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(-)Asym./Biol. Unit
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Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  DNA HOLLIDAY JUNCTION STABILIZED BY FLUORINE HALOGEN BOND. F2J CONSTRUCT OF RELATED REFERENCE.
 
Authors :  P. S. Ho, M. Carter
Date :  27 Aug 12  (Deposition) - 31 Jul 13  (Release) - 18 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.38
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F,G,H
Keywords :  Dna Holliday Junction, Halogen Bond, Dna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Carter, A. R. Voth, M. R. Scholfield, B. Rummel, L. C. Sowers, P. S. Ho
Enthalpy-Entropy Compensation In Biomolecular Halogen Bonds Measured In Dna Junctions.
Biochemistry V. 52 4891 2013
PubMed-ID: 23789744  |  Reference-DOI: 10.1021/BI400590H

(-) Compounds

Molecule 1 - DNA (5'-D(*CP*CP*GP*GP*TP*AP*(UFP)P*CP*GP*G)-3')
    Chains: A, C, F, H
    Engineered: YES
    Other Details: SYNTHETICALLY ENGINEERED DNA SEQUENCE
    Synthetic: YES
 
Molecule 2 - DNA (5'-D(*CP*CP*GP*AP*TP*AP*CP*CP*GP*G)-3')
    Chains: B, D, E, G
    Engineered: YES
    Other Details: SYNTHETICALLY ENGINEERED DNA SEQUENCE
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric/Biological Unit : ABCDEFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1UFP4Mod. Nucleotide5-FLUORO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE

(-) Sites  (0, 0)

(no "Site" information available for 4GSI)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4GSI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4GSI)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4GSI)

(-) Exons   (0, 0)

(no "Exon" information available for 4GSI)

(-) Sequences/Alignments

Asymmetric/Biological 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:DNA  Length:10
                                          
                 4gsi A   1 CCGGTAxCGG  10
                                  | 10
                                  7-UFP


Chain B from PDB  Type:DNA  Length:10
                                          
                 4gsi B  11 CCGATACCGG  20
                                    20


Chain C from PDB  Type:DNA  Length:10
                                          
                 4gsi C  21 CCGGTAxCGG  30
                                  | 30
                                 27-UFP


Chain D from PDB  Type:DNA  Length:10
                                          
                 4gsi D  31 CCGATACCGG  40
                                    40


Chain E from PDB  Type:DNA  Length:10
                                          
                 4gsi E 201 CCGATACCGG 210
                                   210


Chain F from PDB  Type:DNA  Length:10
                                          
                 4gsi F 211 CCGGTAxCGG 220
                                  |220
                                217-UFP


Chain G from PDB  Type:DNA  Length:10
                                          
                 4gsi G 221 CCGATACCGG 230
                                   230


Chain H from PDB  Type:DNA  Length:10
                                          
                 4gsi H 231 CCGGTAxCGG 240
                                  |240
                                237-UFP
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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 4GSI)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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(-) Related Entries Specified in the PDB File

2orf 2org 2orh 3tok 4gqd 4gre 4gs2 4gsg