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(-) Description

Title :  CRYSTAL STRUCTURE OF D(CGCGAATTCGCG)2 COMPLEXED WITH BPH-1503
 
Authors :  W. Zhu, E. Oldfield
Date :  01 Aug 14  (Deposition) - 04 Feb 15  (Release) - 25 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.48
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Antibacterial Agents, Bisamidines, Minor Groove Binders, Models, Molecular, Nucleic Acid Conformation, Oligodeoxyribonucleotides (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  W. Zhu, Y. Wang, K. Li, J. Gao, C. H. Huang, C. C. Chen, T. P. Ko, Y. Zhang, R. T. Guo, E. Oldfield
Antibacterial Drug Leads: Dna And Enzyme Multitargeting.
J. Med. Chem. V. 58 1215 2015
PubMed-ID: 25574764  |  Reference-DOI: 10.1021/JM501449U

(-) Compounds

Molecule 1 - DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3')
    ChainsA, B
    EngineeredYES
    Organism ScientificSYNTHETIC CONSTRUCT
    Organism Taxid32630
    SyntheticYES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
13EZ1Ligand/IonN,N'-BIS[3-(1,4,5,6-TETRAHYDROPYRIMIDIN-2-YL)PHENYL]BIPHENYL-4,4'-DICARBOXAMIDE
2MG1Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:202 , HOH A:203 , HOH A:206 , HOH A:208 , HOH A:209 , HOH B:202binding site for residue MG A 101
2AC2SOFTWAREDA A:6 , DT A:7 , DT A:8 , DC A:9 , DG B:16 , DA B:17 , DA B:18 , DT B:19 , DT B:20 , DC B:21 , DG B:22binding site for residue 3EZ B 101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4U8A)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 4U8A)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:DNA  Length:12
                                           
                  4u8a A  1 CGCGAATTCGCG 12
                                    10  

Chain B from PDB  Type:DNA  Length:12
                                           
                  4u8a B 13 CGCGAATTCGCG 24
                                    22  

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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 4U8A)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4U8A)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4U8A)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4U8A)

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 Related Entries

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(-) Related Entries Specified in the PDB File

4u8b 4u8c