data_1D63
# 
_entry.id   1D63 
# 
_audit_conform.dict_name       mmcif_pdbx.dic 
_audit_conform.dict_version    5.385 
_audit_conform.dict_location   http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 
# 
loop_
_database_2.database_id 
_database_2.database_code 
_database_2.pdbx_database_accession 
_database_2.pdbx_DOI 
PDB   1D63         pdb_00001d63 10.2210/pdb1d63/pdb 
RCSB  GDL016       ?            ?                   
WWPDB D_1000172664 ?            ?                   
# 
loop_
_pdbx_audit_revision_history.ordinal 
_pdbx_audit_revision_history.data_content_type 
_pdbx_audit_revision_history.major_revision 
_pdbx_audit_revision_history.minor_revision 
_pdbx_audit_revision_history.revision_date 
1 'Structure model' 1 0 1993-01-15 
2 'Structure model' 1 1 2008-05-22 
3 'Structure model' 1 2 2011-07-13 
4 'Structure model' 1 3 2024-02-07 
# 
_pdbx_audit_revision_details.ordinal             1 
_pdbx_audit_revision_details.revision_ordinal    1 
_pdbx_audit_revision_details.data_content_type   'Structure model' 
_pdbx_audit_revision_details.provider            repository 
_pdbx_audit_revision_details.type                'Initial release' 
_pdbx_audit_revision_details.description         ? 
_pdbx_audit_revision_details.details             ? 
# 
loop_
_pdbx_audit_revision_group.ordinal 
_pdbx_audit_revision_group.revision_ordinal 
_pdbx_audit_revision_group.data_content_type 
_pdbx_audit_revision_group.group 
1 2 'Structure model' 'Version format compliance' 
2 3 'Structure model' 'Version format compliance' 
3 4 'Structure model' 'Data collection'           
4 4 'Structure model' 'Database references'       
5 4 'Structure model' 'Derived calculations'      
# 
loop_
_pdbx_audit_revision_category.ordinal 
_pdbx_audit_revision_category.revision_ordinal 
_pdbx_audit_revision_category.data_content_type 
_pdbx_audit_revision_category.category 
1 4 'Structure model' chem_comp_atom         
2 4 'Structure model' chem_comp_bond         
3 4 'Structure model' database_2             
4 4 'Structure model' pdbx_struct_conn_angle 
5 4 'Structure model' struct_conn            
6 4 'Structure model' struct_site            
# 
loop_
_pdbx_audit_revision_item.ordinal 
_pdbx_audit_revision_item.revision_ordinal 
_pdbx_audit_revision_item.data_content_type 
_pdbx_audit_revision_item.item 
1  4 'Structure model' '_database_2.pdbx_DOI'                        
2  4 'Structure model' '_database_2.pdbx_database_accession'         
3  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id'  
4  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id'   
5  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 
6  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry'      
7  4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id'  
8  4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id'   
9  4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 
10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry'      
11 4 'Structure model' '_pdbx_struct_conn_angle.value'               
12 4 'Structure model' '_struct_conn.pdbx_dist_value'                
13 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id'             
14 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id'              
15 4 'Structure model' '_struct_conn.ptnr2_label_asym_id'            
16 4 'Structure model' '_struct_conn.ptnr2_symmetry'                 
17 4 'Structure model' '_struct_site.pdbx_auth_asym_id'              
18 4 'Structure model' '_struct_site.pdbx_auth_comp_id'              
19 4 'Structure model' '_struct_site.pdbx_auth_seq_id'               
# 
_pdbx_database_status.status_code                     REL 
_pdbx_database_status.entry_id                        1D63 
_pdbx_database_status.recvd_initial_deposition_date   1992-03-02 
_pdbx_database_status.deposit_site                    BNL 
_pdbx_database_status.process_site                    NDB 
_pdbx_database_status.status_code_sf                  REL 
_pdbx_database_status.status_code_mr                  ? 
_pdbx_database_status.SG_entry                        ? 
_pdbx_database_status.pdb_format_compatible           Y 
_pdbx_database_status.status_code_cs                  ? 
_pdbx_database_status.status_code_nmr_data            ? 
_pdbx_database_status.methods_development_category    ? 
# 
loop_
_audit_author.name 
_audit_author.pdbx_ordinal 
'Brown, D.G.'     1 
'Sanderson, M.R.' 2 
'Garman, E.'      3 
'Neidle, S.'      4 
# 
loop_
_citation.id 
_citation.title 
_citation.journal_abbrev 
_citation.journal_volume 
_citation.page_first 
_citation.page_last 
_citation.year 
_citation.journal_id_ASTM 
_citation.country 
_citation.journal_id_ISSN 
_citation.journal_id_CSD 
_citation.book_publisher 
_citation.pdbx_database_id_PubMed 
_citation.pdbx_database_id_DOI 
primary 
;Crystal structure of a berenil-d(CGCAAATTTGCG) complex. An example of drug-DNA recognition based on sequence-dependent structural features.
;
J.Mol.Biol. 226 481  490  1992 JMOBAK UK 0022-2836 0070 ? 1640462 '10.1016/0022-2836(92)90962-J' 
1       'Crystal Structure of a Berenil-Dodecanucleotide Complex: The Role of Water in Sequence-Specific Ligand Binding' 'Embo J.' 
9   1329 1334 1990 EMJODG UK 0261-4189 0897 ? ?       ?                              
# 
loop_
_citation_author.citation_id 
_citation_author.name 
_citation_author.ordinal 
_citation_author.identifier_ORCID 
primary 'Brown, D.G.'     1  ? 
primary 'Sanderson, M.R.' 2  ? 
primary 'Garman, E.'      3  ? 
primary 'Neidle, S.'      4  ? 
1       'Brown, D.G.'     5  ? 
1       'Sanderson, M.R.' 6  ? 
1       'Skelly, J.V.'    7  ? 
1       'Jenkins, T.C.'   8  ? 
1       'Brown, T.'       9  ? 
1       'Garman, E.'      10 ? 
1       'Stuart, D.I.'    11 ? 
1       'Neidle, S.'      12 ? 
# 
loop_
_entity.id 
_entity.type 
_entity.src_method 
_entity.pdbx_description 
_entity.formula_weight 
_entity.pdbx_number_of_molecules 
_entity.pdbx_ec 
_entity.pdbx_mutation 
_entity.pdbx_fragment 
_entity.details 
1 polymer     syn 
;DNA (5'-D(*CP*GP*CP*AP*AP*AP*TP*TP*TP*GP*CP*G)-3')
;
3662.404 2  ? ? ? ? 
2 non-polymer syn 'MAGNESIUM ION'                                      24.305   1  ? ? ? ? 
3 non-polymer syn BERENIL                                              281.316  1  ? ? ? ? 
4 water       nat water                                                18.015   65 ? ? ? ? 
# 
_entity_poly.entity_id                      1 
_entity_poly.type                           polydeoxyribonucleotide 
_entity_poly.nstd_linkage                   no 
_entity_poly.nstd_monomer                   no 
_entity_poly.pdbx_seq_one_letter_code       '(DC)(DG)(DC)(DA)(DA)(DA)(DT)(DT)(DT)(DG)(DC)(DG)' 
_entity_poly.pdbx_seq_one_letter_code_can   CGCAAATTTGCG 
_entity_poly.pdbx_strand_id                 A,B 
_entity_poly.pdbx_target_identifier         ? 
# 
loop_
_pdbx_entity_nonpoly.entity_id 
_pdbx_entity_nonpoly.name 
_pdbx_entity_nonpoly.comp_id 
2 'MAGNESIUM ION' MG  
3 BERENIL         BRN 
4 water           HOH 
# 
loop_
_entity_poly_seq.entity_id 
_entity_poly_seq.num 
_entity_poly_seq.mon_id 
_entity_poly_seq.hetero 
1 1  DC n 
1 2  DG n 
1 3  DC n 
1 4  DA n 
1 5  DA n 
1 6  DA n 
1 7  DT n 
1 8  DT n 
1 9  DT n 
1 10 DG n 
1 11 DC n 
1 12 DG n 
# 
loop_
_chem_comp.id 
_chem_comp.type 
_chem_comp.mon_nstd_flag 
_chem_comp.name 
_chem_comp.pdbx_synonyms 
_chem_comp.formula 
_chem_comp.formula_weight 
BRN non-polymer   . BERENIL                              
;DIMINAZINE ACETURATE; 1,3-TRIS-(4'AMIDINOPHENYL)TRIAZINE
;
'C14 H15 N7'      281.316 
DA  'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ?                                                          
'C10 H14 N5 O6 P' 331.222 
DC  'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE"  ?                                                          
'C9 H14 N3 O7 P'  307.197 
DG  'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ?                                                          
'C10 H14 N5 O7 P' 347.221 
DT  'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE"         ?                                                          
'C10 H15 N2 O8 P' 322.208 
HOH non-polymer   . WATER                                ?                                                          'H2 O' 18.015  
MG  non-polymer   . 'MAGNESIUM ION'                      ?                                                          'Mg 2' 24.305  
# 
loop_
_pdbx_poly_seq_scheme.asym_id 
_pdbx_poly_seq_scheme.entity_id 
_pdbx_poly_seq_scheme.seq_id 
_pdbx_poly_seq_scheme.mon_id 
_pdbx_poly_seq_scheme.ndb_seq_num 
_pdbx_poly_seq_scheme.pdb_seq_num 
_pdbx_poly_seq_scheme.auth_seq_num 
_pdbx_poly_seq_scheme.pdb_mon_id 
_pdbx_poly_seq_scheme.auth_mon_id 
_pdbx_poly_seq_scheme.pdb_strand_id 
_pdbx_poly_seq_scheme.pdb_ins_code 
_pdbx_poly_seq_scheme.hetero 
A 1 1  DC 1  1  1  DC C A . n 
A 1 2  DG 2  2  2  DG G A . n 
A 1 3  DC 3  3  3  DC C A . n 
A 1 4  DA 4  4  4  DA A A . n 
A 1 5  DA 5  5  5  DA A A . n 
A 1 6  DA 6  6  6  DA A A . n 
A 1 7  DT 7  7  7  DT T A . n 
A 1 8  DT 8  8  8  DT T A . n 
A 1 9  DT 9  9  9  DT T A . n 
A 1 10 DG 10 10 10 DG G A . n 
A 1 11 DC 11 11 11 DC C A . n 
A 1 12 DG 12 12 12 DG G A . n 
B 1 1  DC 1  13 13 DC C B . n 
B 1 2  DG 2  14 14 DG G B . n 
B 1 3  DC 3  15 15 DC C B . n 
B 1 4  DA 4  16 16 DA A B . n 
B 1 5  DA 5  17 17 DA A B . n 
B 1 6  DA 6  18 18 DA A B . n 
B 1 7  DT 7  19 19 DT T B . n 
B 1 8  DT 8  20 20 DT T B . n 
B 1 9  DT 9  21 21 DT T B . n 
B 1 10 DG 10 22 22 DG G B . n 
B 1 11 DC 11 23 23 DC C B . n 
B 1 12 DG 12 24 24 DG G B . n 
# 
loop_
_pdbx_nonpoly_scheme.asym_id 
_pdbx_nonpoly_scheme.entity_id 
_pdbx_nonpoly_scheme.mon_id 
_pdbx_nonpoly_scheme.ndb_seq_num 
_pdbx_nonpoly_scheme.pdb_seq_num 
_pdbx_nonpoly_scheme.auth_seq_num 
_pdbx_nonpoly_scheme.pdb_mon_id 
_pdbx_nonpoly_scheme.auth_mon_id 
_pdbx_nonpoly_scheme.pdb_strand_id 
_pdbx_nonpoly_scheme.pdb_ins_code 
C 2 MG  1  26 26 MG  MG  A . 
