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(-) Description

Title :  RACEMIC CRYSTAL STRUCTURE OF A MAGNESIUM-BOUND B-DNA DUPLEX
 
Authors :  P. K. Mandal, G. W. Collie, B. Kauffmann, I. Huc
Date :  19 Aug 14  (Deposition) - 12 Nov 14  (Release) - 14 Jan 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.29
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Racemic Dna, Racemates, Dna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. K. Mandal, G. W. Collie, B. Kauffmann, I. Huc
Racemic Dna Crystallography.
Angew. Chem. Int. Ed. Engl. V. 53 14424 2014
PubMed-ID: 25358289  |  Reference-DOI: 10.1002/ANIE.201409014

(-) Compounds

Molecule 1 - 5'-D(*CP*CP*GP*GP*TP*AP*CP*CP*GP*G)-3'
    Chains: A, B, C, D
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Other Details: B-DNA DUPLEX
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 9)

Asymmetric Unit (2, 9)
No.NameCountTypeFull Name
1MG8Ligand/IonMAGNESIUM ION
2NA1Ligand/IonSODIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2NA-1Ligand/IonSODIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2NA-1Ligand/IonSODIUM ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:210 , HOH B:217 , HOH B:220BINDING SITE FOR RESIDUE MG A 101
2AC2SOFTWAREHOH A:201 , HOH A:203 , HOH A:206 , HOH A:234BINDING SITE FOR RESIDUE MG A 102
3AC3SOFTWAREDC B:8 , HOH B:213 , HOH B:216 , HOH B:218 , HOH B:225BINDING SITE FOR RESIDUE MG B 101
4AC4SOFTWAREHOH A:209 , HOH B:202 , HOH B:203 , HOH B:211BINDING SITE FOR RESIDUE MG B 102
5AC5SOFTWAREHOH B:210BINDING SITE FOR RESIDUE MG B 103
6AC6SOFTWAREDT B:5 , HOH B:229 , HOH B:234BINDING SITE FOR RESIDUE MG B 104
7AC7SOFTWAREHOH C:204 , HOH C:213 , HOH C:228BINDING SITE FOR RESIDUE MG C 101
8AC8SOFTWAREHOH C:208 , HOH C:215 , HOH D:205BINDING SITE FOR RESIDUE NA C 102
9AC9SOFTWAREDC D:8 , HOH D:201 , HOH D:203BINDING SITE FOR RESIDUE MG D 101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4R4D)

(-) 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)

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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    
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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  Length:10
                                         
                  4r4d A  1 CCGGTACCGG 10
                                    10


Chain B from PDB  Type:DNA  Length:10
                                         
                  4r4d B  1 CCGGTACCGG 10
                                    10


Chain C from PDB  Type:DNA  Length:10
                                         
                  4r4d C  1 CCGGTACCGG 10
                                    10


Chain D from PDB  Type:DNA  Length:10
                                         
                  4r4d D  1 CCGGTACCGG 10
                                    10
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4R4D)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4R4D)

(-) Pfam Domains  (0, 0)

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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

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4r47 RACEMIC CRYSTAL STRUCTURE OF A BIMOLECULAR DNA G-QUADRUPLEX (P21/N)
4r48 RACEMIC CRYSTAL STRUCTURE OF A CALCIUM-BOUND DNA FOUR-WAY JUNCTION
4r49 RACEMIC CRYSTAL STRUCTURE OF A CALCIUM-BOUND B-DNA DUPLEX
4r4a RACEMIC CRYSTAL STRUCTURE OF A COBALT-BOUND B-DNA DUPLEX