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(-) Description

Title :  X-RAY STRUCTURE OF R[CGCG(5-FLUORO)CG]2
 
Authors :  D. A. Adamiak, J. Milecki, R. W. Adamiak, W. Rypniewski
Date :  21 Sep 09  (Deposition) - 09 Feb 10  (Release) - 26 May 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.45
Chains :  Asym. Unit :  A,B,K,L
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  K,L  (1x)
Keywords :  Rna, Double Helix (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. A. Adamiak, J. Milecki, R. W. Adamiak, W. Rypniewski
The Hydration And Unusual Hydrogen Bonding In The Crystal Structure Of An Rna Duplex Containing Alternating Cg Base Pairs
New J. Chem. V. 34 903 2010
PubMed: search  |  Reference-DOI: 10.1039/B9NJ00601J

(-) Compounds

Molecule 1 - R[CGCG(5-FLUORO)CG]2
    Chains: A, B, K, L
    Engineered: YES
    Other Details: THIS IS A MODIFICATION OF A NATURALLY OCCURING SEQUENCE
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABKL
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   KL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
15CF4Mod. Nucleotide5-FLUOROCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)
2MG4Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
15CF2Mod. Nucleotide5-FLUOROCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
15CF2Mod. Nucleotide5-FLUOROCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:18 , HOH A:109 , HOH A:118 , HOH A:119BINDING SITE FOR RESIDUE MG A 7
2AC2SOFTWAREHOH B:10 , HOH B:71 , HOH B:108 , HOH B:120 , HOH B:121 , HOH B:132BINDING SITE FOR RESIDUE MG B 7
3AC3SOFTWAREHOH B:53 , HOH B:94 , HOH B:96 , HOH K:41 , HOH K:115BINDING SITE FOR RESIDUE MG K 7
4AC4SOFTWAREG L:6 , HOH L:112 , HOH L:116 , HOH L:122 , HOH L:123BINDING SITE FOR RESIDUE MG L 7

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3JXQ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3JXQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3JXQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3JXQ)

(-) Exons   (0, 0)

(no "Exon" information available for 3JXQ)

(-) 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    
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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:RNA  Length:6
                                    
                   3jxq A 1 CGCGxG 6
                                | 
                                | 
                                5-5CF


Chain B from PDB  Type:RNA  Length:6
                                    
                   3jxq B 1 CGCGxG 6
                                | 
                                5-5CF


Chain K from PDB  Type:RNA  Length:6
                                    
                   3jxq K 1 CGCGxG 6
                                | 
                                5-5CF


Chain L from PDB  Type:RNA  Length:6
                                    
                   3jxq L 1 CGCGxG 6
                                | 
                                5-5CF
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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 3JXQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3JXQ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3JXQ)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3JXQ)

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3jxr