D 3 BRN 1  25 25 BRN BRN B . 
E 4 HOH 1  28 28 HOH HOH A . 
E 4 HOH 2  29 29 HOH HOH A . 
E 4 HOH 3  31 31 HOH HOH A . 
E 4 HOH 4  35 35 HOH HOH A . 
E 4 HOH 5  36 36 HOH HOH A . 
E 4 HOH 6  37 37 HOH HOH A . 
E 4 HOH 7  41 41 HOH HOH A . 
E 4 HOH 8  42 42 HOH HOH A . 
E 4 HOH 9  45 45 HOH HOH A . 
E 4 HOH 10 47 47 HOH HOH A . 
E 4 HOH 11 49 49 HOH HOH A . 
E 4 HOH 12 53 53 HOH HOH A . 
E 4 HOH 13 54 54 HOH HOH A . 
E 4 HOH 14 55 55 HOH HOH A . 
E 4 HOH 15 57 57 HOH HOH A . 
E 4 HOH 16 58 58 HOH HOH A . 
E 4 HOH 17 59 59 HOH HOH A . 
E 4 HOH 18 63 63 HOH HOH A . 
E 4 HOH 19 64 64 HOH HOH A . 
E 4 HOH 20 65 65 HOH HOH A . 
E 4 HOH 21 66 66 HOH HOH A . 
E 4 HOH 22 68 68 HOH HOH A . 
E 4 HOH 23 71 71 HOH HOH A . 
E 4 HOH 24 72 72 HOH HOH A . 
E 4 HOH 25 75 75 HOH HOH A . 
E 4 HOH 26 77 77 HOH HOH A . 
E 4 HOH 27 79 79 HOH HOH A . 
E 4 HOH 28 80 80 HOH HOH A . 
E 4 HOH 29 84 84 HOH HOH A . 
E 4 HOH 30 86 86 HOH HOH A . 
E 4 HOH 31 87 87 HOH HOH A . 
E 4 HOH 32 88 88 HOH HOH A . 
E 4 HOH 33 89 89 HOH HOH A . 
E 4 HOH 34 91 91 HOH HOH A . 
F 4 HOH 1  27 27 HOH HOH B . 
F 4 HOH 2  30 30 HOH HOH B . 
F 4 HOH 3  32 32 HOH HOH B . 
F 4 HOH 4  33 33 HOH HOH B . 
F 4 HOH 5  34 34 HOH HOH B . 
F 4 HOH 6  38 38 HOH HOH B . 
F 4 HOH 7  39 39 HOH HOH B . 
F 4 HOH 8  40 40 HOH HOH B . 
F 4 HOH 9  43 43 HOH HOH B . 
F 4 HOH 10 44 44 HOH HOH B . 
F 4 HOH 11 46 46 HOH HOH B . 
F 4 HOH 12 48 48 HOH HOH B . 
F 4 HOH 13 50 50 HOH HOH B . 
F 4 HOH 14 51 51 HOH HOH B . 
F 4 HOH 15 52 52 HOH HOH B . 
F 4 HOH 16 56 56 HOH HOH B . 
F 4 HOH 17 60 60 HOH HOH B . 
F 4 HOH 18 61 61 HOH HOH B . 
F 4 HOH 19 62 62 HOH HOH B . 
F 4 HOH 20 67 67 HOH HOH B . 
F 4 HOH 21 69 69 HOH HOH B . 
F 4 HOH 22 70 70 HOH HOH B . 
F 4 HOH 23 73 73 HOH HOH B . 
F 4 HOH 24 74 74 HOH HOH B . 
F 4 HOH 25 76 76 HOH HOH B . 
F 4 HOH 26 78 78 HOH HOH B . 
F 4 HOH 27 81 81 HOH HOH B . 
F 4 HOH 28 82 82 HOH HOH B . 
F 4 HOH 29 83 83 HOH HOH B . 
F 4 HOH 30 85 85 HOH HOH B . 
F 4 HOH 31 90 90 HOH HOH B . 
# 
_software.name             NUCLSQ 
_software.classification   refinement 
_software.version          . 
_software.citation_id      ? 
_software.pdbx_ordinal     1 
# 
_cell.entry_id           1D63 
_cell.length_a           24.640 
_cell.length_b           40.610 
_cell.length_c           65.070 
_cell.angle_alpha        90.00 
_cell.angle_beta         90.00 
_cell.angle_gamma        90.00 
_cell.Z_PDB              8 
_cell.pdbx_unique_axis   ? 
# 
_symmetry.entry_id                         1D63 
_symmetry.space_group_name_H-M             'P 21 21 21' 
_symmetry.pdbx_full_space_group_name_H-M   ? 
_symmetry.cell_setting                     ? 
_symmetry.Int_Tables_number                19 
# 
_exptl.entry_id          1D63 
_exptl.method            'X-RAY DIFFRACTION' 
_exptl.crystals_number   ? 
# 
_exptl_crystal.id                    1 
_exptl_crystal.density_meas          ? 
_exptl_crystal.density_Matthews      2.22 
_exptl_crystal.density_percent_sol   44.65 
_exptl_crystal.description           ? 
# 
_exptl_crystal_grow.crystal_id      1 
_exptl_crystal_grow.method          'VAPOR DIFFUSION, HANGING DROP' 
_exptl_crystal_grow.temp            ? 
_exptl_crystal_grow.temp_details    'ROOM TEMPERATURE' 
_exptl_crystal_grow.pH              7.00 
_exptl_crystal_grow.pdbx_details    'pH 7.00, VAPOR DIFFUSION, HANGING DROP' 
_exptl_crystal_grow.pdbx_pH_range   ? 
# 
loop_
_exptl_crystal_grow_comp.crystal_id 
_exptl_crystal_grow_comp.id 
_exptl_crystal_grow_comp.sol_id 
_exptl_crystal_grow_comp.name 
_exptl_crystal_grow_comp.volume 
_exptl_crystal_grow_comp.conc 
_exptl_crystal_grow_comp.details 
1 1 1 WATER           ? ? ? 
1 2 1 MPD             ? ? ? 
1 3 1 MGCL2           ? ? ? 
1 4 1 'NA CACODYLATE' ? ? ? 
1 5 1 AZIDE           ? ? ? 
1 6 2 WATER           ? ? ? 
1 7 2 MPD             ? ? ? 
# 
_diffrn.id                     1 
_diffrn.ambient_temp           291.00 
_diffrn.ambient_temp_details   ? 
_diffrn.crystal_id             1 
# 
_diffrn_detector.diffrn_id              1 
_diffrn_detector.detector               'AREA DETECTOR' 
_diffrn_detector.type                   XENTRONICS 
_diffrn_detector.pdbx_collection_date   ? 
_diffrn_detector.details                ? 
# 
_diffrn_radiation.diffrn_id                        1 
_diffrn_radiation.wavelength_id                    1 
_diffrn_radiation.pdbx_monochromatic_or_laue_m_l   ? 
_diffrn_radiation.monochromator                    ? 
_diffrn_radiation.pdbx_diffrn_protocol             ? 
_diffrn_radiation.pdbx_scattering_type             x-ray 
# 
_diffrn_radiation_wavelength.id           1 
_diffrn_radiation_wavelength.wavelength   . 
_diffrn_radiation_wavelength.wt           1.0 
# 
_diffrn_source.diffrn_id                   1 
_diffrn_source.source                      'ROTATING ANODE' 
_diffrn_source.type                        'RIGAKU RU200' 
_diffrn_source.pdbx_synchrotron_site       ? 
_diffrn_source.pdbx_synchrotron_beamline   ? 
_diffrn_source.pdbx_wavelength             ? 
_diffrn_source.pdbx_wavelength_list        ? 
# 
_reflns.entry_id                     1D63 
_reflns.observed_criterion_sigma_I   ? 
_reflns.observed_criterion_sigma_F   ? 
_reflns.d_resolution_low             ? 
_reflns.d_resolution_high            2.000 
_reflns.number_obs                   4067 
_reflns.number_all                   12415 
_reflns.percent_possible_obs         ? 
_reflns.pdbx_Rmerge_I_obs            0.0620000 
_reflns.pdbx_Rsym_value              ? 
_reflns.pdbx_netI_over_sigmaI        ? 
_reflns.B_iso_Wilson_estimate        ? 
_reflns.pdbx_redundancy              ? 
_reflns.pdbx_diffrn_id               1 
_reflns.pdbx_ordinal                 1 
# 
_refine.entry_id                                 1D63 
_refine.ls_number_reflns_obs                     3106 
_refine.ls_number_reflns_all                     ? 
_refine.pdbx_ls_sigma_I                          ? 
_refine.pdbx_ls_sigma_F                          2.000 
_refine.pdbx_data_cutoff_high_absF               ? 
_refine.pdbx_data_cutoff_low_absF                ? 
_refine.pdbx_data_cutoff_high_rms_absF           ? 
_refine.ls_d_res_low                             7.000 
_refine.ls_d_res_high                            2.000 
_refine.ls_percent_reflns_obs                    ? 
_refine.ls_R_factor_obs                          0.1830000 
_refine.ls_R_factor_all                          ? 
_refine.ls_R_factor_R_work                       ? 
_refine.ls_R_factor_R_free                       ? 
_refine.ls_R_factor_R_free_error                 ? 
_refine.ls_R_factor_R_free_error_details         ? 
_refine.ls_percent_reflns_R_free                 ? 
_refine.ls_number_reflns_R_free                  ? 
_refine.ls_number_parameters                     ? 
_refine.ls_number_restraints                     ? 
_refine.occupancy_min                            ? 
_refine.occupancy_max                            ? 
_refine.B_iso_mean                               ? 
_refine.aniso_B[1][1]                            ? 
_refine.aniso_B[2][2]                            ? 
_refine.aniso_B[3][3]                            ? 
_refine.aniso_B[1][2]                            ? 
_refine.aniso_B[1][3]                            ? 
