data_5737

#######################
#  Entry information  #
#######################

save_entry_information
   _Saveframe_category      entry_information

   _Entry_title            
;
Structure of the parallel-stranded DNA quadruplex d(TTAGGGA)4 containing the 
human telomeric repeat: evidence for A-tetrad formation from NMR and molecular 
dynamics simulation. 
;
   _BMRB_accession_number   5737
   _BMRB_flat_file_name     bmr5737.str
   _Entry_type              new
   _Submission_date         2003-03-14
   _Accession_date          2003-03-14
   _Entry_origination       author
   _NMR_STAR_version        2.1.1
   _Experimental_method     NMR
   _Details                 .

   loop_
      _Author_ordinal
      _Author_family_name
      _Author_given_name
      _Author_middle_initials
      _Author_family_title

      1 Gavathiotis E. .  . 
      2 Searle      M. S. . 

   stop_

   loop_
      _Saveframe_category_type
      _Saveframe_category_type_count

      assigned_chemical_shifts 1 

   stop_

   loop_
      _Data_type
      _Data_type_count

      "1H chemical shifts" 63 

   stop_

   loop_
      _Revision_date
      _Revision_keyword
      _Revision_author
      _Revision_detail

      2010-07-16 update   BMRB   'update DNA residue label to two-letter code' 
      2003-09-15 original author 'original release'                            

   stop_

save_


#############################
#  Citation for this entry  #
#############################

save_entry_citation
   _Saveframe_category           entry_citation

   _Citation_full                .
   _Citation_title              
;
Structure of the Parallel-stranded DNA Quadruplex d(TTAGGGT)4 Containing 
the Human Telomeric Repeat: Evidence for A-tetrad Formation from NMR and 
Molecular Dynamics Simulations 
;
   _Citation_status              published
   _Citation_type                journal
   _CAS_abstract_code            .
   _MEDLINE_UI_code              22807851
   _PubMed_ID                    12926351

   loop_
      _Author_ordinal
      _Author_family_name
      _Author_given_name
      _Author_middle_initials
      _Author_family_title

      1 Gavathiotis E. .  . 
      2 Searle      M. S. . 

   stop_

   _Journal_abbreviation        'Org. Biomol. Chem.'
   _Journal_name_full           'Organic and Biomolecular Chemistry'
   _Journal_volume               1
   _Journal_issue                10
   _Journal_CSD                  .
   _Book_chapter_title           .
   _Book_volume                  .
   _Book_series                  .
   _Book_ISBN                    .
   _Conference_state_province    .
   _Conference_abstract_number   .
   _Page_first                   1650
   _Page_last                    1656
   _Year                         2003
   _Details                      .

   loop_
      _Keyword

      'PARALLEL-STRANDED QUADRUPLEX DNA' 
      'TTAGGGT REPEAT'                   
       A-TETRAD                          

   stop_

save_


##################################
#  Molecular system description  #
##################################

save_system_QUADRUPLEX
   _Saveframe_category         molecular_system

   _Mol_system_name            5'-D(*TP*TP*AP*GP*GP*GP*T)-3'
   _Abbreviation_common        5'-D(*TP*TP*AP*GP*GP*GP*T)-3'
   _Enzyme_commission_number   .

   loop_
      _Mol_system_component_name
      _Mol_label

      'TTAGGGT chain A' $TTAGGGT 
      'TTAGGGT chain B' $TTAGGGT 
      'TTAGGGT chain C' $TTAGGGT 
      'TTAGGGT chain D' $TTAGGGT 

   stop_

   _System_molecular_weight    .
   _System_physical_state      native
   _System_oligomer_state      tetramer
   _System_paramagnetic        no
   _System_thiol_state        'not present'

   loop_
      _Magnetic_equivalence_ID
      _Magnetically_equivalent_system_component

      1 'TTAGGGT chain A' 
      1 'TTAGGGT chain B' 
      1 'TTAGGGT chain C' 
      1 'TTAGGGT chain D' 

   stop_

   _Database_query_date        .
   _Details                    .

save_


    ########################
    #  Monomeric polymers  #
    ########################

save_TTAGGGT
   _Saveframe_category                          monomeric_polymer

   _Mol_type                                    polymer
   _Mol_polymer_class                           DNA
   _Name_common                                 5'-D(*TP*TP*AP*GP*GP*GP*T)-3'
   _Molecular_mass                              .
   _Mol_thiol_state                            'not present'
   _Details                                     .

