data_312D # _entry.id 312D # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _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 312D pdb_0000312d 10.2210/pdb312d/pdb RCSB ZDG054 ? ? WWPDB D_1000178780 ? ? # 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 1997-08-28 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-21 5 'Structure model' 1 4 2024-04-03 # _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' 6 5 'Structure model' 'Refinement description' # 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 7 5 'Structure model' pdbx_initial_refinement_model # 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_seq_id' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.value' 6 4 'Structure model' '_struct_conn.pdbx_dist_value' 7 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 8 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 9 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 10 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 312D _pdbx_database_status.recvd_initial_deposition_date 1997-02-04 _pdbx_database_status.deposit_site NDB _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 'Mooers, B.H.M.' 1 'Eichman, B.F.' 2 'Ho, P.S.' 3 # _citation.id primary _citation.title ;The structures and relative stabilities of d(G x G) reverse Hoogsteen, d(G x T) reverse wobble, and d(G x C) reverse Watson-Crick base-pairs in DNA crystals. ; _citation.journal_abbrev J.Mol.Biol. _citation.journal_volume 269 _citation.page_first 796 _citation.page_last 810 _citation.year 1997 _citation.journal_id_ASTM JMOBAK _citation.country UK _citation.journal_id_ISSN 0022-2836 _citation.journal_id_CSD 0070 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 9223642 _citation.pdbx_database_id_DOI 10.1006/jmbi.1997.1100 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Mooers, B.H.' 1 ? primary 'Eichman, B.F.' 2 ? primary 'Ho, P.S.' 3 ? # 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(*GP*CP*GP*CP*GP*CP*G)-3') ; 2139.411 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*CP*CP*GP*CP*GP*CP*G)-3') ; 2099.387 1 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 4 non-polymer syn 'COBALT HEXAMMINE(III)' 161.116 1 ? ? ? ? 5 water nat water 18.015 69 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no no '(DG)(DC)(DG)(DC)(DG)(DC)(DG)' GCGCGCG A ? 2 polydeoxyribonucleotide no no '(DC)(DC)(DG)(DC)(DG)(DC)(DG)' CCGCGCG B ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'MAGNESIUM ION' MG 4 'COBALT HEXAMMINE(III)' NCO 5 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DG n 1 2 DC n 1 3 DG n 1 4 DC n 1 5 DG n 1 6 DC n 1 7 DG n 2 1 DC n 2 2 DC n 2 3 DG n 2 4 DC n 2 5 DG n 2 6 DC n 2 7 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 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 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 NCO non-polymer . 'COBALT HEXAMMINE(III)' ? 'Co H18 N6 3' 161.116 # 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 DG 1 1 1 DG G A . n A 1 2 DC 2 2 2 DC C A . n A 1 3 DG 3 3 3 DG G A . n A 1 4 DC 4 4 4 DC C A . n A 1 5 DG 5 5 5 DG G A . n A 1 6 DC 6 6 6 DC C A . n A 1 7 DG 7 7 7 DG G A . n B 2 1 DC 1 8 8 DC C B . n B 2 2 DC 2 9 9 DC C B . n B 2 3 DG 3 10 10 DG G B . n B 2 4 DC 4 11 11 DC C B . n B 2 5 DG 5 12 12 DG G B . n B 2 6 DC 6 13 13 DC C B . n B 2 7 DG 7 14 14 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 3 MG 1 16 16 MG MO6 B . D 4 NCO 1 15 15 NCO NCO B . E 5 HOH 1 18 18 HOH