_refine.aniso_B[2][3]                            ? 
_refine.solvent_model_details                    ? 
_refine.solvent_model_param_ksol                 ? 
_refine.solvent_model_param_bsol                 ? 
_refine.pdbx_ls_cross_valid_method               ? 
_refine.details                                  ? 
_refine.pdbx_starting_model                      ? 
_refine.pdbx_method_to_determine_struct          ? 
_refine.pdbx_isotropic_thermal_model             ? 
_refine.pdbx_stereochemistry_target_values       ? 
_refine.pdbx_stereochem_target_val_spec_case     ? 
_refine.pdbx_R_Free_selection_details            ? 
_refine.pdbx_overall_ESU_R                       ? 
_refine.pdbx_overall_ESU_R_Free                  ? 
_refine.overall_SU_ML                            ? 
_refine.overall_SU_B                             ? 
_refine.pdbx_refine_id                           'X-RAY DIFFRACTION' 
_refine.pdbx_diffrn_id                           1 
_refine.pdbx_TLS_residual_ADP_flag               ? 
_refine.correlation_coeff_Fo_to_Fc               ? 
_refine.correlation_coeff_Fo_to_Fc_free          ? 
_refine.pdbx_solvent_vdw_probe_radii             ? 
_refine.pdbx_solvent_ion_probe_radii             ? 
_refine.pdbx_solvent_shrinkage_radii             ? 
_refine.pdbx_overall_phase_error                 ? 
_refine.overall_SU_R_Cruickshank_DPI             ? 
_refine.pdbx_overall_SU_R_free_Cruickshank_DPI   ? 
_refine.pdbx_overall_SU_R_Blow_DPI               ? 
_refine.pdbx_overall_SU_R_free_Blow_DPI          ? 
# 
_refine_hist.pdbx_refine_id                   'X-RAY DIFFRACTION' 
_refine_hist.cycle_id                         LAST 
_refine_hist.pdbx_number_atoms_protein        0 
_refine_hist.pdbx_number_atoms_nucleic_acid   486 
_refine_hist.pdbx_number_atoms_ligand         22 
_refine_hist.number_atoms_solvent             65 
_refine_hist.number_atoms_total               573 
_refine_hist.d_res_high                       2.000 
_refine_hist.d_res_low                        7.000 
# 
loop_
_refine_ls_restr.type 
_refine_ls_restr.dev_ideal 
_refine_ls_restr.dev_ideal_target 
_refine_ls_restr.weight 
_refine_ls_restr.number 
_refine_ls_restr.pdbx_refine_id 
_refine_ls_restr.pdbx_restraint_function 
n_bond_d               ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_angle_d              ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_planar_d             ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_hb_or_metal_coord    ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_sugar_bond_it        ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_sugar_angle_it       ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_phos_bond_it         ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_phos_angle_it        ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_bond_angle_restr     ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_dihedral_angle_restr ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_impr_tor             ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_sugar_bond_d         0.011 ? ? ? 'X-RAY DIFFRACTION' ? 
n_sugar_bond_angle_d   0.026 ? ? ? 'X-RAY DIFFRACTION' ? 
n_phos_bond_d          0.032 ? ? ? 'X-RAY DIFFRACTION' ? 
n_phos_bond_angle_d    0.032 ? ? ? 'X-RAY DIFFRACTION' ? 
n_plane_restr          ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_chiral_restr         ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_singtor_nbd          ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_multtor_nbd          ?     ? ? ? 'X-RAY DIFFRACTION' ? 
n_xhyhbond_nbd         ?     ? ? ? 'X-RAY DIFFRACTION' ? 
# 
_database_PDB_matrix.entry_id          1D63 
_database_PDB_matrix.origx[1][1]       1.000000 
_database_PDB_matrix.origx[1][2]       0.000000 
_database_PDB_matrix.origx[1][3]       0.000000 
_database_PDB_matrix.origx[2][1]       0.000000 
_database_PDB_matrix.origx[2][2]       1.000000 
_database_PDB_matrix.origx[2][3]       0.000000 
_database_PDB_matrix.origx[3][1]       0.000000 
_database_PDB_matrix.origx[3][2]       0.000000 
_database_PDB_matrix.origx[3][3]       1.000000 
_database_PDB_matrix.origx_vector[1]   0.00000 
_database_PDB_matrix.origx_vector[2]   0.00000 
_database_PDB_matrix.origx_vector[3]   0.00000 
# 
_struct.entry_id                  1D63 
_struct.title                     
;CRYSTAL STRUCTURE OF A BERENIL-D(CGCAAATTTGCG) COMPLEX; AN EXAMPLE OF DRUG-DNA RECOGNITION BASED ON SEQUENCE-DEPENDENT STRUCTURAL FEATURES
;
_struct.pdbx_model_details        ? 
_struct.pdbx_CASP_flag            ? 
_struct.pdbx_model_type_details   ? 
# 
_struct_keywords.entry_id        1D63 
_struct_keywords.pdbx_keywords   DNA 
_struct_keywords.text            'B-DNA, DOUBLE HELIX, COMPLEXED WITH DRUG, DNA' 
# 
loop_
_struct_asym.id 
_struct_asym.pdbx_blank_PDB_chainid_flag 
_struct_asym.pdbx_modified 
_struct_asym.entity_id 
_struct_asym.details 
A N N 1 ? 
B N N 1 ? 
C N N 2 ? 
D N N 3 ? 
E N N 4 ? 
F N N 4 ? 
# 
_struct_ref.id                         1 
_struct_ref.entity_id                  1 
_struct_ref.db_name                    PDB 
_struct_ref.db_code                    1D63 
_struct_ref.pdbx_db_accession          1D63 
_struct_ref.pdbx_db_isoform            ? 
_struct_ref.pdbx_seq_one_letter_code   ? 
_struct_ref.pdbx_align_begin           ? 
# 
loop_
_struct_ref_seq.align_id 
_struct_ref_seq.ref_id 
_struct_ref_seq.pdbx_PDB_id_code 
_struct_ref_seq.pdbx_strand_id 
_struct_ref_seq.seq_align_beg 
_struct_ref_seq.pdbx_seq_align_beg_ins_code 
_struct_ref_seq.seq_align_end 
_struct_ref_seq.pdbx_seq_align_end_ins_code 
_struct_ref_seq.pdbx_db_accession 
_struct_ref_seq.db_align_beg 
_struct_ref_seq.pdbx_db_align_beg_ins_code 
_struct_ref_seq.db_align_end 
_struct_ref_seq.pdbx_db_align_end_ins_code 
_struct_ref_seq.pdbx_auth_seq_align_beg 
_struct_ref_seq.pdbx_auth_seq_align_end 
1 1 1D63 A 1 ? 12 ? 1D63 1  ? 12 ? 1  12 
2 1 1D63 B 1 ? 12 ? 1D63 13 ? 24 ? 13 24 
# 
_pdbx_struct_assembly.id                   1 
_pdbx_struct_assembly.details              author_defined_assembly 
_pdbx_struct_assembly.method_details       ? 
_pdbx_struct_assembly.oligomeric_details   dimeric 
_pdbx_struct_assembly.oligomeric_count     2 
# 
_pdbx_struct_assembly_gen.assembly_id       1 
_pdbx_struct_assembly_gen.oper_expression   1 
_pdbx_struct_assembly_gen.asym_id_list      A,B,C,D,E,F 
# 
_pdbx_struct_oper_list.id                   1 
_pdbx_struct_oper_list.type                 'identity operation' 
_pdbx_struct_oper_list.name                 1_555 
_pdbx_struct_oper_list.symmetry_operation   x,y,z 
_pdbx_struct_oper_list.matrix[1][1]         1.0000000000 
_pdbx_struct_oper_list.matrix[1][2]         0.0000000000 
_pdbx_struct_oper_list.matrix[1][3]         0.0000000000 
_pdbx_struct_oper_list.vector[1]            0.0000000000 
_pdbx_struct_oper_list.matrix[2][1]         0.0000000000 
_pdbx_struct_oper_list.matrix[2][2]         1.0000000000 
_pdbx_struct_oper_list.matrix[2][3]         0.0000000000 
_pdbx_struct_oper_list.vector[2]            0.0000000000 
_pdbx_struct_oper_list.matrix[3][1]         0.0000000000 
_pdbx_struct_oper_list.matrix[3][2]         0.0000000000 
_pdbx_struct_oper_list.matrix[3][3]         1.0000000000 
_pdbx_struct_oper_list.vector[3]            0.0000000000 
# 
_struct_biol.id   1 
# 
loop_
_struct_conn.id 
_struct_conn.conn_type_id 
_struct_conn.pdbx_leaving_atom_flag 
_struct_conn.pdbx_PDB_id 
_struct_conn.ptnr1_label_asym_id 
_struct_conn.ptnr1_label_comp_id 
_struct_conn.ptnr1_label_seq_id 
_struct_conn.ptnr1_label_atom_id 
_struct_conn.pdbx_ptnr1_label_alt_id 
_struct_conn.pdbx_ptnr1_PDB_ins_code 
_struct_conn.pdbx_ptnr1_standard_comp_id 
_struct_conn.ptnr1_symmetry 
_struct_conn.ptnr2_label_asym_id 
_struct_conn.ptnr2_label_comp_id 
_struct_conn.ptnr2_label_seq_id 
_struct_conn.ptnr2_label_atom_id 
_struct_conn.pdbx_ptnr2_label_alt_id 
_struct_conn.pdbx_ptnr2_PDB_ins_code 
_struct_conn.ptnr1_auth_asym_id 
_struct_conn.ptnr1_auth_comp_id 
_struct_conn.ptnr1_auth_seq_id 
_struct_conn.ptnr2_auth_asym_id 
_struct_conn.ptnr2_auth_comp_id 
_struct_conn.ptnr2_auth_seq_id 
_struct_conn.ptnr2_symmetry 
_struct_conn.pdbx_ptnr3_label_atom_id 
_struct_conn.pdbx_ptnr3_label_seq_id 
_struct_conn.pdbx_ptnr3_label_comp_id 
_struct_conn.pdbx_ptnr3_label_asym_id 
_struct_conn.pdbx_ptnr3_label_alt_id 
_struct_conn.pdbx_ptnr3_PDB_ins_code 
_struct_conn.details 
_struct_conn.pdbx_dist_value 
_struct_conn.pdbx_value_order 
_struct_conn.pdbx_role 
metalc1  metalc ? ? C MG .  MG ? ? ? 1_555 E HOH .  O  ? ? A MG 26 A HOH 41 3_657 ? ? ? ? ? ? ?            1.984 ? ? 
metalc2  metalc ? ? C MG .  MG ? ? ? 1_555 E HOH .  O  ? ? A MG 26 A HOH 54 1_555 ? ? ? ? ? ? ?            1.906 ? ? 
