data_3U38
# 
_entry.id   3U38 
# 
_audit_conform.dict_name       mmcif_pdbx.dic 
_audit_conform.dict_version    5.388 
_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   3U38         pdb_00003u38 10.2210/pdb3u38/pdb 
NDB   NA1340       ?            ?                   
RCSB  RCSB068249   ?            ?                   
WWPDB D_1000068249 ?            ?                   
# 
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 2012-07-04 
2 'Structure model' 1 1 2013-05-01 
3 'Structure model' 1 2 2013-07-10 
4 'Structure model' 1 3 2024-03-20 
# 
_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' 'Non-polymer description' 
2 3 'Structure model' 'Database references'     
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_comp_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_label_atom_id' 
7  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 
8  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id'  
9  4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id'  
10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id'   
11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 
12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 
13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 
14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id'  
15 4 'Structure model' '_pdbx_struct_conn_angle.value'               
16 4 'Structure model' '_struct_conn.pdbx_dist_value'                
17 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id'             
18 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id'              
19 4 'Structure model' '_struct_conn.ptnr1_label_asym_id'            
20 4 'Structure model' '_struct_conn.ptnr1_label_atom_id'            
21 4 'Structure model' '_struct_conn.ptnr1_label_comp_id'            
22 4 'Structure model' '_struct_conn.ptnr1_label_seq_id'             
23 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id'             
24 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id'              
25 4 'Structure model' '_struct_conn.ptnr2_label_asym_id'            
26 4 'Structure model' '_struct_conn.ptnr2_label_atom_id'            
27 4 'Structure model' '_struct_conn.ptnr2_label_comp_id'            
28 4 'Structure model' '_struct_site.pdbx_auth_asym_id'              
29 4 'Structure model' '_struct_site.pdbx_auth_comp_id'              
30 4 'Structure model' '_struct_site.pdbx_auth_seq_id'               
# 
_pdbx_database_status.status_code                     REL 
_pdbx_database_status.entry_id                        3U38 
_pdbx_database_status.recvd_initial_deposition_date   2011-10-05 
_pdbx_database_status.deposit_site                    RCSB 
_pdbx_database_status.process_site                    PDBJ 
_pdbx_database_status.status_code_sf                  REL 
_pdbx_database_status.status_code_mr                  ? 
_pdbx_database_status.SG_entry                        ? 
_pdbx_database_status.status_code_cs                  ? 
_pdbx_database_status.methods_development_category    ? 
_pdbx_database_status.pdb_format_compatible           Y 
_pdbx_database_status.status_code_nmr_data            ? 
# 
loop_
_pdbx_database_related.db_name 
_pdbx_database_related.db_id 
_pdbx_database_related.details 
_pdbx_database_related.content_type 
PDB 3QRN 'Atomic resolution model of lam-[Ru(TAP)2(dppz)]2+ into d(TCGGCGCCGA)2' unspecified 
PDB 3QF8 'Medium resolution model of lam-[Ru(TAP)2(dppz)]2+ into d(TCGGCGCCGA)2' unspecified 
# 
loop_
_audit_author.name 
_audit_author.pdbx_ordinal 
'Cardin, C.J.' 1 
'Hall, J.P.'   2 
'Niyazi, H.'   3 
# 
_citation.id                        primary 
_citation.title                     
'Crystal structures of lambda-[Ru(phen)2dppz]2+ with oligonucleotides containing TA/TA and AT/AT steps show two intercalation modes' 
_citation.journal_abbrev            'Nat Chem' 
_citation.journal_volume            4 
_citation.page_first                621 
_citation.page_last                 628 
_citation.year                      2012 
_citation.journal_id_ASTM           ? 
_citation.country                   UK 
_citation.journal_id_ISSN           1755-4349 
_citation.journal_id_CSD            ? 
_citation.book_publisher            ? 
_citation.pdbx_database_id_PubMed   22824893 
_citation.pdbx_database_id_DOI      10.1038/nchem.1397 
# 
loop_
_citation_author.citation_id 
_citation_author.name 
_citation_author.ordinal 
_citation_author.identifier_ORCID 
primary 'Niyazi, H.'     1 ? 
primary 'Hall, J.P.'     2 ? 
primary 
;O'Sullivan, K.
;
3 ? 
primary 'Winter, G.'     4 ? 
primary 'Sorensen, T.'   5 ? 
primary 'Kelly, J.M.'    6 ? 
primary 'Cardin, C.J.'   7 ? 
# 
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 "5'-D(*CP*CP*GP*GP*TP*AP*CP*CP*GP*G)-3'" 3045.992 1  ? ? ? ? 
2 non-polymer syn 'Lambda-Ru(phen)2(dppz) complex'         743.779  2  ? ? ? ? 
3 non-polymer syn 'BARIUM ION'                             137.327  1  ? ? ? ? 
4 water       nat water                                    18.015   19 ? ? ? ? 
# 
_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)(DC)(DG)(DG)(DT)(DA)(DC)(DC)(DG)(DG)' 
_entity_poly.pdbx_seq_one_letter_code_can   CCGGTACCGG 
_entity_poly.pdbx_strand_id                 A 
_entity_poly.pdbx_target_identifier         ? 
# 
loop_
_pdbx_entity_nonpoly.entity_id 
_pdbx_entity_nonpoly.name 
_pdbx_entity_nonpoly.comp_id 
2 'Lambda-Ru(phen)2(dppz) complex' RKP 
3 'BARIUM ION'                     BA  
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  DC n 
1 3  DG n 
1 4  DG n 
1 5  DT n 
1 6  DA n 
1 7  DC n 
1 8  DC n 
1 9  DG n 
1 10 DG n 
# 
_pdbx_entity_src_syn.entity_id              1 
_pdbx_entity_src_syn.pdbx_src_id            1 
_pdbx_entity_src_syn.pdbx_alt_source_flag   sample 
_pdbx_entity_src_syn.pdbx_beg_seq_num       ? 
_pdbx_entity_src_syn.pdbx_end_seq_num       ? 
_pdbx_entity_src_syn.organism_scientific    ? 
_pdbx_entity_src_syn.organism_common_name   ? 
_pdbx_entity_src_syn.ncbi_taxonomy_id       ? 
_pdbx_entity_src_syn.details                'Oligo purchased from ATD Bio' 
# 
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 
BA  non-polymer   . 'BARIUM ION'                         ? 'Ba 2'            137.327 
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  
RKP non-polymer   . 'Lambda-Ru(phen)2(dppz) complex'     ? 'C42 H26 N8 Ru'   743.779 
# 
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 DC A . n 
A 1 2  DC 2  2  2  DC DC A . n 
A 1 3  DG 3  3  3  DG DG A . n 
A 1 4  DG 4  4  4  DG DG A . n 
A 1 5  DT 5  5  5  DT DT A . n 
A 1 6  DA 6  6  6  DA DA A . n 
A 1 7  DC 7  7  7  DC DC A . n 
A 1 8  DC 8  8  8  DC DC A . n 
A 1 9  DG 9  9  9  DG DG A . n 
A 1 10 DG 10 10 10 DG DG A . 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 
B 2 RKP 1  101 14 RKP RKP A . 
C 2 RKP 1  102 13 RKP RKP A . 
D 3 BA  1  103 11 BA  BA  A . 
E 4 HOH 1  201 12 HOH HOH A . 