HOH A . E 5 HOH 2 19 19 HOH HOH A . E 5 HOH 3 21 21 HOH HOH A . E 5 HOH 4 24 24 HOH HOH A . E 5 HOH 5 25 25 HOH HOH A . E 5 HOH 6 27 27 HOH HOH A . E 5 HOH 7 28 28 HOH HOH A . E 5 HOH 8 29 29 HOH HOH A . E 5 HOH 9 33 33 HOH HOH A . E 5 HOH 10 34 34 HOH HOH A . E 5 HOH 11 43 43 HOH HOH A . E 5 HOH 12 44 44 HOH HOH A . E 5 HOH 13 46 46 HOH HOH A . E 5 HOH 14 50 50 HOH HOH A . E 5 HOH 15 51 51 HOH HOH A . E 5 HOH 16 53 53 HOH HOH A . E 5 HOH 17 55 55 HOH HOH A . E 5 HOH 18 56 56 HOH HOH A . E 5 HOH 19 57 57 HOH HOH A . E 5 HOH 20 58 58 HOH HOH A . E 5 HOH 21 62 62 HOH HOH A . E 5 HOH 22 65 65 HOH HOH A . E 5 HOH 23 66 66 HOH HOH A . E 5 HOH 24 68 68 HOH HOH A . E 5 HOH 25 69 69 HOH HOH A . E 5 HOH 26 73 73 HOH HOH A . E 5 HOH 27 74 74 HOH HOH A . E 5 HOH 28 77 77 HOH HOH A . E 5 HOH 29 78 78 HOH HOH A . E 5 HOH 30 79 79 HOH HOH A . F 5 HOH 1 17 17 HOH HOH B . F 5 HOH 2 20 20 HOH HOH B . F 5 HOH 3 22 22 HOH HOH B . F 5 HOH 4 23 23 HOH HOH B . F 5 HOH 5 26 26 HOH HOH B . F 5 HOH 6 30 30 HOH HOH B . F 5 HOH 7 31 31 HOH HOH B . F 5 HOH 8 32 32 HOH HOH B . F 5 HOH 9 35 35 HOH HOH B . F 5 HOH 10 36 36 HOH HOH B . F 5 HOH 11 37 37 HOH HOH B . F 5 HOH 12 38 38 HOH HOH B . F 5 HOH 13 39 39 HOH HOH B . F 5 HOH 14 40 40 HOH HOH B . F 5 HOH 15 41 41 HOH HOH B . F 5 HOH 16 42 42 HOH HOH B . F 5 HOH 17 45 45 HOH HOH B . F 5 HOH 18 47 47 HOH HOH B . F 5 HOH 19 48 48 HOH HOH B . F 5 HOH 20 49 49 HOH HOH B . F 5 HOH 21 52 52 HOH HOH B . F 5 HOH 22 54 54 HOH HOH B . F 5 HOH 23 59 59 HOH HOH B . F 5 HOH 24 60 60 HOH HOH B . F 5 HOH 25 61 61 HOH HOH B . F 5 HOH 26 63 63 HOH HOH B . F 5 HOH 27 64 64 HOH HOH B . F 5 HOH 28 67 67 HOH HOH B . F 5 HOH 29 70 70 HOH HOH B . F 5 HOH 30 71 71 HOH HOH B . F 5 HOH 31 72 72 HOH HOH B . F 5 HOH 32 75 75 HOH HOH B . F 5 HOH 33 76 76 HOH HOH B . F 5 HOH 34 80 16 HOH MO6 B . F 5 HOH 35 81 16 HOH MO6 B . F 5 HOH 36 82 16 HOH MO6 B . F 5 HOH 37 83 16 HOH MO6 B . F 5 HOH 38 84 16 HOH MO6 B . F 5 HOH 39 85 16 HOH MO6 B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' . ? 1 X-PLOR refinement . ? 2 SAINT 'data reduction' . ? 3 SAINT 'data scaling' . ? 4 X-PLOR phasing . ? 5 # _cell.entry_id 312D _cell.length_a 20.320 _cell.length_b 29.540 _cell.length_c 51.840 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 312D _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 312D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.84 _exptl_crystal.density_percent_sol 32.98 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING 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, SITTING 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 'NA CACODYLATE' ? ? ? 1 4 1 MGCL2 ? ? ? 1 5 1 '[CO(NH3)6]3+' ? ? ? 1 6 2 WATER ? ? ? 1 7 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 293.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'AREA DETECTOR' _diffrn_detector.type 'SIEMENS HI-STAR' _diffrn_detector.pdbx_collection_date 1996-05-01 _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 ? _diffrn_radiation.pdbx_diffrn_protocol ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'SEALED TUBE' _diffrn_source.type ? _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.5418 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 312D _reflns.observed_criterion_sigma_I 2.