metalc3  metalc ? ? C MG .  MG ? ? ? 1_555 E HOH .  O  ? ? A MG 26 A HOH 55 1_555 ? ? ? ? ? ? ?            1.985 ? ? 
metalc4  metalc ? ? C MG .  MG ? ? ? 1_555 E HOH .  O  ? ? A MG 26 A HOH 66 3_657 ? ? ? ? ? ? ?            2.290 ? ? 
metalc5  metalc ? ? C MG .  MG ? ? ? 1_555 F HOH .  O  ? ? A MG 26 B HOH 83 1_555 ? ? ? ? ? ? ?            2.330 ? ? 
hydrog1  hydrog ? ? A DC 1  N3 ? ? ? 1_555 B DG  12 N1 ? ? A DC 1  B DG  24 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog2  hydrog ? ? A DC 1  N4 ? ? ? 1_555 B DG  12 O6 ? ? A DC 1  B DG  24 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog3  hydrog ? ? A DC 1  O2 ? ? ? 1_555 B DG  12 N2 ? ? A DC 1  B DG  24 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog4  hydrog ? ? A DG 2  N1 ? ? ? 1_555 B DC  11 N3 ? ? A DG 2  B DC  23 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog5  hydrog ? ? A DG 2  N2 ? ? ? 1_555 B DC  11 O2 ? ? A DG 2  B DC  23 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog6  hydrog ? ? A DG 2  O6 ? ? ? 1_555 B DC  11 N4 ? ? A DG 2  B DC  23 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog7  hydrog ? ? A DC 3  N3 ? ? ? 1_555 B DG  10 N1 ? ? A DC 3  B DG  22 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog8  hydrog ? ? A DC 3  N4 ? ? ? 1_555 B DG  10 O6 ? ? A DC 3  B DG  22 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog9  hydrog ? ? A DC 3  O2 ? ? ? 1_555 B DG  10 N2 ? ? A DC 3  B DG  22 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog10 hydrog ? ? A DA 4  N1 ? ? ? 1_555 B DT  9  N3 ? ? A DA 4  B DT  21 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog11 hydrog ? ? A DA 4  N6 ? ? ? 1_555 B DT  9  O4 ? ? A DA 4  B DT  21 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog12 hydrog ? ? A DA 5  N1 ? ? ? 1_555 B DT  8  N3 ? ? A DA 5  B DT  20 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog13 hydrog ? ? A DA 5  N6 ? ? ? 1_555 B DT  8  O4 ? ? A DA 5  B DT  20 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog14 hydrog ? ? A DA 6  N1 ? ? ? 1_555 B DT  7  N3 ? ? A DA 6  B DT  19 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog15 hydrog ? ? A DA 6  N6 ? ? ? 1_555 B DT  7  O4 ? ? A DA 6  B DT  19 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog16 hydrog ? ? A DT 7  N3 ? ? ? 1_555 B DA  6  N1 ? ? A DT 7  B DA  18 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog17 hydrog ? ? A DT 7  O4 ? ? ? 1_555 B DA  6  N6 ? ? A DT 7  B DA  18 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog18 hydrog ? ? A DT 8  N3 ? ? ? 1_555 B DA  5  N1 ? ? A DT 8  B DA  17 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog19 hydrog ? ? A DT 8  O4 ? ? ? 1_555 B DA  5  N6 ? ? A DT 8  B DA  17 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog20 hydrog ? ? A DT 9  N3 ? ? ? 1_555 B DA  4  N1 ? ? A DT 9  B DA  16 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog21 hydrog ? ? A DT 9  O4 ? ? ? 1_555 B DA  4  N6 ? ? A DT 9  B DA  16 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog22 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC  3  N3 ? ? A DG 10 B DC  15 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog23 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC  3  O2 ? ? A DG 10 B DC  15 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog24 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC  3  N4 ? ? A DG 10 B DC  15 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog25 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG  2  N1 ? ? A DC 11 B DG  14 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog26 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG  2  O6 ? ? A DC 11 B DG  14 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog27 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG  2  N2 ? ? A DC 11 B DG  14 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog28 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC  1  N3 ? ? A DG 12 B DC  13 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog29 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC  1  O2 ? ? A DG 12 B DC  13 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog30 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC  1  N4 ? ? A DG 12 B DC  13 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
# 
loop_
_struct_conn_type.id 
_struct_conn_type.criteria 
_struct_conn_type.reference 
metalc ? ? 
hydrog ? ? 
# 
loop_
_pdbx_struct_conn_angle.id 
_pdbx_struct_conn_angle.ptnr1_label_atom_id 
_pdbx_struct_conn_angle.ptnr1_label_alt_id 
_pdbx_struct_conn_angle.ptnr1_label_asym_id 
_pdbx_struct_conn_angle.ptnr1_label_comp_id 
_pdbx_struct_conn_angle.ptnr1_label_seq_id 
_pdbx_struct_conn_angle.ptnr1_auth_atom_id 
_pdbx_struct_conn_angle.ptnr1_auth_asym_id 
_pdbx_struct_conn_angle.ptnr1_auth_comp_id 
_pdbx_struct_conn_angle.ptnr1_auth_seq_id 
_pdbx_struct_conn_angle.ptnr1_PDB_ins_code 
_pdbx_struct_conn_angle.ptnr1_symmetry 
_pdbx_struct_conn_angle.ptnr2_label_atom_id 
_pdbx_struct_conn_angle.ptnr2_label_alt_id 
_pdbx_struct_conn_angle.ptnr2_label_asym_id 
_pdbx_struct_conn_angle.ptnr2_label_comp_id 
_pdbx_struct_conn_angle.ptnr2_label_seq_id 
_pdbx_struct_conn_angle.ptnr2_auth_atom_id 
_pdbx_struct_conn_angle.ptnr2_auth_asym_id 
_pdbx_struct_conn_angle.ptnr2_auth_comp_id 
_pdbx_struct_conn_angle.ptnr2_auth_seq_id 
_pdbx_struct_conn_angle.ptnr2_PDB_ins_code 
_pdbx_struct_conn_angle.ptnr2_symmetry 
_pdbx_struct_conn_angle.ptnr3_label_atom_id 
_pdbx_struct_conn_angle.ptnr3_label_alt_id 
_pdbx_struct_conn_angle.ptnr3_label_asym_id 
_pdbx_struct_conn_angle.ptnr3_label_comp_id 
_pdbx_struct_conn_angle.ptnr3_label_seq_id 
_pdbx_struct_conn_angle.ptnr3_auth_atom_id 
_pdbx_struct_conn_angle.ptnr3_auth_asym_id 
_pdbx_struct_conn_angle.ptnr3_auth_comp_id 
_pdbx_struct_conn_angle.ptnr3_auth_seq_id 
_pdbx_struct_conn_angle.ptnr3_PDB_ins_code 
_pdbx_struct_conn_angle.ptnr3_symmetry 
_pdbx_struct_conn_angle.value 
_pdbx_struct_conn_angle.value_esd 
1  O ? E HOH . ? A HOH 41 ? 3_657 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 54 ? 1_555 69.3  ? 
2  O ? E HOH . ? A HOH 41 ? 3_657 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 55 ? 1_555 170.6 ? 
3  O ? E HOH . ? A HOH 54 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 55 ? 1_555 117.4 ? 
4  O ? E HOH . ? A HOH 41 ? 3_657 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 66 ? 3_657 78.4  ? 
5  O ? E HOH . ? A HOH 54 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 66 ? 3_657 81.6  ? 
6  O ? E HOH . ? A HOH 55 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 66 ? 3_657 95.6  ? 
7  O ? E HOH . ? A HOH 41 ? 3_657 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 83 ? 1_555 81.1  ? 
8  O ? E HOH . ? A HOH 54 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 83 ? 1_555 147.7 ? 
9  O ? E HOH . ? A HOH 55 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 83 ? 1_555 90.8  ? 
10 O ? E HOH . ? A HOH 66 ? 3_657 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 83 ? 1_555 80.2  ? 
# 
loop_
_struct_site.id 
_struct_site.pdbx_evidence_code 
_struct_site.pdbx_auth_asym_id 
_struct_site.pdbx_auth_comp_id 
_struct_site.pdbx_auth_seq_id 
_struct_site.pdbx_auth_ins_code 
_struct_site.pdbx_num_residues 
_struct_site.details 
AC1 Software B BRN 25 ? 9 'BINDING SITE FOR RESIDUE BRN B 25' 
AC2 Software A MG  26 ? 5 'BINDING SITE FOR RESIDUE MG A 26'  
1   ?        ? ?   ?  ? ? ?                                   