E 4 HOH 2  202 15 HOH HOH A . 
E 4 HOH 3  203 16 HOH HOH A . 
E 4 HOH 4  204 17 HOH HOH A . 
E 4 HOH 5  205 18 HOH HOH A . 
E 4 HOH 6  206 19 HOH HOH A . 
E 4 HOH 7  207 20 HOH HOH A . 
E 4 HOH 8  208 21 HOH HOH A . 
E 4 HOH 9  209 22 HOH HOH A . 
E 4 HOH 10 210 23 HOH HOH A . 
E 4 HOH 11 211 24 HOH HOH A . 
E 4 HOH 12 212 25 HOH HOH A . 
E 4 HOH 13 213 26 HOH HOH A . 
E 4 HOH 14 214 27 HOH HOH A . 
E 4 HOH 15 215 28 HOH HOH A . 
E 4 HOH 16 216 32 HOH HOH A . 
E 4 HOH 17 217 35 HOH HOH A . 
E 4 HOH 18 218 37 HOH HOH A . 
E 4 HOH 19 219 38 HOH HOH A . 
# 
_software.name             REFMAC 
_software.classification   refinement 
_software.version          5.6.0117 
_software.citation_id      ? 
_software.pdbx_ordinal     1 
# 
_cell.entry_id           3U38 
_cell.length_a           52.560 
_cell.length_b           52.560 
_cell.length_c           32.430 
_cell.angle_alpha        90.00 
_cell.angle_beta         90.00 
_cell.angle_gamma        90.00 
_cell.Z_PDB              8 
_cell.pdbx_unique_axis   ? 
_cell.length_a_esd       ? 
_cell.length_b_esd       ? 
_cell.length_c_esd       ? 
_cell.angle_alpha_esd    ? 
_cell.angle_beta_esd     ? 
_cell.angle_gamma_esd    ? 
# 
_symmetry.entry_id                         3U38 
_symmetry.space_group_name_H-M             'P 43 21 2' 
_symmetry.pdbx_full_space_group_name_H-M   ? 
_symmetry.cell_setting                     ? 
_symmetry.Int_Tables_number                96 
_symmetry.space_group_name_Hall            ? 
# 
_exptl.entry_id          3U38 
_exptl.method            'X-RAY DIFFRACTION' 
_exptl.crystals_number   1 
# 
_exptl_crystal.id                    1 
_exptl_crystal.density_meas          ? 
_exptl_crystal.density_Matthews      3.68 
_exptl_crystal.density_percent_sol   66.54 
_exptl_crystal.description           ? 
_exptl_crystal.F_000                 ? 
_exptl_crystal.preparation           ? 
# 
_exptl_crystal_grow.crystal_id      1 
_exptl_crystal_grow.method          'VAPOR DIFFUSION, SITTING DROP' 
_exptl_crystal_grow.temp            298 
_exptl_crystal_grow.temp_details    ? 
_exptl_crystal_grow.pH              7 
_exptl_crystal_grow.pdbx_details    
;40mM pH 7 sodium cacodylate, 12mM spermine, 20mM BaCl2, 10% 2-methyl-2,4-pentanediol, 1mM oligonuclotide, 3mM lambda-[Ru(phenanthroline)2dipyridophenazine]Cl2, VAPOR DIFFUSION, SITTING DROP, temperature 298K
;
_exptl_crystal_grow.pdbx_pH_range   . 
# 
_diffrn.id                     1 
_diffrn.ambient_temp           100 
_diffrn.ambient_temp_details   ? 
_diffrn.crystal_id             1 
# 
_diffrn_detector.diffrn_id              1 
_diffrn_detector.detector               CCD 
_diffrn_detector.type                   'ADSC QUANTUM 315r' 
_diffrn_detector.pdbx_collection_date   2011-09-19 
_diffrn_detector.details                ? 
# 
_diffrn_radiation.diffrn_id                        1 
_diffrn_radiation.wavelength_id                    1 
_diffrn_radiation.pdbx_monochromatic_or_laue_m_l   M 
_diffrn_radiation.monochromator                    'Dual Si crystal' 
_diffrn_radiation.pdbx_diffrn_protocol             'SINGLE WAVELENGTH' 
_diffrn_radiation.pdbx_scattering_type             x-ray 
# 
_diffrn_radiation_wavelength.id           1 
_diffrn_radiation_wavelength.wavelength   0.9464 
_diffrn_radiation_wavelength.wt           1.0 
# 
_diffrn_source.diffrn_id                   1 
_diffrn_source.source                      SYNCHROTRON 
_diffrn_source.type                        'DIAMOND BEAMLINE I04' 
_diffrn_source.pdbx_synchrotron_site       Diamond 
_diffrn_source.pdbx_synchrotron_beamline   I04 
_diffrn_source.pdbx_wavelength             ? 
_diffrn_source.pdbx_wavelength_list        0.9464 
# 
_reflns.entry_id                     3U38 
_reflns.observed_criterion_sigma_I   1.0 
_reflns.observed_criterion_sigma_F   2.5 
_reflns.d_resolution_low             52.55 
_reflns.d_resolution_high            2.10 
_reflns.number_obs                   2783 
_reflns.number_all                   2908 
_reflns.percent_possible_obs         95.7 
_reflns.pdbx_Rmerge_I_obs            ? 
_reflns.pdbx_Rsym_value              ? 
_reflns.pdbx_netI_over_sigmaI        ? 
_reflns.B_iso_Wilson_estimate        ? 
_reflns.pdbx_redundancy              ? 
_reflns.R_free_details               ? 
_reflns.limit_h_max                  ? 
_reflns.limit_h_min                  ? 
_reflns.limit_k_max                  ? 
_reflns.limit_k_min                  ? 
_reflns.limit_l_max                  ? 
_reflns.limit_l_min                  ? 
_reflns.observed_criterion_F_max     ? 
_reflns.observed_criterion_F_min     ? 
_reflns.pdbx_chi_squared             ? 
_reflns.pdbx_scaling_rejects         ? 
_reflns.pdbx_ordinal                 1 
_reflns.pdbx_diffrn_id               1 
# 
_reflns_shell.d_res_high                  2.10 
_reflns_shell.d_res_low                   2.16 
_reflns_shell.percent_possible_all        100 
_reflns_shell.Rmerge_I_obs                ? 
_reflns_shell.pdbx_Rsym_value             ? 
_reflns_shell.meanI_over_sigI_obs         ? 
_reflns_shell.pdbx_redundancy             ? 
_reflns_shell.percent_possible_obs        ? 
_reflns_shell.number_unique_all           ? 
_reflns_shell.number_measured_all         ? 
_reflns_shell.number_measured_obs         ? 
_reflns_shell.number_unique_obs           ? 
_reflns_shell.pdbx_chi_squared            ? 
_reflns_shell.pdbx_rejects                ? 
_reflns_shell.pdbx_netI_over_sigmaI_obs   ? 
_reflns_shell.number_possible             ? 
_reflns_shell.Rmerge_F_all                ? 
_reflns_shell.Rmerge_F_obs                ? 
_reflns_shell.Rmerge_I_all                ? 
_reflns_shell.meanI_over_sigI_all         ? 
_reflns_shell.pdbx_Rrim_I_all             ? 
_reflns_shell.pdbx_Rpim_I_all             ? 