   	##############################
   	#  Polymer residue sequence  #
   	##############################
   
      _Residue_count                               7
   _Mol_residue_sequence                        TTAGGGT

   loop_
      _Residue_seq_code
      _Residue_label

      1 DT  2 DT  3 DA  4 DG  5 DG 
      6 DG  7 DT 

   stop_

   _Sequence_homology_query_date                .
   _Sequence_homology_query_revised_last_date   .

save_


    ####################
    #  Natural source  #
    ####################

save_natural_source
   _Saveframe_category   natural_source


   loop_
      _Mol_label
      _Organism_name_common
      _NCBI_taxonomy_ID
      _Superkingdom
      _Kingdom
      _Genus
      _Species

      $TTAGGGT . . . . . . 

   stop_

save_


    #########################
    #  Experimental source  #
    #########################

save_experimental_source
   _Saveframe_category   experimental_source


   loop_
      _Mol_label
      _Production_method
      _Host_organism_name_common
      _Genus
      _Species
      _Strain
      _Vector_name

      $TTAGGGT . . . . . . 

   stop_

save_


#####################################
#  Sample contents and methodology  #
#####################################
	 
    ########################
    #  Sample description  #
    ########################

save_sample_1
   _Saveframe_category   sample

   _Sample_type          solution
   _Details              .

   loop_
      _Mol_label
      _Concentration_value
      _Concentration_value_units
      _Isotopic_labeling

      $TTAGGGT   6.4 mM . 
       KCl     100   mM . 
       K2HPO4   10   mM . 
       EDTA      0.1 mM . 
       NaN3      0.1 mM . 
       H2O      90   %  . 
       D2O      10   %  . 

   stop_

save_


############################
#  Computer software used  #
############################

save_XWINNMR
   _Saveframe_category   software

   _Name                 XWINNMR
   _Version              2.6

   loop_
      _Task

      collection 
      processing 

   stop_

   _Details              .

save_


save_ANSIG
   _Saveframe_category   software

   _Name                 ANSIG
   _Version              v3.3

   loop_
      _Task

      'data analysis' 

   stop_

   _Details              .

save_


save_AMBER
   _Saveframe_category   software

   _Name                 AMBER
   _Version              6

   loop_
      _Task

      refinement 

   stop_

   _Details              .

save_


#########################
#  Experimental detail  #
#########################

    ##################################
    #  NMR Spectrometer definitions  #
    ##################################

save_NMR_spectrometer
   _Saveframe_category   NMR_spectrometer

   _Manufacturer         Bruker
   _Model                DRX
   _Field_strength       600
   _Details              .

save_


    #############################
    #  NMR applied experiments  #
    #############################

save_2D_NOESY_1
   _Saveframe_category   NMR_applied_experiment

   _Experiment_name     '2D NOESY'
   _Sample_label         .

save_


save_2D_TOCSY_2
   _Saveframe_category   NMR_applied_experiment

   _Experiment_name     '2D TOCSY'
   _Sample_label         .

save_


save_DQF-COSY_3
   _Saveframe_category   NMR_applied_experiment

   _Experiment_name      DQF-COSY
   _Sample_label         .

save_


save_NMR_spec_expt__0_1
   _Saveframe_category                     NMR_applied_experiment

   _Experiment_name                       '2D NOESY'
   _BMRB_pulse_sequence_accession_number   .
   _Details                                .

save_


save_NMR_spec_expt__0_2
   _Saveframe_category                     NMR_applied_experiment

   _Experiment_name                       '2D TOCSY'
   _BMRB_pulse_sequence_accession_number   .
   _Details                                .

save_


save_NMR_spec_expt__0_3
   _Saveframe_category                     NMR_applied_experiment

   _Experiment_name                        DQF-COSY
   _BMRB_pulse_sequence_accession_number   .
   _Details                                .

save_


#######################
#  Sample conditions  #
#######################

save_sample_cond_1
   _Saveframe_category   sample_conditions

   _Details              .

   loop_
      _Variable_type
      _Variable_value
      _Variable_value_error
      _Variable_value_units

      pH            7.0 . n/a 
      temperature 298   . K   
      pressure      1   . atm 

   stop_

save_


####################
#  NMR parameters  #
####################

    ##############################
    #  Assigned chemical shifts  #
    ##############################

	################################
	#  Chemical shift referencing  #
	################################

save_chemical_shift_reference
   _Saveframe_category   chemical_shift_reference

   _Details              .

   loop_
      _Mol_common_name
      _Atom_type
      _Atom_isotope_number
      _Atom_group
      _Chem_shift_units
      _Chem_shift_value
      _Reference_method
      _Reference_type
      _External_reference_sample_geometry
      _External_reference_location
      _External_reference_axis

      . H 1 . ppm . . . . . . 

   stop_

save_


	###################################
	#  Assigned chemical shift lists  #
	###################################

###################################################################
#       Chemical Shift Ambiguity Index Value Definitions          #
#                                                                 #
# The values other than 1 are used for those atoms with different #
# chemical shifts that cannot be assigned to stereospecific atoms #
# or to specific residues or chains.                              #
#                                                                 #
#   Index Value            Definition                             #
#                                                                 #
#      1             Unique (including isolated methyl protons,   #
#                         geminal atoms, and geminal methyl       #
#                         groups with identical chemical shifts)  #
#                         (e.g. ILE HD11, HD12, HD13 protons)     #
#      2             Ambiguity of geminal atoms or geminal methyl #
#                         proton groups (e.g. ASP HB2 and HB3     #
#                         protons, LEU CD1 and CD2 carbons, or    #
#                         LEU HD11, HD12, HD13 and HD21, HD22,    #
#                         HD23 methyl protons)                    #
#      3             Aromatic atoms on opposite sides of          #
#                         symmetrical rings (e.g. TYR HE1 and HE2 #
#                         protons)                                #
#      4             Intraresidue ambiguities (e.g. LYS HG and    #
#                         HD protons or TRP HZ2 and HZ3 protons)  #
#      5             Interresidue ambiguities (LYS 12 vs. LYS 27) #
#      6             Intermolecular ambiguities (e.g. ASP 31 CA   #
#                         in monomer 1 and ASP 31 CA in monomer 2 #
#                         of an asymmetrical homodimer, duplex    #
#                         DNA assignments, or other assignments   #
#                         that may apply to atoms in one or more  #
#                         molecule in the molecular assembly)     #
#      9             Ambiguous, specific ambiguity not defined    #
#                                                                 #
###################################################################
save_chemical_shift_set_1
   _Saveframe_category               assigned_chemical_shifts