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 14.200 _reflns.d_resolution_high 1.480 _reflns.number_obs 5340 _reflns.number_all ? _reflns.percent_possible_obs 84.500 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.0830000 _reflns.pdbx_netI_over_sigmaI 9.8000 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.480 _reflns_shell.d_res_low 14.20 _reflns_shell.percent_possible_all ? _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.4330000 _reflns_shell.meanI_over_sigI_obs 3.370 _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 312D _refine.ls_number_reflns_obs 3127 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 3.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 8.000 _refine.ls_d_res_high 1.800 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.2090000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2090000 _refine.ls_R_factor_R_free 0.2720000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10.000 _refine.ls_number_reflns_R_free 323 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean 13.33 _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 ZDGB55 _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _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_analyze.entry_id 312D _refine_analyze.Luzzati_coordinate_error_obs 0.20 _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _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 281 _refine_hist.pdbx_number_atoms_ligand 14 _refine_hist.number_atoms_solvent 63 _refine_hist.number_atoms_total 358 _refine_hist.d_res_high 1.800 _refine_hist.d_res_low 8.000 # 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 x_bond_d 0.008 ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg 1.30 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 8 _refine_ls_shell.d_res_high 1.80 _refine_ls_shell.d_res_low 1.88 _refine_ls_shell.number_reflns_R_work 291 _refine_ls_shell.R_factor_R_work 0.2470000 _refine_ls_shell.percent_reflns_obs 87.87 _refine_ls_shell.R_factor_R_free 0.3190000 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free 1.20 _refine_ls_shell.number_reflns_R_free 35 _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 PAR_NDB.DNA TOP_NDB.DNA 'X-RAY DIFFRACTION' 2 PAR_NDB_HIGH.DNA ? 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 312D _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 312D _struct.title ;Z-DNA HEXAMER WITH 5' OVERHANGS THAT FORM A REVERSE WATSON-CRICK BASE PAIR ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 312D _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Z-DNA, DOUBLE HELIX, OVERHANGING BASE, FLIPPED-OUT BASE, 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 3 ? D N N 4 ? E N N 5 ? F N N 5 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 1 PDB 312D 312D ? ? ? 2 2 PDB 312D 312D ? ? ? # 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 312D A 1 ? 7 ? 312D 1 ? 7 ? 1 7 2 2 312D B 1 ? 7 ? 312D 8 ? 14 ? 8 14 # _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 F HOH . O ? ? B MG 16 B HOH 80 1_555 ? ? ? ? ? ? ? 1.958 ? ? metalc2 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? B MG 16 B HOH 81 1_555 ? ? ? ? ? ? ? 1.800 ? ? metalc3 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? B MG 16 B HOH 82 1_555 ? ? ? ? ? ? ? 2.402 ? ? metalc4 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? B MG 16 B HOH 83 1_555 ? ? ? ? ? ? ? 2.035 ? ? metalc5 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? B MG 16 B HOH 84 1_555 ? ? ? ? ? ? ? 1.904 ? ? metalc6 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? B MG 16 B HOH 85 1_555 ? ? ? ? ? ? ? 