_reflns_shell.pdbx_ordinal                1 
_reflns_shell.pdbx_diffrn_id              1 
# 
_refine.entry_id                                 3U38 
_refine.ls_number_reflns_obs                     2610 
_refine.ls_number_reflns_all                     2764 
_refine.pdbx_ls_sigma_I                          ? 
_refine.pdbx_ls_sigma_F                          ? 
_refine.pdbx_data_cutoff_high_absF               ? 
_refine.pdbx_data_cutoff_low_absF                ? 
_refine.pdbx_data_cutoff_high_rms_absF           ? 
_refine.ls_d_res_low                             14.86 
_refine.ls_d_res_high                            2.13 
_refine.ls_percent_reflns_obs                    98.59 
_refine.ls_R_factor_obs                          0.17879 
_refine.ls_R_factor_all                          ? 
_refine.ls_R_factor_R_work                       0.17623 
_refine.ls_R_factor_R_free                       0.23152 
_refine.ls_R_factor_R_free_error                 ? 
_refine.ls_R_factor_R_free_error_details         ? 
_refine.ls_percent_reflns_R_free                 4.6 
_refine.ls_number_reflns_R_free                  126 
_refine.ls_number_parameters                     ? 
_refine.ls_number_restraints                     ? 
_refine.occupancy_min                            ? 
_refine.occupancy_max                            ? 
_refine.correlation_coeff_Fo_to_Fc               0.967 
_refine.correlation_coeff_Fo_to_Fc_free          0.940 
_refine.B_iso_mean                               40.415 
_refine.aniso_B[1][1]                            0.02 
_refine.aniso_B[2][2]                            0.02 
_refine.aniso_B[3][3]                            -0.05 
_refine.aniso_B[1][2]                            0.00 
_refine.aniso_B[1][3]                            0.00 
_refine.aniso_B[2][3]                            0.00 
_refine.solvent_model_details                    MASK 
_refine.solvent_model_param_ksol                 ? 
_refine.solvent_model_param_bsol                 ? 
_refine.pdbx_solvent_vdw_probe_radii             1.20 
_refine.pdbx_solvent_ion_probe_radii             0.80 
_refine.pdbx_solvent_shrinkage_radii             0.80 
_refine.pdbx_ls_cross_valid_method               THROUGHOUT 
_refine.details                                  'HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT' 
_refine.pdbx_starting_model                      ? 
_refine.pdbx_method_to_determine_struct          SAD 
_refine.pdbx_isotropic_thermal_model             ? 
_refine.pdbx_stereochemistry_target_values       'MAXIMUM LIKELIHOOD' 
_refine.pdbx_stereochem_target_val_spec_case     ? 
_refine.pdbx_R_Free_selection_details            RANDOM 
_refine.pdbx_overall_ESU_R_Free                  0.182 
_refine.overall_SU_ML                            0.127 
_refine.pdbx_overall_phase_error                 ? 
_refine.overall_SU_B                             5.027 
_refine.overall_SU_R_Cruickshank_DPI             ? 
_refine.ls_redundancy_reflns_obs                 ? 
_refine.B_iso_min                                ? 
_refine.B_iso_max                                ? 
_refine.overall_SU_R_free                        ? 
_refine.ls_wR_factor_R_free                      ? 
_refine.ls_wR_factor_R_work                      ? 
_refine.overall_FOM_free_R_set                   ? 
_refine.overall_FOM_work_R_set                   ? 
_refine.pdbx_diffrn_id                           1 
_refine.pdbx_refine_id                           'X-RAY DIFFRACTION' 
_refine.pdbx_overall_ESU_R                       0.200 
_refine.pdbx_TLS_residual_ADP_flag               ? 
_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   202 
_refine_hist.pdbx_number_atoms_ligand         103 
_refine_hist.number_atoms_solvent             19 
_refine_hist.number_atoms_total               324 
_refine_hist.d_res_high                       2.13 
_refine_hist.d_res_low                        14.86 
# 
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 
r_bond_refined_d             0.012 0.014 ? 370 'X-RAY DIFFRACTION' ? 
r_bond_other_d               ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_angle_refined_deg          2.972 1.927 ? 579 'X-RAY DIFFRACTION' ? 
r_angle_other_deg            ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_dihedral_angle_1_deg       ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_dihedral_angle_2_deg       ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_dihedral_angle_3_deg       ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_dihedral_angle_4_deg       ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_chiral_restr               0.086 0.200 ? 33  'X-RAY DIFFRACTION' ? 
r_gen_planes_refined         0.021 0.020 ? 220 'X-RAY DIFFRACTION' ? 
r_gen_planes_other           ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_nbd_refined                ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_nbd_other                  ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_nbtor_refined              ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_nbtor_other                ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_xyhbond_nbd_refined        ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_xyhbond_nbd_other          ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_metal_ion_refined          ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_metal_ion_other            ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_symmetry_vdw_refined       ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_symmetry_vdw_other         ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_symmetry_hbond_refined     ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_symmetry_hbond_other       ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_symmetry_metal_ion_refined ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_symmetry_metal_ion_other   ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_mcbond_it                  ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_mcbond_other               ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_mcangle_it                 ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_scbond_it                  ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_scangle_it                 ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_rigid_bond_restr           ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_sphericity_free            ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
r_sphericity_bonded          ?     ?     ? ?   'X-RAY DIFFRACTION' ? 
# 
_refine_ls_shell.pdbx_refine_id                   'X-RAY DIFFRACTION' 
_refine_ls_shell.pdbx_total_number_of_bins_used   20 
_refine_ls_shell.d_res_high                       2.133 
_refine_ls_shell.d_res_low                        2.187 
_refine_ls_shell.number_reflns_R_work             152 
_refine_ls_shell.R_factor_R_work                  0.274 
_refine_ls_shell.percent_reflns_obs               97.53 
_refine_ls_shell.R_factor_R_free                  0.238 
_refine_ls_shell.R_factor_R_free_error            ? 
_refine_ls_shell.percent_reflns_R_free            ? 
_refine_ls_shell.number_reflns_R_free             6 
_refine_ls_shell.number_reflns_all                ? 
_refine_ls_shell.R_factor_all                     ? 
_refine_ls_shell.number_reflns_obs                ? 
_refine_ls_shell.redundancy_reflns_obs            ? 
# 
_database_PDB_matrix.entry_id          3U38 
_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                  3U38 
_struct.title                     'Intercalation of lambda-[Ru(phen)2(dppz)]2+ into d(CCGGTACCGG)2' 
_struct.pdbx_model_details        ? 
_struct.pdbx_CASP_flag            ? 
_struct.pdbx_model_type_details   ? 
# 
_struct_keywords.entry_id        3U38 
_struct_keywords.pdbx_keywords   DNA 
_struct_keywords.text            'B-DNA, Ruthenium, 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 2 ? 
C N N 2 ? 
D N N 3 ? 
E N N 4 ? 
# 
_struct_ref.id                         1 
_struct_ref.db_name                    PDB 
_struct_ref.db_code                    3U38 
_struct_ref.pdbx_db_accession          3U38 
_struct_ref.entity_id                  1 
_struct_ref.pdbx_align_begin           ? 
_struct_ref.pdbx_seq_one_letter_code   ? 
_struct_ref.pdbx_db_isoform            ? 
