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(-) Description

Title :  MODEL STRUCTURE OF DNA DODECAMER D(GCCTGTTAGCG) BOUND TO HAIRPIN POLYAMIDE IM-PY-PY-GAMMA-PY-PY-PY-BETA-DP
 
Authors :  Saher A Shaikh
Date :  09 May 06  (Deposition) - 17 Oct 06  (Release) - 17 Oct 06  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A,B,_#
#:   chains that contain no standard or modified protein/DNA/RNA residue)
 
Keywords :  Model Built, Minor Groove Binding, Dna-Drug, Hairpin Polyamide, Imidazole Pyrrole Polyamide (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Saher A Shaikh, B Jayaram
A Swift All-Atom Energy Based Computational Protocol To Predict Dna-Drug Binding Affinity And Deltatm
To Be Published 2006
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA 5'-D(*GP*CP*CP*TP*GP*TP*TP*AP*GP*CP*G)-3'
    ChainsA
    EngineeredYES
    Other DetailsMODEL BUILT
    SyntheticYES
 
Molecule 2 - DNA 5'-D(*CP*GP*CP*TP*AP*AP*CP*AP*GP*GP*C)-3'
    ChainsB
    EngineeredYES
    SyntheticYES

 Structural Features

(-) Chains, Units

  
Theoretical Model 
#:   chains that contain no standard or modified protein/DNA/RNA residue)
 

Summary Information (see also Sequences/Alignments below)

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

Theoretical Model (1, 1)
No.NameCountTypeFull Name
1IPQ1Ligand/Ion

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 Sequence-Structure Mapping

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(-) Sequences/Alignments

Theoretical Model
   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
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Chain A from PDB  Type:DNA  Length:11
                                          
                  2gym A  1 GCCTGTTAGCG 11
                                    10 

Chain B from PDB  Type:DNA  Length:11
                                          
                  2gym B 12 CGCTAACAGGC 22
                                    21 

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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

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(-) Gene Ontology  (0, 0)

Theoretical Model(hide GO term definitions)
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(-) Related Entries Specified in the PDB File

2gxc 2gxj 2gxv 2gy6