1.796 ? ? hydrog1 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 7 N1 ? ? A DC 2 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 7 O6 ? ? A DC 2 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 7 N2 ? ? A DC 2 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 6 N3 ? ? A DG 3 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 6 O2 ? ? A DG 3 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 6 N4 ? ? A DG 3 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 4 N3 ? ? ? 1_555 B DG 5 N1 ? ? A DC 4 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 4 N4 ? ? ? 1_555 B DG 5 O6 ? ? A DC 4 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 4 O2 ? ? ? 1_555 B DG 5 N2 ? ? A DC 4 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 5 N1 ? ? ? 1_555 B DC 4 N3 ? ? A DG 5 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 5 N2 ? ? ? 1_555 B DC 4 O2 ? ? A DG 5 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 5 O6 ? ? ? 1_555 B DC 4 N4 ? ? A DG 5 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 6 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 6 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 6 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 6 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 6 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 6 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 7 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 7 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 7 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 7 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 7 B DC 9 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 ? F HOH . ? B HOH 80 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 81 ? 1_555 171.6 ? 2 O ? F HOH . ? B HOH 80 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 82 ? 1_555 110.8 ? 3 O ? F HOH . ? B HOH 81 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 82 ? 1_555 77.5 ? 4 O ? F HOH . ? B HOH 80 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 83 ? 1_555 70.8 ? 5 O ? F HOH . ? B HOH 81 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 83 ? 1_555 100.9 ? 6 O ? F HOH . ? B HOH 82 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 83 ? 1_555 178.1 ? 7 O ? F HOH . ? B HOH 80 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 84 ? 1_555 82.0 ? 8 O ? F HOH . ? B HOH 81 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 84 ? 1_555 97.7 ? 9 O ? F HOH . ? B HOH 82 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 84 ? 1_555 101.0 ? 10 O ? F HOH . ? B HOH 83 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 84 ? 1_555 78.1 ? 11 O ? F HOH . ? B HOH 80 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 85 ? 1_555 80.5 ? 12 O ? F HOH . ? B HOH 81 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 85 ? 1_555 98.7 ? 13 O ? F HOH . ? B HOH 82 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 85 ? 1_555 90.2 ? 14 O ? F HOH . ? B HOH 83 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 85 ? 1_555 91.2 ? 15 O ? F HOH . ? B HOH 84 ? 1_555 MG ? C MG . ? B MG 16 ? 1_555 O ? F HOH . ? B HOH 85 ? 1_555 161.8 ? # 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 MG 16 ? 6 'BINDING SITE FOR RESIDUE MG B 16' AC2 Software B NCO 15 ? 8 'BINDING SITE FOR RESIDUE NCO B 15' # 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 6 HOH F . ? HOH B 80 . ? 1_555 ? 2 AC1 6 HOH F . ? HOH B 81 . ? 1_555 ? 3 AC1 6 HOH F . ? HOH B 82 . ? 1_555 ? 4 AC1 6 HOH F . ? HOH B 83 . ? 