# 
_struct_ref_seq.align_id                      1 
_struct_ref_seq.ref_id                        1 
_struct_ref_seq.pdbx_PDB_id_code              3U38 
_struct_ref_seq.pdbx_strand_id                A 
_struct_ref_seq.seq_align_beg                 1 
_struct_ref_seq.pdbx_seq_align_beg_ins_code   ? 
_struct_ref_seq.seq_align_end                 10 
_struct_ref_seq.pdbx_seq_align_end_ins_code   ? 
_struct_ref_seq.pdbx_db_accession             3U38 
_struct_ref_seq.db_align_beg                  1 
_struct_ref_seq.pdbx_db_align_beg_ins_code    ? 
_struct_ref_seq.db_align_end                  10 
_struct_ref_seq.pdbx_db_align_end_ins_code    ? 
_struct_ref_seq.pdbx_auth_seq_align_beg       1 
_struct_ref_seq.pdbx_auth_seq_align_end       10 
# 
_pdbx_struct_assembly.id                   1 
_pdbx_struct_assembly.details              author_and_software_defined_assembly 
_pdbx_struct_assembly.method_details       PISA 
_pdbx_struct_assembly.oligomeric_details   dimeric 
_pdbx_struct_assembly.oligomeric_count     2 
# 
loop_
_pdbx_struct_assembly_prop.biol_id 
_pdbx_struct_assembly_prop.type 
_pdbx_struct_assembly_prop.value 
_pdbx_struct_assembly_prop.details 
1 'ABSA (A^2)' 900  ? 
1 MORE         -8   ? 
1 'SSA (A^2)'  4530 ? 
# 
_pdbx_struct_assembly_gen.assembly_id       1 
_pdbx_struct_assembly_gen.oper_expression   1,2 
_pdbx_struct_assembly_gen.asym_id_list      A,B,C,D,E 
# 
loop_
_pdbx_struct_oper_list.id 
_pdbx_struct_oper_list.type 
_pdbx_struct_oper_list.name 
_pdbx_struct_oper_list.symmetry_operation 
_pdbx_struct_oper_list.matrix[1][1] 
_pdbx_struct_oper_list.matrix[1][2] 
_pdbx_struct_oper_list.matrix[1][3] 
_pdbx_struct_oper_list.vector[1] 
_pdbx_struct_oper_list.matrix[2][1] 
_pdbx_struct_oper_list.matrix[2][2] 
_pdbx_struct_oper_list.matrix[2][3] 
_pdbx_struct_oper_list.vector[2] 
_pdbx_struct_oper_list.matrix[3][1] 
_pdbx_struct_oper_list.matrix[3][2] 
_pdbx_struct_oper_list.matrix[3][3] 
_pdbx_struct_oper_list.vector[3] 
1 'identity operation'         1_555 x,y,z  1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 
0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000  0.0000000000 
2 'crystal symmetry operation' 7_555 y,x,-z 0.0000000000 1.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 
0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 
# 
_struct_biol.id        1 
_struct_biol.details   ? 
# 
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 ? ? A DG 3 N7 ? ? ? 1_555 D BA  . BA ? ? A DG 3   A BA  103 1_555 ? ? ? ? ? ? ?            2.956 ? ? 
metalc2  metalc ? ? A DG 4 O6 ? ? ? 1_555 D BA  . BA ? ? A DG 4   A BA  103 1_555 ? ? ? ? ? ? ?            2.836 ? ? 
metalc3  metalc ? ? D BA . BA ? ? ? 1_555 E HOH . O  ? ? A BA 103 A HOH 201 1_555 ? ? ? ? ? ? ?            2.895 ? ? 
metalc4  metalc ? ? D BA . BA ? ? ? 1_555 E HOH . O  ? ? A BA 103 A HOH 202 1_555 ? ? ? ? ? ? ?            2.841 ? ? 
metalc5  metalc ? ? D BA . BA ? ? ? 1_555 E HOH . O  ? ? A BA 103 A HOH 203 1_555 ? ? ? ? ? ? ?            2.768 ? ? 
metalc6  metalc ? ? D BA . BA ? ? ? 1_555 E HOH . O  ? ? A BA 103 A HOH 205 1_555 ? ? ? ? ? ? ?            2.946 ? ? 
metalc7  metalc ? ? D BA . BA ? ? ? 1_555 E HOH . O  ? ? A BA 103 A HOH 212 1_555 ? ? ? ? ? ? ?            2.717 ? ? 
hydrog1  hydrog ? ? A DC 2 N3 ? ? ? 1_555 A DG  9 N1 ? ? A DC 2   A DG  9   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog2  hydrog ? ? A DC 2 N4 ? ? ? 1_555 A DG  9 O6 ? ? A DC 2   A DG  9   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog3  hydrog ? ? A DC 2 O2 ? ? ? 1_555 A DG  9 N2 ? ? A DC 2   A DG  9   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog4  hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DC  8 N3 ? ? A DG 3   A DC  8   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog5  hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DC  8 O2 ? ? A DG 3   A DC  8   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog6  hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DC  8 N4 ? ? A DG 3   A DC  8   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog7  hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DC  7 N3 ? ? A DG 4   A DC  7   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog8  hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DC  7 O2 ? ? A DG 4   A DC  7   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog9  hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DC  7 N4 ? ? A DG 4   A DC  7   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog10 hydrog ? ? A DT 5 N3 ? ? ? 1_555 A DA  6 N1 ? ? A DT 5   A DA  6   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog11 hydrog ? ? A DT 5 O4 ? ? ? 1_555 A DA  6 N6 ? ? A DT 5   A DA  6   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog12 hydrog ? ? A DA 6 N1 ? ? ? 1_555 A DT  5 N3 ? ? A DA 6   A DT  5   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog13 hydrog ? ? A DA 6 N6 ? ? ? 1_555 A DT  5 O4 ? ? A DA 6   A DT  5   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog14 hydrog ? ? A DC 7 N3 ? ? ? 1_555 A DG  4 N1 ? ? A DC 7   A DG  4   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog15 hydrog ? ? A DC 7 N4 ? ? ? 1_555 A DG  4 O6 ? ? A DC 7   A DG  4   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog16 hydrog ? ? A DC 7 O2 ? ? ? 1_555 A DG  4 N2 ? ? A DC 7   A DG  4   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog17 hydrog ? ? A DC 8 N3 ? ? ? 1_555 A DG  3 N1 ? ? A DC 8   A DG  3   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog18 hydrog ? ? A DC 8 N4 ? ? ? 1_555 A DG  3 O6 ? ? A DC 8   A DG  3   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog19 hydrog ? ? A DC 8 O2 ? ? ? 1_555 A DG  3 N2 ? ? A DC 8   A DG  3   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog20 hydrog ? ? A DG 9 N1 ? ? ? 1_555 A DC  2 N3 ? ? A DG 9   A DC  2   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog21 hydrog ? ? A DG 9 N2 ? ? ? 1_555 A DC  2 O2 ? ? A DG 9   A DC  2   7_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog22 hydrog ? ? A DG 9 O6 ? ? ? 1_555 A DC  2 N4 ? ? A DG 9   A DC  2   7_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  N7 ? A DG  3 ? A DG  3   ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O6 ? A DG  4 ? A DG  4   ? 1_555 74.2  ? 
