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(-) Description

Title :  THE INFLUENCE OF A CHIRAL AMINO ACID ON THE HELICAL HANDEDNESS OF PNA IN SOLUTION AND IN CRYSTALS
 
Authors :  H. Rasmussen, T. Liljefors, B. Petersson, P. E. Nielsen, J. S. Kastrup
Date :  09 Dec 03  (Deposition) - 13 Jan 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.35
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Keywords :  Pna, Peptide Nucleic Acid, L-Lysine, Helical Handedness, P-Form, Molecular Mechanics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Rasmussen, T. Liljefors, B. Petersson, P. E. Nielsen, J. S. Kastrup
The Influence Of A Chiral Amino Acid On The Helical Handedness Of Pna In Solution And In Crystals
J. Biomol. Struct. Dyn. V. 21 495 2004
PubMed-ID: 14692794
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PEPTIDE NUCLEIC ACID, (H-P(*CPN*GPN*TPN*APN*CPN*GPN)-LYS- NH2)
    Chains: A, B
    Engineered: YES
    Synonym: PNA
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): A 
Biological Unit 2 (2x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 14)

Asymmetric Unit (5, 14)
No.NameCountTypeFull Name
1APN2Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-ADENINE
2CPN4Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-CYTOSINE
3GPN4Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-GUANINE
4NH22Mod. Amino AcidAMINO GROUP
5TPN2Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-THYMINE
Biological Unit 1 (5, 14)
No.NameCountTypeFull Name
1APN2Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-ADENINE
2CPN4Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-CYTOSINE
3GPN4Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-GUANINE
4NH22Mod. Amino AcidAMINO GROUP
5TPN2Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-THYMINE
Biological Unit 2 (5, 14)
No.NameCountTypeFull Name
1APN2Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-ADENINE
2CPN4Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-CYTOSINE
3GPN4Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-GUANINE
4NH22Mod. Amino AcidAMINO GROUP
5TPN2Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-THYMINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:7BINDING SITE FOR RESIDUE NH2 A 8
2AC2SOFTWAREGPN B:14 , LYS B:15BINDING SITE FOR RESIDUE NH2 B 16

(-) SS Bonds  (0, 0)

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(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

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(-) Exons   (0, 0)

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(-) 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
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Chain A from PDB  Type:PROTEIN  Length:8
                                       
               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
                  1rru A  1 xxxxxxKx  8
                            |||||| |
                            |||||| |
                            1-CPN| |
                             2-GPN |
                              3-TPN|
                               4-APN
                                5-CPN
                                 6-GPN
                                   8-NH2


Chain B from PDB  Type:PROTEIN  Length:8
                                       
               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
                  1rru B  9 xxxxxxKx 16
                            |||||| |
                            |||||| |
                            9-CPN| |
                            10-GPN |
                             11-TPN|
                              12-APN
                               13-CPN
                                14-GPN
                                  16-NH2
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

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(-) Gene Ontology  (0, 0)

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 Related Entries

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(-) Related Entries Specified in the PDB File

1hzs CRYSTAL STRUCTURE OF PEPTIDE NUCLEIC ACID CONTAINING A BICYCLIC ANALOGUE OF THYMINE
1pup PEPTIDE NUCLEIC ACID DUPLEX HEXAMER AT 1.7 A RESOLUTION
1qpy CRYSTAL STRUCTURE OF A BACKBONE MODIFIED PNA HEXAMER