1_555 ? 5 AC1 6 HOH F . ? HOH B 84 . ? 1_555 ? 6 AC1 6 HOH F . ? HOH B 85 . ? 1_555 ? 7 AC2 8 DC A 4 ? DC A 4 . ? 3_555 ? 8 AC2 8 DG A 5 ? DG A 5 . ? 3_555 ? 9 AC2 8 DG A 5 ? DG A 5 . ? 1_555 ? 10 AC2 8 DG B 7 ? DG B 14 . ? 1_555 ? 11 AC2 8 HOH F . ? HOH B 22 . ? 1_555 ? 12 AC2 8 HOH F . ? HOH B 23 . ? 1_555 ? 13 AC2 8 HOH F . ? HOH B 32 . ? 1_555 ? 14 AC2 8 HOH F . ? HOH B 47 . ? 1_555 ? # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DC _pdbx_validate_planes.auth_asym_id B _pdbx_validate_planes.auth_seq_id 8 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.072 _pdbx_validate_planes.type 'SIDE CHAIN' # 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 DC OP3 O N N 1 DC P P N N 2 DC OP1 O N N 3 DC OP2 O N N 4 DC "O5'" O N N 5 DC "C5'" C N N 6 DC "C4'" C N R 7 DC "O4'" O N N 8 DC "C3'" C N S 9 DC "O3'" O N N 10 DC "C2'" C N N 11 DC "C1'" C N R 12 DC N1 N N N 13 DC C2 C N N 14 DC O2 O N N 15 DC N3 N N N 16 DC C4 C N N 17 DC N4 N N N 18 DC C5 C N N 19 DC C6 C N N 20 DC HOP3 H N N 21 DC HOP2 H N N 22 DC "H5'" H N N 23 DC "H5''" H N N 24 DC "H4'" H N N 25 DC "H3'" H N N 26 DC "HO3'" H N N 27 DC "H2'" H N N 28 DC "H2''" H N N 29 DC "H1'" H N N 30 DC H41 H N N 31 DC H42 H N N 32 DC H5 H N N 33 DC H6 H N N 34 DG OP3 O N N 35 DG P P N N 36 DG OP1 O N N 37 DG OP2 O N N 38 DG "O5'" O N N 39 DG "C5'" C N N 40 DG "C4'" C N R 41 DG "O4'" O N N 42 DG "C3'" C N S 43 DG "O3'" O N N 44 DG "C2'" C N N 45 DG "C1'" C N R 46 DG N9 N Y N 47 DG C8 C Y N 48 DG N7 N Y N 49 DG C5 C Y N 50 DG C6 C N N 51 DG O6 O N N 52 DG N1 N N N 53 DG C2 C N N 54 DG N2 N N N 55 DG N3 N N N 56 DG C4 C Y N 57 DG HOP3 H N N 58 DG HOP2 H N N 59 DG "H5'" H N N 60 DG "H5''" H N N 61 DG "H4'" H N N 62 DG "H3'" H N N 63 DG "HO3'" H N N 64 DG "H2'" H N N 65 DG "H2''" H N N 66 DG "H1'" H N N 67 DG H8 H N N 68 DG H1 H N N 69 DG H21 H N N 70 DG H22 H N N 71 HOH O O N N 72 HOH H1 H N N 73 HOH H2 H N N 74 MG MG MG N N 75 NCO CO CO N N 76 NCO N1 N N N 77 NCO N2 N N N 78 NCO N3 N N N 79 NCO N4 N N N 80 NCO N5 N N N 81 NCO N6 N N N 82 NCO HN11 H N N 83 NCO HN12 H N N 84 NCO HN13 H N N 85 NCO HN21 H N N 86 NCO HN22 H N N 87 NCO HN23 H N N 88 NCO HN31 H N N 89 NCO HN32 H N N 90 NCO HN33 H N N 91 NCO HN41 H N N 92 NCO HN42 H N N 93 NCO HN43 H N N 94 NCO HN51 H N N 95 NCO HN52 H N N 96 NCO HN53 H N N 97 NCO HN61 H N N 98 NCO HN62 H N N 99 NCO HN63 H N N 100 # 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 DC OP3 P sing N N 1 DC OP3 HOP3 sing N N 2 DC P OP1 doub N N 3 DC P OP2 sing N N 4 DC P "O5'" sing N N 5 DC OP2 HOP2 sing N N 6 DC "O5'" "C5'" sing N N 7 DC "C5'" "C4'" sing N N 8 DC "C5'" "H5'" sing N N 9 DC "C5'" "H5''" sing N N 10 DC "C4'" "O4'" sing N N 11 DC "C4'" "C3'" sing N N 12 DC "C4'" "H4'" sing N N 13 DC "O4'" "C1'" sing N N 14 DC "C3'" "O3'" sing N N 15 DC "C3'" "C2'" sing N N 16 DC "C3'" "H3'" sing N N 17 DC "O3'" "HO3'" sing N N 18 DC "C2'" "C1'" sing N N 19 DC "C2'" "H2'" sing N N 20 DC "C2'" "H2''" sing N N 21 DC "C1'" N1 sing N N 22 DC "C1'" "H1'" sing N N 23 DC N1 C2 sing N N 24 DC N1 C6 sing N N 25 DC C2 O2 doub N N 26 DC C2 N3 sing N N 27 DC N3 C4 doub N N 28 DC C4 N4 sing N N 29 DC C4 C5 sing N N 30 DC N4 H41 sing N N 31 DC N4 H42 sing N N 32 DC C5 C6 doub N N 33 DC C5 H5 sing N N 34 DC C6 H6 sing N N 35 DG OP3 P sing N N 36 DG OP3 HOP3 sing N N 37 DG P OP1 doub N N 38 DG P OP2 sing N N 39 DG P "O5'" sing N N 40 DG OP2 HOP2 sing N N 41 DG "O5'" "C5'" sing N N 42 DG "C5'" "C4'" sing