2  N7 ? A DG  3 ? A DG  3   ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 201 ? 1_555 148.1 ? 
3  O6 ? A DG  4 ? A DG  4   ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 201 ? 1_555 134.5 ? 
4  N7 ? A DG  3 ? A DG  3   ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 202 ? 1_555 70.5  ? 
5  O6 ? A DG  4 ? A DG  4   ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 202 ? 1_555 69.4  ? 
6  O  ? E HOH . ? A HOH 201 ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 202 ? 1_555 126.9 ? 
7  N7 ? A DG  3 ? A DG  3   ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 203 ? 1_555 77.0  ? 
8  O6 ? A DG  4 ? A DG  4   ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 203 ? 1_555 139.7 ? 
9  O  ? E HOH . ? A HOH 201 ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 203 ? 1_555 82.4  ? 
10 O  ? E HOH . ? A HOH 202 ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 203 ? 1_555 74.8  ? 
11 N7 ? A DG  3 ? A DG  3   ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 205 ? 1_555 76.7  ? 
12 O6 ? A DG  4 ? A DG  4   ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 205 ? 1_555 130.5 ? 
13 O  ? E HOH . ? A HOH 201 ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 205 ? 1_555 72.8  ? 
14 O  ? E HOH . ? A HOH 202 ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 205 ? 1_555 134.0 ? 
15 O  ? E HOH . ? A HOH 203 ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 205 ? 1_555 67.0  ? 
16 N7 ? A DG  3 ? A DG  3   ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 212 ? 1_555 140.2 ? 
17 O6 ? A DG  4 ? A DG  4   ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 212 ? 1_555 95.0  ? 
18 O  ? E HOH . ? A HOH 201 ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 212 ? 1_555 62.5  ? 
19 O  ? E HOH . ? A HOH 202 ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 212 ? 1_555 69.9  ? 
20 O  ? E HOH . ? A HOH 203 ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 212 ? 1_555 89.5  ? 
21 O  ? E HOH . ? A HOH 205 ? 1_555 BA ? D BA . ? A BA 103 ? 1_555 O  ? E HOH . ? A HOH 212 ? 1_555 131.9 ? 
# 
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 A RKP 101 ? 9 'BINDING SITE FOR RESIDUE RKP A 101' 
AC2 Software A RKP 102 ? 7 'BINDING SITE FOR RESIDUE RKP A 102' 
AC3 Software A BA  103 ? 8 'BINDING SITE FOR RESIDUE BA A 103'  
# 
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 DC  A 1  ? DC  A 1   . ? 7_555 ? 
2  AC1 9 DC  A 2  ? DC  A 2   . ? 7_555 ? 
3  AC1 9 DG  A 3  ? DG  A 3   . ? 7_555 ? 
4  AC1 9 DG  A 3  ? DG  A 3   . ? 6_555 ? 
5  AC1 9 DG  A 4  ? DG  A 4   . ? 6_555 ? 
6  AC1 9 DC  A 7  ? DC  A 7   . ? 4_555 ? 
7  AC1 9 DC  A 8  ? DC  A 8   . ? 4_555 ? 
8  AC1 9 DG  A 9  ? DG  A 9   . ? 1_555 ? 
9  AC1 9 DG  A 10 ? DG  A 10  . ? 1_555 ? 
10 AC2 7 DG  A 4  ? DG  A 4   . ? 1_555 ? 
11 AC2 7 DT  A 5  ? DT  A 5   . ? 1_555 ? 
12 AC2 7 DT  A 5  ? DT  A 5   . ? 7_555 ? 
13 AC2 7 DA  A 6  ? DA  A 6   . ? 1_555 ? 
14 AC2 7 DA  A 6  ? DA  A 6   . ? 7_555 ? 
15 AC2 7 DC  A 7  ? DC  A 7   . ? 7_555 ? 
16 AC2 7 DC  A 7  ? DC  A 7   . ? 1_555 ? 
17 AC3 8 DG  A 3  ? DG  A 3   . ? 1_555 ? 
18 AC3 8 DG  A 4  ? DG  A 4   . ? 1_555 ? 
19 AC3 8 DT  A 5  ? DT  A 5   . ? 1_555 ? 
20 AC3 8 HOH E .  ? HOH A 201 . ? 1_555 ? 
21 AC3 8 HOH E .  ? HOH A 202 . ? 1_555 ? 
22 AC3 8 HOH E .  ? HOH A 203 . ? 1_555 ? 
23 AC3 8 HOH E .  ? HOH A 205 . ? 1_555 ? 
24 AC3 8 HOH E .  ? HOH A 212 . ? 1_555 ? 
# 
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 "C3'" A DC 1 ? C "O3'" A DC 1 ? C P   A DC 2  ? ? 130.83 119.70 11.13 1.20 Y 
2 1 "O5'" A DC 2 ? ? P     A DC 2 ? ? OP1 A DC 2  ? ? 98.46  105.70 -7.24 0.90 N 
3 1 "C3'" A DG 9 ? ? "O3'" A DG 9 ? ? P   A DG 10 ? ? 110.11 119.70 -9.59 1.20 Y 
# 
_pdbx_struct_special_symmetry.id              1 
_pdbx_struct_special_symmetry.PDB_model_num   1 
_pdbx_struct_special_symmetry.auth_asym_id    A 
_pdbx_struct_special_symmetry.auth_comp_id    RKP 
_pdbx_struct_special_symmetry.auth_seq_id     102 
_pdbx_struct_special_symmetry.PDB_ins_code    ? 
_pdbx_struct_special_symmetry.label_asym_id   C 
_pdbx_struct_special_symmetry.label_comp_id   RKP 
_pdbx_struct_special_symmetry.label_seq_id    . 