# 
loop_
_struct_site_gen.id 
_struct_site_gen.site_id 
_struct_site_gen.pdbx_num_res 
_struct_site_gen.label_comp_id 
_struct_site_gen.label_asym_id 
_struct_site_gen.label_seq_id 
_struct_site_gen.pdbx_auth_ins_code 
_struct_site_gen.auth_comp_id 
_struct_site_gen.auth_asym_id 
_struct_site_gen.auth_seq_id 
_struct_site_gen.label_atom_id 
_struct_site_gen.label_alt_id 
_struct_site_gen.symmetry 
_struct_site_gen.details 
1  AC1 9 DA  A 6 ? DA  A 6  . ? 1_555 ? 
2  AC1 9 DT  A 7 ? DT  A 7  . ? 1_555 ? 
3  AC1 9 DT  A 8 ? DT  A 8  . ? 1_555 ? 
4  AC1 9 DT  A 9 ? DT  A 9  . ? 1_555 ? 
5  AC1 9 DA  B 6 ? DA  B 18 . ? 1_555 ? 
6  AC1 9 DT  B 7 ? DT  B 19 . ? 1_555 ? 
7  AC1 9 DT  B 8 ? DT  B 20 . ? 1_555 ? 
8  AC1 9 DT  B 9 ? DT  B 21 . ? 1_555 ? 
9  AC1 9 HOH F . ? HOH B 67 . ? 1_555 ? 
10 AC2 5 HOH E . ? HOH A 41 . ? 3_657 ? 
11 AC2 5 HOH E . ? HOH A 54 . ? 1_555 ? 
12 AC2 5 HOH E . ? HOH A 55 . ? 1_555 ? 
13 AC2 5 HOH E . ? HOH A 66 . ? 3_657 ? 
14 AC2 5 HOH F . ? HOH B 83 . ? 1_555 ? 
# 
loop_
_pdbx_validate_symm_contact.id 
_pdbx_validate_symm_contact.PDB_model_num 
_pdbx_validate_symm_contact.auth_atom_id_1 
_pdbx_validate_symm_contact.auth_asym_id_1 
_pdbx_validate_symm_contact.auth_comp_id_1 
_pdbx_validate_symm_contact.auth_seq_id_1 
_pdbx_validate_symm_contact.PDB_ins_code_1 
_pdbx_validate_symm_contact.label_alt_id_1 
_pdbx_validate_symm_contact.site_symmetry_1 
_pdbx_validate_symm_contact.auth_atom_id_2 
_pdbx_validate_symm_contact.auth_asym_id_2 
_pdbx_validate_symm_contact.auth_comp_id_2 
_pdbx_validate_symm_contact.auth_seq_id_2 
_pdbx_validate_symm_contact.PDB_ins_code_2 
_pdbx_validate_symm_contact.label_alt_id_2 
_pdbx_validate_symm_contact.site_symmetry_2 
_pdbx_validate_symm_contact.dist 
1 1 OP2   B DG  24 ? ? 1_555 O B HOH 61 ? ? 2_665 1.66 
2 1 "C5'" A DC  1  ? ? 1_555 O A HOH 64 ? ? 3_657 1.93 
3 1 O     A HOH 86 ? ? 1_555 O A HOH 91 ? ? 2_664 1.97 
4 1 O     A HOH 45 ? ? 1_555 O B HOH 70 ? ? 2_564 2.04 
5 1 O     A HOH 57 ? ? 1_555 O B HOH 46 ? ? 2_665 2.09 
# 
loop_
_pdbx_validate_rmsd_bond.id 
_pdbx_validate_rmsd_bond.PDB_model_num 
_pdbx_validate_rmsd_bond.auth_atom_id_1 
_pdbx_validate_rmsd_bond.auth_asym_id_1 
_pdbx_validate_rmsd_bond.auth_comp_id_1 
_pdbx_validate_rmsd_bond.auth_seq_id_1 
_pdbx_validate_rmsd_bond.PDB_ins_code_1 
_pdbx_validate_rmsd_bond.label_alt_id_1 
_pdbx_validate_rmsd_bond.auth_atom_id_2 
_pdbx_validate_rmsd_bond.auth_asym_id_2 
_pdbx_validate_rmsd_bond.auth_comp_id_2 
_pdbx_validate_rmsd_bond.auth_seq_id_2 
_pdbx_validate_rmsd_bond.PDB_ins_code_2 
_pdbx_validate_rmsd_bond.label_alt_id_2 
_pdbx_validate_rmsd_bond.bond_value 
_pdbx_validate_rmsd_bond.bond_target_value 
_pdbx_validate_rmsd_bond.bond_deviation 
_pdbx_validate_rmsd_bond.bond_standard_deviation 
_pdbx_validate_rmsd_bond.linker_flag 
1 1 "O3'" A DA 6 ? ? P     A DT 7 ? ? 1.524 1.607 -0.083 0.012 Y 
2 1 "O4'" A DT 8 ? ? "C1'" A DT 8 ? ? 1.490 1.420 0.070  0.011 N 
# 
loop_
_pdbx_validate_rmsd_angle.id 
_pdbx_validate_rmsd_angle.PDB_model_num 
_pdbx_validate_rmsd_angle.auth_atom_id_1 
_pdbx_validate_rmsd_angle.auth_asym_id_1 
_pdbx_validate_rmsd_angle.auth_comp_id_1 
_pdbx_validate_rmsd_angle.auth_seq_id_1 
_pdbx_validate_rmsd_angle.PDB_ins_code_1 
_pdbx_validate_rmsd_angle.label_alt_id_1 
_pdbx_validate_rmsd_angle.auth_atom_id_2 
_pdbx_validate_rmsd_angle.auth_asym_id_2 
_pdbx_validate_rmsd_angle.auth_comp_id_2 
_pdbx_validate_rmsd_angle.auth_seq_id_2 
_pdbx_validate_rmsd_angle.PDB_ins_code_2 
_pdbx_validate_rmsd_angle.label_alt_id_2 
_pdbx_validate_rmsd_angle.auth_atom_id_3 
_pdbx_validate_rmsd_angle.auth_asym_id_3 
_pdbx_validate_rmsd_angle.auth_comp_id_3 
_pdbx_validate_rmsd_angle.auth_seq_id_3 
_pdbx_validate_rmsd_angle.PDB_ins_code_3 
_pdbx_validate_rmsd_angle.label_alt_id_3 
_pdbx_validate_rmsd_angle.angle_value 
_pdbx_validate_rmsd_angle.angle_target_value 
_pdbx_validate_rmsd_angle.angle_deviation 
_pdbx_validate_rmsd_angle.angle_standard_deviation 
_pdbx_validate_rmsd_angle.linker_flag 
1  1 N3    A DC 1  ? ? C4    A DC 1  ? ? C5    A DC 1  ? ? 119.40 121.90 -2.50  0.40 N 
2  1 "O4'" A DG 2  ? ? "C1'" A DG 2  ? ? N9    A DG 2  ? ? 112.17 108.30 3.87   0.30 N 
3  1 "C3'" A DG 2  ? ? "O3'" A DG 2  ? ? P     A DC 3  ? ? 131.69 119.70 11.99  1.20 Y 
4  1 "O4'" A DA 4  ? ? "C1'" A DA 4  ? ? N9    A DA 4  ? ? 110.79 108.30 2.49   0.30 N 
5  1 C6    A DA 4  ? ? N1    A DA 4  ? ? C2    A DA 4  ? ? 123.39 118.60 4.79   0.60 N 
6  1 N1    A DA 4  ? ? C2    A DA 4  ? ? N3    A DA 4  ? ? 125.32 129.30 -3.98  0.50 N 
7  1 C5    A DA 4  ? ? C6    A DA 4  ? ? N1    A DA 4  ? ? 113.83 117.70 -3.87  0.50 N 
8  1 "O5'" A DA 5  ? ? "C5'" A DA 5  ? ? "C4'" A DA 5  ? ? 101.44 109.40 -7.96  0.80 N 
9  1 P     A DA 5  ? ? "O5'" A DA 5  ? ? "C5'" A DA 5  ? ? 110.91 120.90 -9.99  1.60 N 
10 1 C6    A DA 5  ? ? N1    A DA 5  ? ? C2    A DA 5  ? ? 122.40 118.60 3.80   0.60 N 
11 1 N1    A DA 5  ? ? C2    A DA 5  ? ? N3    A DA 5  ? ? 124.38 129.30 -4.92  0.50 N 
12 1 "C3'" A DA 5  ? ? "O3'" A DA 5  ? ? P     A DA 6  ? ? 131.54 119.70 11.84  1.20 Y 
13 1 "O5'" A DA 6  ? ? "C5'" A DA 6  ? ? "C4'" A DA 6  ? ? 102.82 109.40 -6.58  0.80 N 
14 1 "O4'" A DA 6  ? ? "C1'" A DA 6  ? ? N9    A DA 6  ? ? 110.22 108.30 1.92   0.30 N 
15 1 C6    A DA 6  ? ? N1    A DA 6  ? ? C2    A DA 6  ? ? 122.97 118.60 4.37   0.60 N 
16 1 N1    A DA 6  ? ? C2    A DA 6  ? ? N3    A DA 6  ? ? 125.14 129.30 -4.16  0.50 N 
17 1 C5    A DA 6  ? ? C6    A DA 6  ? ? N1    A DA 6  ? ? 114.23 117.70 -3.47  0.50 N 
18 1 C5    A DA 6  ? ? C6    A DA 6  ? ? N6    A DA 6  ? ? 128.62 123.70 4.92   0.80 N 
19 1 "C3'" A DA 6  ? ? "O3'" A DA 6  ? ? P     A DT 7  ? ? 132.70 119.70 13.00  1.20 Y 
20 1 "C3'" A DT 7  ? ? "O3'" A DT 7  ? ? P     A DT 8  ? ? 130.70 119.70 11.00  1.20 Y 
21 1 "O5'" A DT 8  ? ? "C5'" A DT 8  ? ? "C4'" A DT 8  ? ? 103.65 109.40 -5.75  0.80 N 
22 1 C2    A DT 8  ? ? N3    A DT 8  ? ? C4    A DT 8  ? ? 123.49 127.20 -3.71  0.60 N 
23 1 "O5'" A DT 9  ? ? "C5'" A DT 9  ? ? "C4'" A DT 9  ? ? 101.69 109.40 -7.71  0.80 N 
24 1 C2    A DT 9  ? ? N3    A DT 9  ? ? C4    A DT 9  ? ? 122.00 127.20 -5.20  0.60 N 
25 1 N3    A DT 9  ? ? C4    A DT 9  ? ? C5    A DT 9  ? ? 119.66 115.20 4.46   0.60 N 
26 1 "C3'" A DT 9  ? ? "O3'" A DT 9  ? ? P     A DG 10 ? ? 131.31 119.70 11.61  1.20 Y 
27 1 "O5'" A DG 10 ? ? "C5'" A DG 10 ? ? "C4'" A DG 10 ? ? 103.55 109.40 -5.85  0.80 N 
28 1 "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? "C1'" A DG 10 ? ? 94.08  102.40 -8.32  0.80 N 
29 1 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9    A DG 10 ? ? 110.68 108.30 2.38   0.30 N 
30 1 C6    A DG 10 ? ? N1    A DG 10 ? ? C2    A DG 10 ? ? 120.96 125.10 -4.14  0.60 N 
31 1 C5    A DG 10 ? ? C6    A DG 10 ? ? N1    A DG 10 ? ? 115.43 111.50 3.93   0.50 N 
32 1 "O5'" A DC 11 ? ? "C5'" A DC 11 ? ? "C4'" A DC 11 ? ? 104.50 109.40 -4.90  0.80 N 
33 1 "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? "C1'" B DC 13 ? ? 96.97  102.40 -5.43  0.80 N 