N N 43 DG "C5'" "H5'" sing N N 44 DG "C5'" "H5''" sing N N 45 DG "C4'" "O4'" sing N N 46 DG "C4'" "C3'" sing N N 47 DG "C4'" "H4'" sing N N 48 DG "O4'" "C1'" sing N N 49 DG "C3'" "O3'" sing N N 50 DG "C3'" "C2'" sing N N 51 DG "C3'" "H3'" sing N N 52 DG "O3'" "HO3'" sing N N 53 DG "C2'" "C1'" sing N N 54 DG "C2'" "H2'" sing N N 55 DG "C2'" "H2''" sing N N 56 DG "C1'" N9 sing N N 57 DG "C1'" "H1'" sing N N 58 DG N9 C8 sing Y N 59 DG N9 C4 sing Y N 60 DG C8 N7 doub Y N 61 DG C8 H8 sing N N 62 DG N7 C5 sing Y N 63 DG C5 C6 sing N N 64 DG C5 C4 doub Y N 65 DG C6 O6 doub N N 66 DG C6 N1 sing N N 67 DG N1 C2 sing N N 68 DG N1 H1 sing N N 69 DG C2 N2 sing N N 70 DG C2 N3 doub N N 71 DG N2 H21 sing N N 72 DG N2 H22 sing N N 73 DG N3 C4 sing N N 74 HOH O H1 sing N N 75 HOH O H2 sing N N 76 NCO CO N1 sing N N 77 NCO CO N2 sing N N 78 NCO CO N3 sing N N 79 NCO CO N4 sing N N 80 NCO CO N5 sing N N 81 NCO CO N6 sing N N 82 NCO N1 HN11 sing N N 83 NCO N1 HN12 sing N N 84 NCO N1 HN13 sing N N 85 NCO N2 HN21 sing N N 86 NCO N2 HN22 sing N N 87 NCO N2 HN23 sing N N 88 NCO N3 HN31 sing N N 89 NCO N3 HN32 sing N N 90 NCO N3 HN33 sing N N 91 NCO N4 HN41 sing N N 92 NCO N4 HN42 sing N N 93 NCO N4 HN43 sing N N 94 NCO N5 HN51 sing N N 95 NCO N5 HN52 sing N N 96 NCO N5 HN53 sing N N 97 NCO N6 HN61 sing N N 98 NCO N6 HN62 sing N N 99 NCO N6 HN63 sing N N 100 # _ndb_struct_conf_na.entry_id 312D _ndb_struct_conf_na.feature 'z-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 B DG 7 1_555 -0.296 -0.007 -0.127 12.664 3.467 2.045 1 A_DC2:DG14_B A 2 ? B 14 ? 19 1 1 A DG 3 1_555 B DC 6 1_555 0.316 -0.178 0.176 -6.068 -3.122 4.234 2 A_DG3:DC13_B A 3 ? B 13 ? 19 1 1 A DC 4 1_555 B DG 5 1_555 -0.206 -0.148 0.316 2.015 -1.311 3.379 3 A_DC4:DG12_B A 4 ? B 12 ? 19 1 1 A DG 5 1_555 B DC 4 1_555 0.203 -0.103 0.117 -3.205 -1.001 2.862 4 A_DG5:DC11_B A 5 ? B 11 ? 19 1 1 A DC 6 1_555 B DG 3 1_555 -0.474 0.073 0.226 7.062 -0.407 -2.175 5 A_DC6:DG10_B A 6 ? B 10 ? 19 1 1 A DG 7 1_555 B DC 2 1_555 0.222 -0.212 0.294 -4.499 -3.402 2.825 6 A_DG7:DC9_B A 7 ? B 9 ? 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 2 1_555 B DG 7 1_555 A DG 3 1_555 B DC 6 1_555 -0.010 5.602 3.977 -1.935 -1.411 -3.528 -53.115 -30.563 5.140 20.137 -27.622 -4.264 1 AA_DC2DG3:DC13DG14_BB A 2 ? B 14 ? A 3 ? B 13 ? 1 A DG 3 1_555 B DC 6 1_555 A DC 4 1_555 B DG 5 1_555 -0.059 -1.271 3.334 -0.120 -3.272 -50.002 1.739 -0.078 3.250 3.866 -0.142 -50.103 2 AA_DG3DC4:DG12DC13_BB A 3 ? B 13 ? A 4 ? B 12 ? 1 A DC 4 1_555 B DG 5 1_555 A DG 5 1_555 B DC 4 1_555 0.053 5.262 3.842 2.143 -1.990 -8.900 -26.496 6.485 4.754 12.394 13.346 -9.368 3 AA_DC4DG5:DC11DG12_BB A 4 ? B 12 ? A 5 ? B 11 ? 1 A DG 5 1_555 B DC 4 1_555 A DC 6 1_555 B DG 3 1_555 -0.238 -0.986 3.260 -1.519 -0.585 -50.922 1.187 -0.381 3.241 0.680 -1.767 -50.946 4 AA_DG5DC6:DG10DC11_BB A 5 ? B 11 ? A 6 ? B 10 ? 1 A DC 6 1_555 B DG 3 1_555 A DG 7 1_555 B DC 2 1_555 0.206 5.696 4.157 -3.573 2.944 -6.519 -48.916 -8.301 1.388 -22.520 -27.330 -7.994 5 AA_DC6DG7:DC9DG10_BB A 6 ? B 10 ? A 7 ? B 9 ? # _pdbx_initial_refinement_model.accession_code 313D _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.details ZDGB55 # _atom_sites.entry_id 312D _atom_sites.fract_transf_matrix[1][1] 0.049213 _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] 0.033852 _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] 0.019290 _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 CO MG N O P # loop_