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(-) Description

Title :  CRYSTAL STRUCTURE OF 8MER PNA
 
Authors :  J. I. Yeh, E. Pohl, D. Truan, W. He, G. M. Sheldrick, C. Achim
Date :  26 Mar 10  (Deposition) - 30 Mar 11  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.27
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Peptide Nucleic Acid Pna, Peptide Nucleic Acid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. I. Yeh, E. Pohl, D. Truan, W. He, G. M. Sheldrick, S. Du, C. Achim
The Crystal Structure Of Non-Modified And Bipyridine-Modified Pna Duplexes.
Chemistry V. 16 11867 2010
PubMed-ID: 20859960  |  Reference-DOI: 10.1002/CHEM.201000392

(-) Compounds

Molecule 1 - PEPTIDE NUCLEIC ACID
    Chains: A, B, C, D
    Engineered: YES
    Other Details: THE MOLECULE HAS BEEN SYNTHESIZED
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 37)

Asymmetric Unit (5, 37)
No.NameCountTypeFull Name
1APN4Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-ADENINE
2CPN12Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-CYTOSINE
3EDO5Ligand/Ion1,2-ETHANEDIOL
4GPN12Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-GUANINE
5TPN4Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-THYMINE
Biological Unit 1 (5, 10)
No.NameCountTypeFull Name
1APN1Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-ADENINE
2CPN3Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-CYTOSINE
3EDO2Ligand/Ion1,2-ETHANEDIOL
4GPN3Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-GUANINE
5TPN1Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-THYMINE
Biological Unit 2 (5, 9)
No.NameCountTypeFull Name
1APN1Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-ADENINE
2CPN3Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-CYTOSINE
3EDO1Ligand/Ion1,2-ETHANEDIOL
4GPN3Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-GUANINE
5TPN1Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-THYMINE
Biological Unit 3 (4, 8)
No.NameCountTypeFull Name
1APN1Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-ADENINE
2CPN3Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-CYTOSINE
3EDO-1Ligand/Ion1,2-ETHANEDIOL
4GPN3Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-GUANINE
5TPN1Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-THYMINE
Biological Unit 4 (5, 10)
No.NameCountTypeFull Name
1APN1Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-ADENINE
2CPN3Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-CYTOSINE
3EDO2Ligand/Ion1,2-ETHANEDIOL
4GPN3Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-GUANINE
5TPN1Mod. Amino Acid2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-THYMINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGPN A:1002 , CPN A:1003 , EDO A:5005 , HOH A:9004BINDING SITE FOR RESIDUE EDO A 5003
2AC2SOFTWAREGPN A:1001 , GPN A:1002 , EDO A:5003 , HOH A:9080 , CPN C:3008 , GPN D:4001BINDING SITE FOR RESIDUE EDO A 5005
3AC3SOFTWAREGPN B:2002 , CPN B:2003 , HOH B:9071BINDING SITE FOR RESIDUE EDO B 5004
4AC4SOFTWAREGPN D:4002 , CPN D:4003 , EDO D:5002 , HOH D:9012BINDING SITE FOR RESIDUE EDO D 5001
5AC5SOFTWAREGPN A:1001 , HOH A:9044 , CPN B:2008 , GPN D:4001 , GPN D:4002 , EDO D:5001BINDING SITE FOR RESIDUE EDO D 5002

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3MBS)

(-) 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: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
                3mbs A 1001 xxxxxxxxK 1009
                            |||||||| 
                            |||||||| 
                         1001-GPN||| 
                          1002-GPN|| 
                           1003-CPN| 
                            1004-APN 
                             1005-TPN
                              1006-GPN
                               1007-CPN
                                1008-CPN


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
                3mbs B 2001 xxxxxxxx 2008
                            ||||||||
                            ||||||||
                         2001-GPN|||
                          2002-GPN||
                           2003-CPN|
                            2004-APN
                             2005-TPN
                              2006-GPN
                               2007-CPN
                                2008-CPN


Chain C from PDB  Type: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
                3mbs C 3001 xxxxxxxxK 3009
                            |||||||| 
                            |||||||| 
                         3001-GPN||| 
                          3002-GPN|| 
                           3003-CPN| 
                            3004-APN 
                             3005-TPN
                              3006-GPN
                               3007-CPN
                                3008-CPN


Chain D 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
                3mbs D 4001 xxxxxxxx 4008
                            ||||||||
                            ||||||||
                         4001-GPN|||
                          4002-GPN||
                           4003-CPN|
                            4004-APN
                             4005-TPN
                              4006-GPN
                               4007-CPN
                                4008-CPN
   Legend:   → Mismatch (orange background)
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  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 3MBS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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

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3mbu