34 1 "O5'" B DA 16 ? ? "C5'" B DA 16 ? ? "C4'" B DA 16 ? ? 104.27 109.40 -5.13  0.80 N 
35 1 "O5'" B DA 17 ? ? "C5'" B DA 17 ? ? "C4'" B DA 17 ? ? 103.84 109.40 -5.56  0.80 N 
36 1 P     B DA 17 ? ? "O5'" B DA 17 ? ? "C5'" B DA 17 ? ? 110.56 120.90 -10.34 1.60 N 
37 1 "O4'" B DA 17 ? ? "C1'" B DA 17 ? ? N9    B DA 17 ? ? 110.81 108.30 2.51   0.30 N 
38 1 C6    B DA 17 ? ? N1    B DA 17 ? ? C2    B DA 17 ? ? 122.36 118.60 3.76   0.60 N 
39 1 N1    B DA 17 ? ? C2    B DA 17 ? ? N3    B DA 17 ? ? 125.75 129.30 -3.55  0.50 N 
40 1 "O5'" B DA 18 ? ? "C5'" B DA 18 ? ? "C4'" B DA 18 ? ? 103.97 109.40 -5.43  0.80 N 
41 1 "O4'" B DA 18 ? ? "C1'" B DA 18 ? ? N9    B DA 18 ? ? 111.40 108.30 3.10   0.30 N 
42 1 C6    B DA 18 ? ? N1    B DA 18 ? ? C2    B DA 18 ? ? 123.61 118.60 5.01   0.60 N 
43 1 N1    B DA 18 ? ? C2    B DA 18 ? ? N3    B DA 18 ? ? 125.29 129.30 -4.01  0.50 N 
44 1 C5    B DA 18 ? ? C6    B DA 18 ? ? N1    B DA 18 ? ? 113.80 117.70 -3.90  0.50 N 
45 1 "C3'" B DA 18 ? ? "O3'" B DA 18 ? ? P     B DT 19 ? ? 128.13 119.70 8.43   1.20 Y 
46 1 "O5'" B DT 19 ? ? "C5'" B DT 19 ? ? "C4'" B DT 19 ? ? 102.01 109.40 -7.39  0.80 N 
47 1 P     B DT 19 ? ? "O5'" B DT 19 ? ? "C5'" B DT 19 ? ? 108.90 120.90 -12.00 1.60 N 
48 1 "O4'" B DT 19 ? ? "C1'" B DT 19 ? ? N1    B DT 19 ? ? 110.13 108.30 1.83   0.30 N 
49 1 "C3'" B DT 19 ? ? "O3'" B DT 19 ? ? P     B DT 20 ? ? 131.36 119.70 11.66  1.20 Y 
50 1 "C3'" B DT 20 ? ? "O3'" B DT 20 ? ? P     B DT 21 ? ? 128.44 119.70 8.74   1.20 Y 
51 1 "O5'" B DT 21 ? ? "C5'" B DT 21 ? ? "C4'" B DT 21 ? ? 102.03 109.40 -7.37  0.80 N 
52 1 "O4'" B DT 21 ? ? "C1'" B DT 21 ? ? N1    B DT 21 ? ? 102.51 108.00 -5.49  0.70 N 
53 1 C2    B DT 21 ? ? N3    B DT 21 ? ? C4    B DT 21 ? ? 121.90 127.20 -5.30  0.60 N 
54 1 N3    B DT 21 ? ? C4    B DT 21 ? ? C5    B DT 21 ? ? 119.36 115.20 4.16   0.60 N 
55 1 "C3'" B DG 22 ? ? "C2'" B DG 22 ? ? "C1'" B DG 22 ? ? 96.58  102.40 -5.82  0.80 N 
56 1 "O4'" B DG 22 ? ? "C1'" B DG 22 ? ? N9    B DG 22 ? ? 113.56 108.30 5.26   0.30 N 
57 1 "O5'" B DC 23 ? ? "C5'" B DC 23 ? ? "C4'" B DC 23 ? ? 103.48 109.40 -5.92  0.80 N 
58 1 "O5'" B DG 24 ? ? "C5'" B DG 24 ? ? "C4'" B DG 24 ? ? 104.40 109.40 -5.00  0.80 N 
59 1 "O4'" B DG 24 ? ? "C1'" B DG 24 ? ? N9    B DG 24 ? ? 110.38 108.30 2.08   0.30 N 
60 1 C5    B DG 24 ? ? C6    B DG 24 ? ? N1    B DG 24 ? ? 114.53 111.50 3.03   0.50 N 
# 
_struct_site_keywords.site_id   1 
_struct_site_keywords.text      'MINOR GROOVE BINDER' 
# 
loop_
_refine_B_iso.class 
_refine_B_iso.details 
_refine_B_iso.treatment 
_refine_B_iso.pdbx_refine_id 
'ALL ATOMS'      TR isotropic 'X-RAY DIFFRACTION' 
'ALL WATERS'     TR isotropic 'X-RAY DIFFRACTION' 
'ALL DRUG ATOMS' TR isotropic 'X-RAY DIFFRACTION' 
# 
loop_
_refine_occupancy.class 
_refine_occupancy.treatment 
_refine_occupancy.pdbx_refine_id 
'ALL ATOMS'      fix 'X-RAY DIFFRACTION' 
'ALL WATERS'     fix 'X-RAY DIFFRACTION' 
'ALL DRUG ATOMS' fix 'X-RAY DIFFRACTION' 
# 
loop_
_chem_comp_atom.comp_id 
_chem_comp_atom.atom_id 
_chem_comp_atom.type_symbol 
_chem_comp_atom.pdbx_aromatic_flag 
_chem_comp_atom.pdbx_stereo_config 
_chem_comp_atom.pdbx_ordinal 
BRN C1     C  Y N 1   
BRN C2     C  Y N 2   
BRN C3     C  Y N 3   
BRN C4     C  Y N 4   
BRN C5     C  Y N 5   
BRN C6     C  Y N 6   
BRN C7     C  N N 7   
BRN NA     N  N N 8   
BRN NB     N  N N 9   
BRN N1     N  N N 10  
BRN N      N  N N 11  
BRN "N1'"  N  N N 12  
BRN "C1'"  C  Y N 13  
BRN "C2'"  C  Y N 14  
BRN "C3'"  C  Y N 15  
BRN "C4'"  C  Y N 16  
BRN "C5'"  C  Y N 17  
BRN "C6'"  C  Y N 18  
BRN "C7'"  C  N N 19  
BRN "NA'"  N  N N 20  
BRN "NB'"  N  N N 21  
BRN H2     H  N N 22  
BRN H3     H  N N 23  
BRN H5     H  N N 24  
BRN H6     H  N N 25  
BRN HA     H  N N 26  
BRN HB1    H  N N 27  
BRN HB2    H  N N 28  
BRN HN1    H  N N 29  
BRN "H2'"  H  N N 30  
BRN "H3'"  H  N N 31  
BRN "H5'"  H  N N 32  
BRN "H6'"  H  N N 33  
BRN "HA'"  H  N N 34  
BRN "HB'1" H  N N 35  
BRN "HB'2" H  N N 36  
DA  OP3    O  N N 37  
DA  P      P  N N 38  
DA  OP1    O  N N 39  
DA  OP2    O  N N 40  
DA  "O5'"  O  N N 41  
DA  "C5'"  C  N N 42  
DA  "C4'"  C  N R 43  
DA  "O4'"  O  N N 44  
DA  "C3'"  C  N S 45  
DA  "O3'"  O  N N 46  
DA  "C2'"  C  N N 47  
DA  "C1'"  C  N R 48  
DA  N9     N  Y N 49  
DA  C8     C  Y N 50  
DA  N7     N  Y N 51  
DA  C5     C  Y N 52  
DA  C6     C  Y N 53  
DA  N6     N  N N 54  
DA  N1     N  Y N 55  
DA  C2     C  Y N 56  
DA  N3     N  Y N 57  
DA  C4     C  Y N 58  
DA  HOP3   H  N N 59  
DA  HOP2   H  N N 60  
DA  "H5'"  H  N N 61  
DA  "H5''" H  N N 62  
DA  "H4'"  H  N N 63  
DA  "H3'"  H  N N 64  
DA  "HO3'" H  N N 65  
DA  "H2'"  H  N N 66  
DA  "H2''" H  N N 67  
DA  "H1'"  H  N N 68  
DA  H8     H  N N 69  
DA  H61    H  N N 70  
DA  H62    H  N N 71  
DA  H2     H  N N 72  
DC  OP3    O  N N 73  
DC  P      P  N N 74  
DC  OP1    O  N N 75  
DC  OP2    O  N N 76  
DC  "O5'"  O  N N 77  
DC  "C5'"  C  N N 78  
DC  "C4'"  C  N R 79  
DC  "O4'"  O  N N 80  
DC  "C3'"  C  N S 81  
DC  "O3'"  O  N N 82  
DC  "C2'"  C  N N 83  
DC  "C1'"  C  N R 84  
DC  N1     N  N N 85  
DC  C2     C  N N 86  
DC  O2     O  N N 87  
DC  N3     N  N N 88  
DC  C4     C  N N 89  
DC  N4     N  N N 90  
DC  C5     C  N N 91  
DC  C6     C  N N 92  
DC  HOP3   H  N N 93  
DC  HOP2   H  N N 94  
DC  "H5'"  H  N N 95  
DC  "H5''" H  N N 96  
DC  "H4'"  H  N N 97  
DC  "H3'"  H  N N 98  
DC  "HO3'" H  N N 99  
DC  "H2'"  H  N N 100 
DC  "H2''" H  N N 101 
DC  "H1'"  H  N N 102 
DC  H41    H  N N 103 
DC  H42    H  N N 104 
DC  H5     H  N N 105 
DC  H6     H  N N 106 
DG  OP3    O  N N 107 
DG  P      P  N N 108 
DG  OP1    O  N N 109 
DG  OP2    O  N N 110 
DG  "O5'"  O  N N 111 
DG  "C5'"  C  N N 112 
DG  "C4'"  C  N R 113 
DG  "O4'"  O  N N 114 
DG  "C3'"  C  N S 115 
DG  "O3'"  O  N N 116 
DG  "C2'"  C  N N 117 
DG  "C1'"  C  N R 118 
DG  N9     N  Y N 119 
DG  C8     C  Y N 120 
DG  N7     N  Y N 121 
DG  C5     C  Y N 122 
DG  C6     C  N N 123 
DG  O6     O  N N 124 
DG  N1     N  N N 125 
DG  C2     C  N N 126 
DG  N2     N  N N 127 
DG  N3     N  N N 128 
DG  C4     C  Y N 129 
DG  HOP3   H  N N 130 
DG  HOP2   H  N N 131 
DG  "H5'"  H  N N 132 
DG  "H5''" H  N N 133 
DG  "H4'"  H  N N 134 
DG  "H3'"  H  N N 135 
DG  "HO3'" H  N N 136 
DG  "H2'"  H  N N 137 
DG  "H2''" H  N N 138 
DG  "H1'"  H  N N 139 
DG  H8     H  N N 140 
DG  H1     H  N N 141 
DG  H21    H  N N 142 
DG  H22    H  N N 143 
DT  OP3    O  N N 144 
DT  P      P  N N 145 
DT  OP1    O  N N 146 
DT  OP2    O  N N 147 
DT  "O5'"  O  N N 148 
DT  "C5'"  C  N N 149 
DT  "C4'"  C  N R 150 
DT  "O4'"  O  N N 151 
DT  "C3'"  C  N S 152 
DT  "O3'"  O  N N 153 
DT  "C2'"  C  N N 154 
DT  "C1'"  C  N R 155 
DT  N1     N  N N 156 
DT  C2     C  N N 157 
DT  O2     O  N N 158 
DT  N3     N  N N 159 
DT  C4     C  N N 160 
DT  O4     O  N N 161 