# 
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 
BA  BA     BA N N 1   
DA  OP3    O  N N 2   
DA  P      P  N N 3   
DA  OP1    O  N N 4   
DA  OP2    O  N N 5   
DA  "O5'"  O  N N 6   
DA  "C5'"  C  N N 7   
DA  "C4'"  C  N R 8   
DA  "O4'"  O  N N 9   
DA  "C3'"  C  N S 10  
DA  "O3'"  O  N N 11  
DA  "C2'"  C  N N 12  
DA  "C1'"  C  N R 13  
DA  N9     N  Y N 14  
DA  C8     C  Y N 15  
DA  N7     N  Y N 16  
DA  C5     C  Y N 17  
DA  C6     C  Y N 18  
DA  N6     N  N N 19  
DA  N1     N  Y N 20  
DA  C2     C  Y N 21  
DA  N3     N  Y N 22  
DA  C4     C  Y N 23  
DA  HOP3   H  N N 24  
DA  HOP2   H  N N 25  
DA  "H5'"  H  N N 26  
DA  "H5''" H  N N 27  
DA  "H4'"  H  N N 28  
DA  "H3'"  H  N N 29  
DA  "HO3'" H  N N 30  
DA  "H2'"  H  N N 31  
DA  "H2''" H  N N 32  
DA  "H1'"  H  N N 33  
DA  H8     H  N N 34  
DA  H61    H  N N 35  
DA  H62    H  N N 36  
DA  H2     H  N N 37  
DC  OP3    O  N N 38  
DC  P      P  N N 39  
DC  OP1    O  N N 40  
DC  OP2    O  N N 41  
DC  "O5'"  O  N N 42  
DC  "C5'"  C  N N 43  
DC  "C4'"  C  N R 44  
DC  "O4'"  O  N N 45  
DC  "C3'"  C  N S 46  
DC  "O3'"  O  N N 47  
DC  "C2'"  C  N N 48  
DC  "C1'"  C  N R 49  
DC  N1     N  N N 50  
DC  C2     C  N N 51  
DC  O2     O  N N 52  
DC  N3     N  N N 53  
DC  C4     C  N N 54  
DC  N4     N  N N 55  
DC  C5     C  N N 56  
DC  C6     C  N N 57  
DC  HOP3   H  N N 58  
DC  HOP2   H  N N 59  
DC  "H5'"  H  N N 60  
DC  "H5''" H  N N 61  
DC  "H4'"  H  N N 62  
DC  "H3'"  H  N N 63  
DC  "HO3'" H  N N 64  
DC  "H2'"  H  N N 65  
DC  "H2''" H  N N 66  
DC  "H1'"  H  N N 67  
DC  H41    H  N N 68  
DC  H42    H  N N 69  
DC  H5     H  N N 70  
DC  H6     H  N N 71  
DG  OP3    O  N N 72  
DG  P      P  N N 73  
DG  OP1    O  N N 74  
DG  OP2    O  N N 75  
DG  "O5'"  O  N N 76  
DG  "C5'"  C  N N 77  
DG  "C4'"  C  N R 78  
DG  "O4'"  O  N N 79  
DG  "C3'"  C  N S 80  
DG  "O3'"  O  N N 81  
DG  "C2'"  C  N N 82  
DG  "C1'"  C  N R 83  
DG  N9     N  Y N 84  
DG  C8     C  Y N 85  
DG  N7     N  Y N 86  
DG  C5     C  Y N 87  
DG  C6     C  N N 88  
DG  O6     O  N N 89  
DG  N1     N  N N 90  
DG  C2     C  N N 91  
DG  N2     N  N N 92  
DG  N3     N  N N 93  
DG  C4     C  Y N 94  
DG  HOP3   H  N N 95  
DG  HOP2   H  N N 96  
DG  "H5'"  H  N N 97  
DG  "H5''" H  N N 98  
DG  "H4'"  H  N N 99  
DG  "H3'"  H  N N 100 
DG  "HO3'" H  N N 101 
DG  "H2'"  H  N N 102 
DG  "H2''" H  N N 103 
DG  "H1'"  H  N N 104 
DG  H8     H  N N 105 
DG  H1     H  N N 106 
DG  H21    H  N N 107 
DG  H22    H  N N 108 
DT  OP3    O  N N 109 
DT  P      P  N N 110 
DT  OP1    O  N N 111 
DT  OP2    O  N N 112 
DT  "O5'"  O  N N 113 
DT  "C5'"  C  N N 114 
DT  "C4'"  C  N R 115 
DT  "O4'"  O  N N 116 
DT  "C3'"  C  N S 117 
DT  "O3'"  O  N N 118 
DT  "C2'"  C  N N 119 
DT  "C1'"  C  N R 120 
DT  N1     N  N N 121 
DT  C2     C  N N 122 
DT  O2     O  N N 123 
DT  N3     N  N N 124 
DT  C4     C  N N 125 
DT  O4     O  N N 126 
DT  C5     C  N N 127 
DT  C7     C  N N 128 
DT  C6     C  N N 129 
DT  HOP3   H  N N 130 
DT  HOP2   H  N N 131 
DT  "H5'"  H  N N 132 
DT  "H5''" H  N N 133 
DT  "H4'"  H  N N 134 
DT  "H3'"  H  N N 135 
DT  "HO3'" H  N N 136 
DT  "H2'"  H  N N 137 
DT  "H2''" H  N N 138 
DT  "H1'"  H  N N 139 
DT  H3     H  N N 140 
DT  H71    H  N N 141 
DT  H72    H  N N 142 
DT  H73    H  N N 143 
DT  H6     H  N N 144 
HOH O      O  N N 145 
HOH H1     H  N N 146 
HOH H2     H  N N 147 
RKP RU     RU N N 148 
RKP C1     C  Y N 149 
RKP N1     N  Y N 150 
RKP C2     C  Y N 151 
RKP N2     N  Y N 152 
RKP C3     C  Y N 153 
RKP N3     N  Y N 154 
RKP C4     C  Y N 155 
RKP N4     N  Y N 156 
RKP C5     C  Y N 157 
RKP N5     N  Y N 158 
RKP C6     C  Y N 159 
RKP C7     C  Y N 160 
RKP C8     C  Y N 161 
RKP N8     N  Y N 162 
RKP C9     C  Y N 163 
RKP N9     N  Y N 164 
RKP C10    C  Y N 165 
RKP C11    C  Y N 166 
RKP C12    C  Y N 167 
RKP N12    N  Y N 168 
RKP C13    C  Y N 169 
RKP C14    C  Y N 170 
RKP C15    C  Y N 171 
RKP C16    C  Y N 172 
RKP C17    C  Y N 173 
RKP C18    C  Y N 174 
RKP C19    C  Y N 175 
RKP C20    C  Y N 176 
RKP C21    C  Y N 177 
RKP C22    C  Y N 178 
RKP C23    C  Y N 179 
RKP C24    C  Y N 180 
RKP C25    C  Y N 181 
RKP C26    C  Y N 182 
RKP C27    C  Y N 183 
RKP C28    C  Y N 184 
RKP C29    C  Y N 185 
RKP C30    C  Y N 186 
RKP C31    C  Y N 187 
RKP C32    C  Y N 188 
RKP C33    C  Y N 189 
RKP C34    C  Y N 190 
RKP C35    C  Y N 191 
RKP C36    C  Y N 192 
RKP C37    C  Y N 193 
RKP C38    C  Y N 194 
RKP C41    C  Y N 195 
RKP C42    C  Y N 196 
RKP C43    C  Y N 197 
RKP C44    C  Y N 198 
RKP H2     H  N N 199 
RKP H3     H  N N 200 
RKP H4     H  N N 201 
RKP H9     H  N N 202 
RKP H11    H  N N 203 
RKP H12    H  N N 204 
RKP H14    H  N N 205 
RKP H16    H  N N 206 
RKP H17    H  N N 207 
RKP H18    H  N N 208 
RKP H20    H  N N 209 
RKP H21    H  N N 210 
RKP H23    H  N N 211 
RKP H24    H  N N 212 
RKP H27    H  N N 213 
RKP H28    H  N N 214 
RKP H30    H  N N 215 
RKP H31    H  N N 216 
RKP H33    H  N N 217 