   _Details                          .

   loop_
      _Sample_label

      $sample_1 

   stop_

   _Sample_conditions_label         $sample_cond_1
   _Chem_shift_reference_set_label  $chemical_shift_reference
   _Mol_system_component_name       'TTAGGGT chain A'
   _Text_data_format                 .
   _Text_data                        .

   loop_
      _Atom_shift_assign_ID
      _Residue_author_seq_code
      _Residue_seq_code
      _Residue_label
      _Atom_name
      _Atom_type
      _Chem_shift_value
      _Chem_shift_value_error
      _Chem_shift_ambiguity_code

       1 . 1 DT H1'  H  6    . 1 
       2 . 1 DT H2'  H  2.1  . 1 
       3 . 1 DT H2'' H  2.34 . 1 
       4 . 1 DT H3'  H  4.64 . 1 
       5 . 1 DT H4'  H  4    . 1 
       6 . 1 DT H5'  H  3.65 . 1 
       7 . 1 DT H6   H  7.41 . 1 
       8 . 1 DT H71  H  1.67 . 1 
       9 . 1 DT H72  H  1.67 . 1 
      10 . 1 DT H73  H  1.67 . 1 
      11 . 2 DT H1'  H  6.25 . 1 
      12 . 2 DT H2'  H  2.06 . 1 
      13 . 2 DT H2'' H  2.34 . 1 
      14 . 2 DT H3'  H  4.74 . 1 
      15 . 2 DT H4'  H  4.06 . 1 
      16 . 2 DT H5'  H  3.93 . 1 
      17 . 2 DT H6   H  7.33 . 1 
      18 . 2 DT H71  H  1.78 . 1 
      19 . 2 DT H72  H  1.78 . 1 
      20 . 2 DT H73  H  1.78 . 1 
      21 . 3 DA H1'  H  6.28 . 1 
      22 . 3 DA H2'  H  2.86 . 1 
      23 . 3 DA H2'' H  2.92 . 1 
      24 . 3 DA H3'  H  5.1  . 1 
      25 . 3 DA H4'  H  4.44 . 1 
      26 . 3 DA H5'  H  4.16 . 1 
      27 . 3 DA H5'' H  4.10 . 1 
      28 . 3 DA H8   H  8.43 . 1 
      29 . 3 DA H2   H  8.09 . 1 
      30 . 4 DG H1'  H  6.01 . 1 
      31 . 4 DG H2'  H  2.67 . 1 
      32 . 4 DG H2'' H  2.91 . 1 
      33 . 4 DG H3'  H  5.05 . 1 
      34 . 4 DG H4'  H  4.49 . 1 
      35 . 4 DG H5'  H  4.27 . 1 
      36 . 4 DG H8   H  7.95 . 1 
      37 . 4 DG H1   H 11.2  . 1 
      38 . 5 DG H1'  H  6.03 . 1 
      39 . 5 DG H2'  H  2.66 . 1 
      40 . 5 DG H2'' H  2.74 . 1 
      41 . 5 DG H3'  H  5.04 . 1 
      42 . 5 DG H4'  H  4.51 . 1 
      43 . 5 DG H5'  H  4.3  . 1 
      44 . 5 DG H8   H  7.79 . 1 
      45 . 5 DG H1   H 11.4  . 1 
      46 . 6 DG H1'  H  6.27 . 1 
      47 . 6 DG H2'  H  2.57 . 1 
      48 . 6 DG H2'' H  2.7  . 1 
      49 . 6 DG H3'  H  4.91 . 1 
      50 . 6 DG H4'  H  4.52 . 1 
      51 . 6 DG H5'  H  4.27 . 1 
      52 . 6 DG H8   H  7.7  . 1 
      53 . 6 DG H1   H 11.8  . 1 
      54 . 7 DT H1'  H  6.07 . 1 
      55 . 7 DT H2'  H  2.17 . 1 
      56 . 7 DT H2'' H  2.19 . 1 
      57 . 7 DT H3'  H  4.49 . 1 
      58 . 7 DT H4'  H  4.23 . 1 
      59 . 7 DT H5'  H  4.07 . 1 
      60 . 7 DT H6   H  7.36 . 1 
      61 . 7 DT H71  H  1.63 . 1 
      62 . 7 DT H72  H  1.63 . 1 
      63 . 7 DT H73  H  1.63 . 1 

   stop_

save_