nucleotide5-BROMOCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1CBV4Mod. Nucleotide5-BROMOCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)
Biological Unit 3 (1, 4)
No.NameCountTypeFull Name
1CBV4Mod. Nucleotide5-BROMOCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)

(-) Sites  (0, 0)

(no "Site" information available for 1QBP)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1QBP)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1QBP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1QBP)

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 1QBP)

(-) Sequences/Alignments

Asymmetric 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    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:DNA/RNA  Length:15
                                              
                  1qbp A  1 UGccAGUUCGCUGGC 15
                              ||    10     
                              ||           
                              3-CBV        
                               4-CBV       


Chain B from PDB  Type:DNA/RNA  Length:15
                                              
                  1qbp B 16 UGccAGUUCGCUGGC 30
                              ||    25     
                             18-CBV        
                              19-CBV       


Chain C from PDB  Type:DNA/RNA  Length:15
                                              
                  1qbp C 31 UGccAGUUCGCUGGC 45
                              ||    40     
                             33-CBV        
                              34-CBV       


Chain D from PDB  Type:DNA/RNA  Length:15
                                              
                  1qbp D 46 UGccAGUUCGCUGGC 60
                              ||    55     
                             48-CBV        
                              49-CBV       


Chain E from PDB  Type:DNA/RNA  Length:15
                                              
                  1qbp E 61 UGccAGUUCGCUGGC 75
                              ||    70     
                             63-CBV        
                              64-CBV       


Chain F from PDB  Type:DNA/RNA  Length:15
                                              
                  1qbp F 76 UGccAGUUCGCUGGC 90
                              ||    85     
                             78-CBV        
                              79-CBV
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 1QBP)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1QBP)

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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