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(-) Description

Title :  SOLUTION STRUCTURE OF A PEPTIDE NUCLEIC ACID DUPLEX, 10 STRUCTURES
 
Authors :  W. He, E. Hatcher, A. Balaeff, D. Beratan, R. Gil, M. Madrid, C. Achim
Date :  07 Jun 08  (Deposition) - 23 Sep 08  (Release) - 13 Jul 11  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (11x)
NMR Structure *:  A,B  (1x)
Keywords :  Peptide Nucleic Acid, Pna, Pna-Pna Duplex, Left-Handed Duplex, P-Form (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. He, E. Hatcher, A. Balaeff, D. N. Beratan, R. R. Gil, M. Madrid, C. Achim
Solution Structure Of A Peptide Nucleic Acid Duplex From Nm Data: Features And Limitations.
J. Am. Chem. Soc. V. 130 13264 2008
PubMed-ID: 18781753  |  Reference-DOI: 10.1021/JA800652H

(-) Compounds

Molecule 1 - PNA (N'-(*(GPN)*(GPN)*(CPN)*(APN)*(TPN)*(GPN)*(CPN)*(CPN))- C')
    Chains: A, B
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
NMR Structure (11x): AB
NMR Structure * (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 20)

NMR Structure (6, 20)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2APN2Mod. Nucleotide2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-ADENINE
3CPN6Mod. Nucleotide2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-CYTOSINE
4GPN6Mod. Nucleotide2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-GUANINE
5NME2Ligand/IonMETHYLAMINE
6TPN2Mod. Nucleotide2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-THYMINE
NMR Structure * (6, 20)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2APN2Mod. Nucleotide2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-ADENINE
3CPN6Mod. Nucleotide2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-CYTOSINE
4GPN6Mod. Nucleotide2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-GUANINE
5NME2Ligand/IonMETHYLAMINE
6TPN2Mod. Nucleotide2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-THYMINE

(-) Sites  (3, 3)

NMR Structure (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGPN B:2BINDING SITE FOR RESIDUE ACE B 1
2AC2SOFTWARECPN A:8 , CPN A:9BINDING SITE FOR RESIDUE NME A 10
3AC3SOFTWAREGPN A:2 , CPN B:9BINDING SITE FOR RESIDUE NME B 10

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2K4G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2K4G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2K4G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2K4G)

(-) Exons   (0, 0)

(no "Exon" information available for 2K4G)

(-) 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/PROTEIN  Length:9
                                       
               SCOP domains --------- SCOP domains
               CATH domains --------- CATH domains
               Pfam domains --------- Pfam domains
         Sec.struct. author ......... Sec.struct. author
                 SAPs(SNPs) --------- SAPs(SNPs)
                    PROSITE --------- PROSITE
                 Transcript --------- Transcript
                   2k4g A 1 xggcatgcc 9
                            |||||||||
                            ||||||||9-CPN
                            1-ACE||| 
                             2-GPN|| 
                              3-GPN| 
                               4-CPN 
                                5-APN
                                 6-TPN
                                  7-GPN
                                   8-CPN


Chain B from PDB  Type:DNA/PROTEIN  Length:9
                                       
               SCOP domains --------- SCOP domains
               CATH domains --------- CATH domains
               Pfam domains --------- Pfam domains
         Sec.struct. author ......... Sec.struct. author
                 SAPs(SNPs) --------- SAPs(SNPs)
                    PROSITE --------- PROSITE
                 Transcript --------- Transcript
                   2k4g B 1 xggcatgcc 9
                            |||||||||
                            ||||||||9-CPN
                            1-ACE||| 
                             2-GPN|| 
                              3-GPN| 
                               4-CPN 
                                5-APN
                                 6-TPN
                                  7-GPN
                                   8-CPN
   Legend:   → Mismatch (orange background)
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    → 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 2K4G)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2K4G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2K4G)

(-) Gene Ontology  (0, 0)

NMR Structure(hide GO term definitions)
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