RKP H34    H  N N 218 
RKP H37    H  N N 219 
RKP H38    H  N N 220 
RKP H41    H  N N 221 
RKP H42    H  N N 222 
RKP H43    H  N N 223 
RKP H44    H  N N 224 
# 
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 
DA  OP3   P      sing N N 1   
DA  OP3   HOP3   sing N N 2   
DA  P     OP1    doub N N 3   
DA  P     OP2    sing N N 4   
DA  P     "O5'"  sing N N 5   
DA  OP2   HOP2   sing N N 6   
DA  "O5'" "C5'"  sing N N 7   
DA  "C5'" "C4'"  sing N N 8   
DA  "C5'" "H5'"  sing N N 9   
DA  "C5'" "H5''" sing N N 10  
DA  "C4'" "O4'"  sing N N 11  
DA  "C4'" "C3'"  sing N N 12  
DA  "C4'" "H4'"  sing N N 13  
DA  "O4'" "C1'"  sing N N 14  
DA  "C3'" "O3'"  sing N N 15  
DA  "C3'" "C2'"  sing N N 16  
DA  "C3'" "H3'"  sing N N 17  
DA  "O3'" "HO3'" sing N N 18  
DA  "C2'" "C1'"  sing N N 19  
DA  "C2'" "H2'"  sing N N 20  
DA  "C2'" "H2''" sing N N 21  
DA  "C1'" N9     sing N N 22  
DA  "C1'" "H1'"  sing N N 23  
DA  N9    C8     sing Y N 24  
DA  N9    C4     sing Y N 25  
DA  C8    N7     doub Y N 26  
DA  C8    H8     sing N N 27  
DA  N7    C5     sing Y N 28  
DA  C5    C6     sing Y N 29  
DA  C5    C4     doub Y N 30  
DA  C6    N6     sing N N 31  
DA  C6    N1     doub Y N 32  
DA  N6    H61    sing N N 33  
DA  N6    H62    sing N N 34  
DA  N1    C2     sing Y N 35  
DA  C2    N3     doub Y N 36  
DA  C2    H2     sing N N 37  
DA  N3    C4     sing Y N 38  
DC  OP3   P      sing N N 39  
DC  OP3   HOP3   sing N N 40  
DC  P     OP1    doub N N 41  
DC  P     OP2    sing N N 42  
DC  P     "O5'"  sing N N 43  
DC  OP2   HOP2   sing N N 44  
DC  "O5'" "C5'"  sing N N 45  
DC  "C5'" "C4'"  sing N N 46  
DC  "C5'" "H5'"  sing N N 47  
DC  "C5'" "H5''" sing N N 48  
DC  "C4'" "O4'"  sing N N 49  
DC  "C4'" "C3'"  sing N N 50  
DC  "C4'" "H4'"  sing N N 51  
DC  "O4'" "C1'"  sing N N 52  
DC  "C3'" "O3'"  sing N N 53  
DC  "C3'" "C2'"  sing N N 54  
DC  "C3'" "H3'"  sing N N 55  
DC  "O3'" "HO3'" sing N N 56  
DC  "C2'" "C1'"  sing N N 57  
DC  "C2'" "H2'"  sing N N 58  
DC  "C2'" "H2''" sing N N 59  
DC  "C1'" N1     sing N N 60  
DC  "C1'" "H1'"  sing N N 61  
DC  N1    C2     sing N N 62  
DC  N1    C6     sing N N 63  
DC  C2    O2     doub N N 64  
DC  C2    N3     sing N N 65  
DC  N3    C4     doub N N 66  
DC  C4    N4     sing N N 67  
DC  C4    C5     sing N N 68  
DC  N4    H41    sing N N 69  
DC  N4    H42    sing N N 70  
DC  C5    C6     doub N N 71  
DC  C5    H5     sing N N 72  
DC  C6    H6     sing N N 73  
DG  OP3   P      sing N N 74  
DG  OP3   HOP3   sing N N 75  
DG  P     OP1    doub N N 76  
DG  P     OP2    sing N N 77  
DG  P     "O5'"  sing N N 78  
DG  OP2   HOP2   sing N N 79  
DG  "O5'" "C5'"  sing N N 80  
DG  "C5'" "C4'"  sing N N 81  
DG  "C5'" "H5'"  sing N N 82  
DG  "C5'" "H5''" sing N N 83  
DG  "C4'" "O4'"  sing N N 84  
DG  "C4'" "C3'"  sing N N 85  
DG  "C4'" "H4'"  sing N N 86  
DG  "O4'" "C1'"  sing N N 87  
DG  "C3'" "O3'"  sing N N 88  
DG  "C3'" "C2'"  sing N N 89  
DG  "C3'" "H3'"  sing N N 90  
DG  "O3'" "HO3'" sing N N 91  
DG  "C2'" "C1'"  sing N N 92  
DG  "C2'" "H2'"  sing N N 93  
DG  "C2'" "H2''" sing N N 94  
DG  "C1'" N9     sing N N 95  
DG  "C1'" "H1'"  sing N N 96  
DG  N9    C8     sing Y N 97  
DG  N9    C4     sing Y N 98  
DG  C8    N7     doub Y N 99  
DG  C8    H8     sing N N 100 
DG  N7    C5     sing Y N 101 
DG  C5    C6     sing N N 102 
DG  C5    C4     doub Y N 103 
DG  C6    O6     doub N N 104 
DG  C6    N1     sing N N 105 
DG  N1    C2     sing N N 106 
DG  N1    H1     sing N N 107 
DG  C2    N2     sing N N 108 
DG  C2    N3     doub N N 109 
DG  N2    H21    sing N N 110 
DG  N2    H22    sing N N 111 
DG  N3    C4     sing N N 112 
DT  OP3   P      sing N N 113 
DT  OP3   HOP3   sing N N 114 
DT  P     OP1    doub N N 115 
DT  P     OP2    sing N N 116 
DT  P     "O5'"  sing N N 117 
DT  OP2   HOP2   sing N N 118 
DT  "O5'" "C5'"  sing N N 119 
DT  "C5'" "C4'"  sing N N 120 
DT  "C5'" "H5'"  sing N N 121 
DT  "C5'" "H5''" sing N N 122 
DT  "C4'" "O4'"  sing N N 123 
DT  "C4'" "C3'"  sing N N 124 
DT  "C4'" "H4'"  sing N N 125 
DT  "O4'" "C1'"  sing N N 126 
DT  "C3'" "O3'"  sing N N 127 
DT  "C3'" "C2'"  sing N N 128 
DT  "C3'" "H3'"  sing N N 129 
DT  "O3'" "HO3'" sing N N 130 
DT  "C2'" "C1'"  sing N N 131 
DT  "C2'" "H2'"  sing N N 132 
DT  "C2'" "H2''" sing N N 133 
DT  "C1'" N1     sing N N 134 
DT  "C1'" "H1'"  sing N N 135 
DT  N1    C2     sing N N 136 
DT  N1    C6     sing N N 137 
DT  C2    O2     doub N N 138 
DT  C2    N3     sing N N 139 
DT  N3    C4     sing N N 140 
DT  N3    H3     sing N N 141 
DT  C4    O4     doub N N 142 
DT  C4    C5     sing N N 143 
DT  C5    C7     sing N N 144 
DT  C5    C6     doub N N 145 
DT  C7    H71    sing N N 146 
DT  C7    H72    sing N N 147 
DT  C7    H73    sing N N 148 
DT  C6    H6     sing N N 149 
HOH O     H1     sing N N 150 
HOH O     H2     sing N N 151 
RKP C1    N2     sing Y N 152 
RKP C1    C5     doub Y N 153 
RKP C1    C10    sing Y N 154 
RKP N1    C10    sing Y N 155 