DT  C5     C  N N 162 
DT  C7     C  N N 163 
DT  C6     C  N N 164 
DT  HOP3   H  N N 165 
DT  HOP2   H  N N 166 
DT  "H5'"  H  N N 167 
DT  "H5''" H  N N 168 
DT  "H4'"  H  N N 169 
DT  "H3'"  H  N N 170 
DT  "HO3'" H  N N 171 
DT  "H2'"  H  N N 172 
DT  "H2''" H  N N 173 
DT  "H1'"  H  N N 174 
DT  H3     H  N N 175 
DT  H71    H  N N 176 
DT  H72    H  N N 177 
DT  H73    H  N N 178 
DT  H6     H  N N 179 
HOH O      O  N N 180 
HOH H1     H  N N 181 
HOH H2     H  N N 182 
MG  MG     MG N N 183 
# 
loop_
_chem_comp_bond.comp_id 
_chem_comp_bond.atom_id_1 
_chem_comp_bond.atom_id_2 
_chem_comp_bond.value_order 
_chem_comp_bond.pdbx_aromatic_flag 
_chem_comp_bond.pdbx_stereo_config 
_chem_comp_bond.pdbx_ordinal 
BRN C1    C2     doub Y N 1   
BRN C1    C6     sing Y N 2   
BRN C1    N1     sing N N 3   
BRN C2    C3     sing Y N 4   
BRN C2    H2     sing N N 5   
BRN C3    C4     doub Y N 6   
BRN C3    H3     sing N N 7   
BRN C4    C5     sing Y N 8   
BRN C4    C7     sing N N 9   
BRN C5    C6     doub Y N 10  
BRN C5    H5     sing N N 11  
BRN C6    H6     sing N N 12  
BRN C7    NA     doub N N 13  
BRN C7    NB     sing N N 14  
BRN NA    HA     sing N N 15  
BRN NB    HB1    sing N N 16  
BRN NB    HB2    sing N N 17  
BRN N1    N      sing N N 18  
BRN N1    HN1    sing N N 19  
BRN N     "N1'"  doub N E 20  
BRN "N1'" "C1'"  sing N N 21  
BRN "C1'" "C2'"  doub Y N 22  
BRN "C1'" "C6'"  sing Y N 23  
BRN "C2'" "C3'"  sing Y N 24  
BRN "C2'" "H2'"  sing N N 25  
BRN "C3'" "C4'"  doub Y N 26  
BRN "C3'" "H3'"  sing N N 27  
BRN "C4'" "C5'"  sing Y N 28  
BRN "C4'" "C7'"  sing N N 29  
BRN "C5'" "C6'"  doub Y N 30  
BRN "C5'" "H5'"  sing N N 31  
BRN "C6'" "H6'"  sing N N 32  
BRN "C7'" "NA'"  doub N N 33  
BRN "C7'" "NB'"  sing N N 34  
BRN "NA'" "HA'"  sing N N 35  
BRN "NB'" "HB'1" sing N N 36  
BRN "NB'" "HB'2" sing N N 37  
DA  OP3   P      sing N N 38  
DA  OP3   HOP3   sing N N 39  
DA  P     OP1    doub N N 40  
DA  P     OP2    sing N N 41  
DA  P     "O5'"  sing N N 42  
DA  OP2   HOP2   sing N N 43  
DA  "O5'" "C5'"  sing N N 44  
DA  "C5'" "C4'"  sing N N 45  
DA  "C5'" "H5'"  sing N N 46  
DA  "C5'" "H5''" sing N N 47  
DA  "C4'" "O4'"  sing N N 48  
DA  "C4'" "C3'"  sing N N 49  
DA  "C4'" "H4'"  sing N N 50  
DA  "O4'" "C1'"  sing N N 51  
DA  "C3'" "O3'"  sing N N 52  
DA  "C3'" "C2'"  sing N N 53  
DA  "C3'" "H3'"  sing N N 54  
DA  "O3'" "HO3'" sing N N 55  
DA  "C2'" "C1'"  sing N N 56  
DA  "C2'" "H2'"  sing N N 57  
DA  "C2'" "H2''" sing N N 58  
DA  "C1'" N9     sing N N 59  
DA  "C1'" "H1'"  sing N N 60  
DA  N9    C8     sing Y N 61  
DA  N9    C4     sing Y N 62  
DA  C8    N7     doub Y N 63  
DA  C8    H8     sing N N 64  
DA  N7    C5     sing Y N 65  
DA  C5    C6     sing Y N 66  
DA  C5    C4     doub Y N 67  
DA  C6    N6     sing N N 68  
DA  C6    N1     doub Y N 69  
DA  N6    H61    sing N N 70  
DA  N6    H62    sing N N 71  
DA  N1    C2     sing Y N 72  
DA  C2    N3     doub Y N 73  
DA  C2    H2     sing N N 74  
DA  N3    C4     sing Y N 75  
DC  OP3   P      sing N N 76  
DC  OP3   HOP3   sing N N 77  
DC  P     OP1    doub N N 78  
DC  P     OP2    sing N N 79  
DC  P     "O5'"  sing N N 80  
DC  OP2   HOP2   sing N N 81  
DC  "O5'" "C5'"  sing N N 82  
DC  "C5'" "C4'"  sing N N 83  
DC  "C5'" "H5'"  sing N N 84  
DC  "C5'" "H5''" sing N N 85  
DC  "C4'" "O4'"  sing N N 86  
DC  "C4'" "C3'"  sing N N 87  
DC  "C4'" "H4'"  sing N N 88  
DC  "O4'" "C1'"  sing N N 89  
DC  "C3'" "O3'"  sing N N 90  
DC  "C3'" "C2'"  sing N N 91  
DC  "C3'" "H3'"  sing N N 92  
DC  "O3'" "HO3'" sing N N 93  
DC  "C2'" "C1'"  sing N N 94  
DC  "C2'" "H2'"  sing N N 95  
DC  "C2'" "H2''" sing N N 96  
DC  "C1'" N1     sing N N 97  
DC  "C1'" "H1'"  sing N N 98  
DC  N1    C2     sing N N 99  
DC  N1    C6     sing N N 100 
DC  C2    O2     doub N N 101 
DC  C2    N3     sing N N 102 
DC  N3    C4     doub N N 103 
DC  C4    N4     sing N N 104 
DC  C4    C5     sing N N 105 
DC  N4    H41    sing N N 106 
DC  N4    H42    sing N N 107 
DC  C5    C6     doub N N 108 
DC  C5    H5     sing N N 109 
DC  C6    H6     sing N N 110 
DG  OP3   P      sing N N 111 
DG  OP3   HOP3   sing N N 112 
DG  P     OP1    doub N N 113 
DG  P     OP2    sing N N 114 
DG  P     "O5'"  sing N N 115 
DG  OP2   HOP2   sing N N 116 
DG  "O5'" "C5'"  sing N N 117 
DG  "C5'" "C4'"  sing N N 118 
DG  "C5'" "H5'"  sing N N 119 
DG  "C5'" "H5''" sing N N 120 
DG  "C4'" "O4'"  sing N N 121 
DG  "C4'" "C3'"  sing N N 122 
DG  "C4'" "H4'"  sing N N 123 
DG  "O4'" "C1'"  sing N N 124 
DG  "C3'" "O3'"  sing N N 125 
DG  "C3'" "C2'"  sing N N 126 
DG  "C3'" "H3'"  sing N N 127 
DG  "O3'" "HO3'" sing N N 128 
DG  "C2'" "C1'"  sing N N 129 
DG  "C2'" "H2'"  sing N N 130 
DG  "C2'" "H2''" sing N N 131 
DG  "C1'" N9     sing N N 132 
DG  "C1'" "H1'"  sing N N 133 
DG  N9    C8     sing Y N 134 
DG  N9    C4     sing Y N 135 
DG  C8    N7     doub Y N 136 
DG  C8    H8     sing N N 137 
DG  N7    C5     sing Y N 138 
DG  C5    C6     sing N N 139 
DG  C5    C4     doub Y N 140 
DG  C6    O6     doub N N 141 
DG  C6    N1     sing N N 142 
DG  N1    C2     sing N N 143 
DG  N1    H1     sing N N 144 
DG  C2    N2     sing N N 145 
DG  C2    N3     doub N N 146 
DG  N2    H21    sing N N 147 
DG  N2    H22    sing N N 148 
DG  N3    C4     sing N N 149 
DT  OP3   P      sing N N 150 
DT  OP3   HOP3   sing N N 151 
DT  P     OP1    doub N N 152 
DT  P     OP2    sing N N 153 
DT  P     "O5'"  sing N N 154 
DT  OP2   HOP2   sing N N 155 
DT  "O5'" "C5'"  sing N N 156 
DT  "C5'" "C4'"  sing N N 157 
DT  "C5'" "H5'"  sing N N 158 
DT  "C5'" "H5''" sing N N 159 
DT  "C4'" "O4'"  sing N N 160 
DT  "C4'" "C3'"  sing N N 161 
DT  "C4'" "H4'"  sing N N 162 
DT  "O4'" "C1'"  sing N N 163 
DT  "C3'" "O3'"  sing N N 164 
DT  "C3'" "C2'"  sing N N 165 
DT  "C3'" "H3'"  sing N N 166 
DT  "O3'" "HO3'" sing N N 167 
DT  "C2'" "C1'"  sing N N 168 
DT  "C2'" "H2'"  sing N N 169 
DT  "C2'" "H2''" sing N N 170 
DT  "C1'" N1     sing N N 171 
DT  "C1'" "H1'"  sing N N 172 
DT  N1    C2     sing N N 173 
DT  N1    C6     sing N N 174 
DT  C2    O2     doub N N 175 
DT  C2    N3     sing N N 176 
DT  N3    C4     sing N N 177 
DT  N3    H3     sing N N 178 
DT  C4    O4     doub N N 179 
DT  C4    C5     sing N N 180 
DT  C5    C7     sing N N 181 
DT  C5    C6     doub N N 182 
DT  C7    H71    sing N N 183 
DT  C7    H72    sing N N 184 
DT  C7    H73    sing N N 185 
DT  C6    H6     sing N N 186 
HOH O     H1     sing N N 187 
HOH O     H2     sing N N 188 
# 
_ndb_struct_conf_na.entry_id   1D63 
_ndb_struct_conf_na.feature    'b-form double helix' 
# 
loop_
_ndb_struct_na_base_pair.model_number 
_ndb_struct_na_base_pair.i_label_asym_id 
_ndb_struct_na_base_pair.i_label_comp_id 
_ndb_struct_na_base_pair.i_label_seq_id 
_ndb_struct_na_base_pair.i_symmetry 
_ndb_struct_na_base_pair.j_label_asym_id 
