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(-) Description

Title :  SOLUTION STRUCTURE OF A DNA DODECAMER WITH 5-METHYLCYTOSINE AT THE 9TH POSITION
 
Authors :  H. L. Miears, J. J. Hoppins, D. R. Gruber, R. D. Kasymov, E. C. Johnson, D. O. Zharkov, S. L. Smirnov
Date :  01 Aug 16  (Deposition) - 21 Dec 16  (Release) - 21 Dec 16  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (9x)
NMR Structure *:  A,B  (1x)
Keywords :  Drew-Dickerson, Dna, Non-Canonical, Modified Dna, Methylated Dna, Epigenetics, Cpg Site (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. L. Miears, J. J. Hoppins, D. R. Gruber, R. D. Kasymov, E. C. Johnson, D. O. Zharkov, S. L. Smirnov
Solution Structure Of A Dna Dodecamer With 5-Methylcytosine At The 9Th Position
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5CM)P*GP*CP*G)-3')
    Chains: A, B
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
NMR Structure (9x): AB
NMR Structure * (1x): AB

Summary Information (see also Sequences/Alignments below)

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

NMR Structure (1, 2)
No.NameCountTypeFull Name
15CM2Mod. Nucleotide5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE
NMR Structure * (1, 2)
No.NameCountTypeFull Name
15CM2Mod. Nucleotide5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE

(-) Sites  (0, 0)

(no "Site" information available for 5L2G)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5L2G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5L2G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5L2G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5L2G)

(-) Exons   (0, 0)

(no "Exon" information available for 5L2G)

(-) Sequences/Alignments

NMR Structure
   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  Length:12
                                           
                  5l2g A  1 CGCGAATTxGCG 12
                                    10  
                                    9-5CM


Chain B from PDB  Type:DNA  Length:12
                                           
                  5l2g B 13 CGCGAATTxGCG 24
                                    22  
                                   21-5CM
   Legend:   → Mismatch (orange background)
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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 5L2G)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5L2G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5L2G)

(-) Gene Ontology  (0, 0)

NMR Structure(hide GO term definitions)
    (no "Gene Ontology" information available for 5L2G)

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 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 5L2G)

(-) Related Entries Specified in the PDB File

5iv1 SAME SEQUENCE WITH A DIFFERENT, 8-OXOGUANINE, MODIFICATION RELATED ID: 30151 RELATED DB: BMRB SOLUTION STRUCTURE OF A DNA DODECAMER WITH 5-METHYLCYTOSINE AT THE 3RD POSITION
5izp SAME SEQUENCE WITH A DIFFERENT, 8-OXOGUANINE, MODIFICATION
5l06 SAME SEQUENCE WITH A DIFFERENT 5-METHYLCYTOSINE MODIFICATION PLACEMENT RELATED ID: 30148 RELATED DB: BMRB SAME SEQUENCE WITH A DIFFERENT 5-METHYLCYTOSINE MODIFICATION PLACEMENT RELATED ID: 30044 RELATED DB: BMRB SAME SEQUENCE WITH A DIFFERENT, 8-OXOGUANINE, MODIFICATION