RKP N1    C12    doub Y N 156 
RKP C2    N2     doub Y N 157 
RKP C2    C3     sing Y N 158 
RKP C3    C4     doub Y N 159 
RKP N3    C6     sing Y N 160 
RKP N3    C15    doub Y N 161 
RKP C4    C5     sing Y N 162 
RKP N4    C7     sing Y N 163 
RKP N4    C13    doub Y N 164 
RKP C5    C6     sing Y N 165 
RKP N5    C19    sing Y N 166 
RKP N5    C20    doub Y N 167 
RKP C6    C7     doub Y N 168 
RKP C7    C8     sing Y N 169 
RKP C8    C9     sing Y N 170 
RKP C8    C10    doub Y N 171 
RKP N8    C26    sing Y N 172 
RKP N8    C28    doub Y N 173 
RKP C9    C11    doub Y N 174 
RKP N9    C29    sing Y N 175 
RKP N9    C30    doub Y N 176 
RKP C11   C12    sing Y N 177 
RKP N12   C36    sing Y N 178 
RKP N12   C38    doub Y N 179 
RKP C13   C14    sing Y N 180 
RKP C13   C15    sing Y N 181 
RKP C14   C18    doub Y N 182 
RKP C15   C16    sing Y N 183 
RKP C16   C17    doub Y N 184 
RKP C17   C18    sing Y N 185 
RKP C19   C22    doub Y N 186 
RKP C19   C26    sing Y N 187 
RKP C20   C21    sing Y N 188 
RKP C21   C41    doub Y N 189 
RKP C22   C23    sing Y N 190 
RKP C22   C41    sing Y N 191 
RKP C23   C24    doub Y N 192 
RKP C24   C25    sing Y N 193 
RKP C25   C26    doub Y N 194 
RKP C25   C42    sing Y N 195 
RKP C27   C28    sing Y N 196 
RKP C27   C42    doub Y N 197 
RKP C29   C32    doub Y N 198 
RKP C29   C36    sing Y N 199 
RKP C30   C31    sing Y N 200 
RKP C31   C43    doub Y N 201 
RKP C32   C33    sing Y N 202 
RKP C32   C43    sing Y N 203 
RKP C33   C34    doub Y N 204 
RKP C34   C35    sing Y N 205 
RKP C35   C36    doub Y N 206 
RKP C35   C44    sing Y N 207 
RKP C37   C38    sing Y N 208 
RKP C37   C44    doub Y N 209 
RKP C2    H2     sing N N 210 
RKP C3    H3     sing N N 211 
RKP C4    H4     sing N N 212 
RKP C9    H9     sing N N 213 
RKP C11   H11    sing N N 214 
RKP C12   H12    sing N N 215 
RKP C14   H14    sing N N 216 
RKP C16   H16    sing N N 217 
RKP C17   H17    sing N N 218 
RKP C18   H18    sing N N 219 
RKP C20   H20    sing N N 220 
RKP C21   H21    sing N N 221 
RKP C23   H23    sing N N 222 
RKP C24   H24    sing N N 223 
RKP C27   H27    sing N N 224 
RKP C28   H28    sing N N 225 
RKP C30   H30    sing N N 226 
RKP C31   H31    sing N N 227 
RKP C33   H33    sing N N 228 
RKP C34   H34    sing N N 229 
RKP C37   H37    sing N N 230 
RKP C38   H38    sing N N 231 
RKP C41   H41    sing N N 232 
RKP C42   H42    sing N N 233 
RKP C43   H43    sing N N 234 
RKP C44   H44    sing N N 235 
RKP RU    N1     sing N N 236 
RKP RU    N2     sing N N 237 
RKP RU    N5     sing N N 238 
RKP RU    N8     sing N N 239 
RKP RU    N9     sing N N 240 
RKP RU    N12    sing N N 241 
# 
_ndb_struct_conf_na.entry_id   3U38 
_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 2 1_555 A DG 9 7_555 0.311  -0.119 0.331  -11.776 3.836  1.456  1 A_DC2:DG9_A A 2 ? A 9 ? 19 1 
1 A DG 3 1_555 A DC 8 7_555 -0.109 0.028  0.391  21.799  -6.239 1.066  2 A_DG3:DC8_A A 3 ? A 8 ? 19 1 
1 A DG 4 1_555 A DC 7 7_555 -0.316 -0.123 -0.017 -8.678  2.933  -2.123 3 A_DG4:DC7_A A 4 ? A 7 ? 19 1 
1 A DT 5 1_555 A DA 6 7_555 0.106  -0.170 -0.066 17.361  9.094  4.744  4 A_DT5:DA6_A A 5 ? A 6 ? 20 1 
1 A DC 2 1_555 A DG 9 1_555 0.311  -0.119 0.331  -11.776 3.836  1.456  5 A_DC2:DG9_A A 2 ? A 9 ? 19 1 
1 A DG 3 1_555 A DC 8 1_555 -0.109 0.028  0.391  21.799  -6.239 1.066  6 A_DG3:DC8_A A 3 ? A 8 ? 19 1 
1 A DG 4 1_555 A DC 7 1_555 -0.316 -0.123 -0.017 -8.678  2.933  -2.123 7 A_DG4:DC7_A A 4 ? A 7 ? 19 1 
1 A DT 5 1_555 A DA 6 1_555 0.106  -0.170 -0.066 17.361  9.094  4.744  8 A_DT5:DA6_A A 5 ? A 6 ? 20 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 2 1_555 A DG 9 7_555 A DG 3 1_555 A DC 8 7_555 -0.323 1.552  2.723 1.441  1.641  22.297 3.479  1.285  2.802 4.229  -3.715 
22.402 1 AA_DC2DG3:DC8DG9_AA A 2 ? A 9 ? A 3 ? A 8 ? 
1 A DG 3 1_555 A DC 8 7_555 A DG 4 1_555 A DC 7 7_555 0.007  0.737  5.017 -1.013 49.181 17.389 -5.081 -0.130 2.422 71.710 1.476  
51.993 2 AA_DG3DG4:DC7DC8_AA A 3 ? A 8 ? A 4 ? A 7 ? 
1 A DG 4 1_555 A DC 7 7_555 A DT 5 1_555 A DA 6 7_555 0.661  -0.053 2.682 -2.056 6.986  18.519 -2.812 -2.697 2.413 20.701 6.093  
19.888 3 AA_DG4DT5:DA6DC7_AA A 4 ? A 7 ? A 5 ? A 6 ? 
1 A DC 2 1_555 A DG 9 1_555 A DG 3 1_555 A DC 8 1_555 -0.323 1.552  2.723 1.441  1.641  22.297 3.479  1.285  2.802 4.229  -3.715 
22.402 4 AA_DC2DG3:DC8DG9_AA A 2 ? A 9 ? A 3 ? A 8 ? 
1 A DG 3 1_555 A DC 8 1_555 A DG 4 1_555 A DC 7 1_555 0.007  0.737  5.017 -1.013 49.181 17.389 -5.081 -0.130 2.422 71.710 1.476  
51.993 5 AA_DG3DG4:DC7DC8_AA A 3 ? A 8 ? A 4 ? A 7 ? 
1 A DG 4 1_555 A DC 7 1_555 A DT 5 1_555 A DA 6 1_555 0.661  -0.053 2.682 -2.056 6.986  18.519 -2.812 -2.697 2.413 20.701 6.093  
19.888 6 AA_DG4DT5:DA6DC7_AA A 4 ? A 7 ? A 5 ? A 6 ? 
# 
_atom_sites.entry_id                    3U38 
_atom_sites.fract_transf_matrix[1][1]   0.019026 
_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]   0.019026 
_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]   0.030836 
_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 
BA 
C  
N  
O  
P  
RU 
# 
loop_