_ndb_struct_na_base_pair.j_label_comp_id 
_ndb_struct_na_base_pair.j_label_seq_id 
_ndb_struct_na_base_pair.j_symmetry 
_ndb_struct_na_base_pair.shear 
_ndb_struct_na_base_pair.stretch 
_ndb_struct_na_base_pair.stagger 
_ndb_struct_na_base_pair.buckle 
_ndb_struct_na_base_pair.propeller 
_ndb_struct_na_base_pair.opening 
_ndb_struct_na_base_pair.pair_number 
_ndb_struct_na_base_pair.pair_name 
_ndb_struct_na_base_pair.i_auth_asym_id 
_ndb_struct_na_base_pair.i_auth_seq_id 
_ndb_struct_na_base_pair.i_PDB_ins_code 
_ndb_struct_na_base_pair.j_auth_asym_id 
_ndb_struct_na_base_pair.j_auth_seq_id 
_ndb_struct_na_base_pair.j_PDB_ins_code 
_ndb_struct_na_base_pair.hbond_type_28 
_ndb_struct_na_base_pair.hbond_type_12 
1 A DC 1  1_555 B DG 12 1_555 0.138  -0.127 -0.142 6.727  -12.201 -0.903 1  A_DC1:DG24_B  A 1  ? B 24 ? 19 1 
1 A DG 2  1_555 B DC 11 1_555 -0.223 -0.196 0.248  0.535  -12.462 -3.691 2  A_DG2:DC23_B  A 2  ? B 23 ? 19 1 
1 A DC 3  1_555 B DG 10 1_555 -0.215 -0.059 0.279  -5.475 -7.477  0.505  3  A_DC3:DG22_B  A 3  ? B 22 ? 19 1 
1 A DA 4  1_555 B DT 9  1_555 -0.245 -0.130 -0.139 10.114 -12.592 0.377  4  A_DA4:DT21_B  A 4  ? B 21 ? 20 1 
1 A DA 5  1_555 B DT 8  1_555 0.167  -0.095 -0.096 11.099 -22.653 0.709  5  A_DA5:DT20_B  A 5  ? B 20 ? 20 1 
1 A DA 6  1_555 B DT 7  1_555 0.116  -0.137 0.328  5.412  -18.310 2.006  6  A_DA6:DT19_B  A 6  ? B 19 ? 20 1 
1 A DT 7  1_555 B DA 6  1_555 -0.098 -0.096 0.147  -0.972 -18.450 0.360  7  A_DT7:DA18_B  A 7  ? B 18 ? 20 1 
1 A DT 8  1_555 B DA 5  1_555 -0.166 -0.088 0.177  -8.982 -18.084 -3.099 8  A_DT8:DA17_B  A 8  ? B 17 ? 20 1 
1 A DT 9  1_555 B DA 4  1_555 -0.103 -0.038 0.044  -9.769 -12.111 -3.461 9  A_DT9:DA16_B  A 9  ? B 16 ? 20 1 
1 A DG 10 1_555 B DC 3  1_555 -0.081 -0.076 0.018  8.007  -5.137  0.345  10 A_DG10:DC15_B A 10 ? B 15 ? 19 1 
1 A DC 11 1_555 B DG 2  1_555 0.005  -0.181 0.420  3.967  -21.588 -4.154 11 A_DC11:DG14_B A 11 ? B 14 ? 19 1 
1 A DG 12 1_555 B DC 1  1_555 -0.146 -0.152 -0.048 7.707  11.556  -3.391 12 A_DG12:DC13_B A 12 ? B 13 ? 19 1 
# 
loop_
_ndb_struct_na_base_pair_step.model_number 
_ndb_struct_na_base_pair_step.i_label_asym_id_1 
_ndb_struct_na_base_pair_step.i_label_comp_id_1 
_ndb_struct_na_base_pair_step.i_label_seq_id_1 
_ndb_struct_na_base_pair_step.i_symmetry_1 
_ndb_struct_na_base_pair_step.j_label_asym_id_1 
_ndb_struct_na_base_pair_step.j_label_comp_id_1 
_ndb_struct_na_base_pair_step.j_label_seq_id_1 
_ndb_struct_na_base_pair_step.j_symmetry_1 
_ndb_struct_na_base_pair_step.i_label_asym_id_2 
_ndb_struct_na_base_pair_step.i_label_comp_id_2 
_ndb_struct_na_base_pair_step.i_label_seq_id_2 
_ndb_struct_na_base_pair_step.i_symmetry_2 
_ndb_struct_na_base_pair_step.j_label_asym_id_2 
_ndb_struct_na_base_pair_step.j_label_comp_id_2 
_ndb_struct_na_base_pair_step.j_label_seq_id_2 
_ndb_struct_na_base_pair_step.j_symmetry_2 
_ndb_struct_na_base_pair_step.shift 
_ndb_struct_na_base_pair_step.slide 
_ndb_struct_na_base_pair_step.rise 
_ndb_struct_na_base_pair_step.tilt 
_ndb_struct_na_base_pair_step.roll 
_ndb_struct_na_base_pair_step.twist 
_ndb_struct_na_base_pair_step.x_displacement 
_ndb_struct_na_base_pair_step.y_displacement 
_ndb_struct_na_base_pair_step.helical_rise 
_ndb_struct_na_base_pair_step.inclination 
_ndb_struct_na_base_pair_step.tip 
_ndb_struct_na_base_pair_step.helical_twist 
_ndb_struct_na_base_pair_step.step_number 
_ndb_struct_na_base_pair_step.step_name 
_ndb_struct_na_base_pair_step.i_auth_asym_id_1 
_ndb_struct_na_base_pair_step.i_auth_seq_id_1 
_ndb_struct_na_base_pair_step.i_PDB_ins_code_1 
_ndb_struct_na_base_pair_step.j_auth_asym_id_1 
_ndb_struct_na_base_pair_step.j_auth_seq_id_1 
_ndb_struct_na_base_pair_step.j_PDB_ins_code_1 
_ndb_struct_na_base_pair_step.i_auth_asym_id_2 
_ndb_struct_na_base_pair_step.i_auth_seq_id_2 
_ndb_struct_na_base_pair_step.i_PDB_ins_code_2 
_ndb_struct_na_base_pair_step.j_auth_asym_id_2 
_ndb_struct_na_base_pair_step.j_auth_seq_id_2 
_ndb_struct_na_base_pair_step.j_PDB_ins_code_2 
1 A DC 1  1_555 B DG 12 1_555 A DG 2  1_555 B DC 11 1_555 0.041  0.315  3.531 -1.564 3.832  36.380 -0.070 -0.298 3.540 6.114   
2.495  36.607 1  AA_DC1DG2:DC23DG24_BB   A 1  ? B 24 ? A 2  ? B 23 ? 
1 A DG 2  1_555 B DC 11 1_555 A DC 3  1_555 B DG 10 1_555 0.597  0.152  3.518 1.856  -3.950 38.433 0.752  -0.655 3.510 -5.977  
-2.809 38.671 2  AA_DG2DC3:DG22DC23_BB   A 2  ? B 23 ? A 3  ? B 22 ? 
1 A DC 3  1_555 B DG 10 1_555 A DA 4  1_555 B DT 9  1_555 -0.146 0.660  3.083 4.525  5.797  28.079 0.092  1.248  3.094 11.696  
-9.130 29.007 3  AA_DC3DA4:DT21DG22_BB   A 3  ? B 22 ? A 4  ? B 21 ? 
1 A DA 4  1_555 B DT 9  1_555 A DA 5  1_555 B DT 8  1_555 0.011  0.223  3.316 0.499  2.259  37.539 0.047  0.048  3.323 3.507   
-0.775 37.608 4  AA_DA4DA5:DT20DT21_BB   A 4  ? B 21 ? A 5  ? B 20 ? 
1 A DA 5  1_555 B DT 8  1_555 A DA 6  1_555 B DT 7  1_555 0.239  -0.361 3.252 -4.708 3.655  37.838 -1.002 -0.947 3.153 5.593   
7.206  38.287 5  AA_DA5DA6:DT19DT20_BB   A 5  ? B 20 ? A 6  ? B 19 ? 
1 A DA 6  1_555 B DT 7  1_555 A DT 7  1_555 B DA 6  1_555 -0.163 -0.902 3.452 1.547  2.006  30.060 -2.161 0.642  3.374 3.859   
-2.975 30.164 6  AA_DA6DT7:DA18DT19_BB   A 6  ? B 19 ? A 7  ? B 18 ? 
1 A DT 7  1_555 B DA 6  1_555 A DT 8  1_555 B DA 5  1_555 -0.333 -0.200 3.426 0.134  1.576  38.464 -0.508 0.523  3.415 2.391   
-0.203 38.495 7  AA_DT7DT8:DA17DA18_BB   A 7  ? B 18 ? A 8  ? B 17 ? 
1 A DT 8  1_555 B DA 5  1_555 A DT 9  1_555 B DA 4  1_555 -0.005 0.050  3.299 2.191  -4.091 35.679 0.668  0.323  3.267 -6.643  
-3.557 35.970 8  AA_DT8DT9:DA16DA17_BB   A 8  ? B 17 ? A 9  ? B 16 ? 
1 A DT 9  1_555 B DA 4  1_555 A DG 10 1_555 B DC 3  1_555 0.658  1.391  3.106 0.730  0.808  32.761 2.332  -1.046 3.152 1.433   
-1.294 32.778 9  AA_DT9DG10:DC15DA16_BB  A 9  ? B 16 ? A 10 ? B 15 ? 
1 A DG 10 1_555 B DC 3  1_555 A DC 11 1_555 B DG 2  1_555 -0.981 0.624  3.491 -4.399 -8.548 40.966 1.814  0.882  3.384 -12.014 
6.183  42.031 10 AA_DG10DC11:DG14DC15_BB A 10 ? B 15 ? A 11 ? B 14 ? 
1 A DC 11 1_555 B DG 2  1_555 A DG 12 1_555 B DC 1  1_555 0.709  0.602  3.451 4.280  -6.350 38.191 1.715  -0.517 3.369 -9.588  
-6.462 38.923 11 AA_DC11DG12:DC13DG14_BB A 11 ? B 14 ? A 12 ? B 13 ? 
# 
_atom_sites.entry_id                    1D63 
_atom_sites.fract_transf_matrix[1][1]   0.040584 
_atom_sites.fract_transf_matrix[1][2]   0.000000 
_atom_sites.fract_transf_matrix[1][3]   0.000000 
_atom_sites.fract_transf_matrix[2][1]   0.000000 
_atom_sites.fract_transf_matrix[2][2]   0.024625 
_atom_sites.fract_transf_matrix[2][3]   0.000000 
_atom_sites.fract_transf_matrix[3][1]   0.000000 
_atom_sites.fract_transf_matrix[3][2]   0.000000 
_atom_sites.fract_transf_matrix[3][3]   0.015368 
_atom_sites.fract_transf_vector[1]      0.00000 
_atom_sites.fract_transf_vector[2]      0.00000 
_atom_sites.fract_transf_vector[3]      0.00000 
# 
loop_
_atom_type.symbol 
C  
MG 
N  
O  
P  
# 
loop_