data_2I5A
#
_entry.id 2I5A
#
_audit_conform.dict_name mmcif_pdbx.dic
_audit_conform.dict_version 5.377
_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 2I5A pdb_00002i5a 10.2210/pdb2i5a/pdb
NDB DD0085 ? ?
RCSB RCSB039154 ? ?
WWPDB D_1000039154 ? ?
#
_pdbx_database_status.status_code REL
_pdbx_database_status.entry_id 2I5A
_pdbx_database_status.recvd_initial_deposition_date 2006-08-24
_pdbx_database_status.deposit_site RCSB
_pdbx_database_status.process_site RCSB
_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.methods_development_category ?
_pdbx_database_status.status_code_nmr_data ?
#
loop_
_audit_author.name
_audit_author.pdbx_ordinal
'Neidle, S.' 1
'Lee, M.P.H.' 2
#
_citation.id primary
_citation.title 'Crystal structure of a DB1055-D(CGCGAATTCGCG)2 complex'
_citation.journal_abbrev 'To be Published'
_citation.journal_volume ?
_citation.page_first ?
_citation.page_last ?
_citation.year ?
_citation.journal_id_ASTM ?
_citation.country ?
_citation.journal_id_ISSN ?
_citation.journal_id_CSD 0353
_citation.book_publisher ?
_citation.pdbx_database_id_PubMed ?
_citation.pdbx_database_id_DOI ?
#
loop_
_citation_author.citation_id
_citation_author.name
_citation_author.ordinal
_citation_author.identifier_ORCID
primary 'Neidle, S.' 1 ?
primary 'Lee, M.P.H.' 2 ?
#
_cell.entry_id 2I5A
_cell.length_a 24.145
_cell.length_b 39.842
_cell.length_c 65.794
_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 2I5A
_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
_symmetry.space_group_name_Hall ?
#
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*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3'" 3663.392 2 ? ? ? ?
2 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ?
3 non-polymer syn "2-{3'-[AMINO(IMINO)METHYL]BIPHENYL-4-YL}-1H-BENZIMIDAZOLE-5-CARBOXIMIDAMIDE" 354.408 1 ? ? ? ?
4 water nat water 18.015 84 ? ? ? ?
#
_entity_poly.entity_id 1
_entity_poly.type polydeoxyribonucleotide
_entity_poly.nstd_linkage no
_entity_poly.nstd_monomer no
_entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(DC)(DG)(DC)(DG)'
_entity_poly.pdbx_seq_one_letter_code_can CGCGAATTCGCG
_entity_poly.pdbx_strand_id A,B
_entity_poly.pdbx_target_identifier ?
#
loop_
_entity_poly_seq.entity_id
_entity_poly_seq.num
_entity_poly_seq.mon_id
_entity_poly_seq.hetero
1 1 DC n
1 2 DG n
1 3 DC n
1 4 DG n
1 5 DA n
1 6 DA n
1 7 DT n
1 8 DT n
1 9 DC n
1 10 DG n
1 11 DC n
1 12 DG n
#
_struct_ref.id 1
_struct_ref.entity_id 1
_struct_ref.db_name PDB
_struct_ref.db_code 2I5A
_struct_ref.pdbx_db_accession 2I5A
_struct_ref.pdbx_db_isoform ?
_struct_ref.pdbx_seq_one_letter_code ?
_struct_ref.pdbx_align_begin ?
#
loop_
_struct_ref_seq.align_id
_struct_ref_seq.ref_id
_struct_ref_seq.pdbx_PDB_id_code
_struct_ref_seq.pdbx_strand_id
_struct_ref_seq.seq_align_beg
_struct_ref_seq.pdbx_seq_align_beg_ins_code
_struct_ref_seq.seq_align_end
_struct_ref_seq.pdbx_seq_align_end_ins_code
_struct_ref_seq.pdbx_db_accession
_struct_ref_seq.db_align_beg
_struct_ref_seq.pdbx_db_align_beg_ins_code
_struct_ref_seq.db_align_end
_struct_ref_seq.pdbx_db_align_end_ins_code
_struct_ref_seq.pdbx_auth_seq_align_beg
_struct_ref_seq.pdbx_auth_seq_align_end
1 1 2I5A A 1 ? 12 ? 2I5A 1 ? 12 ? 1 12
2 1 2I5A B 1 ? 12 ? 2I5A 13 ? 24 ? 13 24
#
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
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
M1B non-polymer . "2-{3'-[AMINO(IMINO)METHYL]BIPHENYL-4-YL}-1H-BENZIMIDAZOLE-5-CARBOXIMIDAMIDE" ? 'C21 H18 N6' 354.408
MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305
#
_exptl.entry_id 2I5A
_exptl.method 'X-RAY DIFFRACTION'
_exptl.crystals_number 1
#
_exptl_crystal.id 1
_exptl_crystal.density_meas ?
_exptl_crystal.density_Matthews 2.07
_exptl_crystal.density_percent_sol 40.56
_exptl_crystal.description ?
_exptl_crystal.F_000 ?
_exptl_crystal.preparation ?
#
_exptl_crystal_grow.crystal_id 1
_exptl_crystal_grow.method ?
_exptl_crystal_grow.temp ?
_exptl_crystal_grow.temp_details ?
_exptl_crystal_grow.pH 7.00
_exptl_crystal_grow.pdbx_details
;MAGNESIUM CHLORIDE, DNA DODECAMER, MPD, COMPOUND DB 1055, SODIUM CACODYLATE BUFFER, pH 7, VAPOR DIFFUSION, HANGING
DROP, pH 7.00
;
_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 'MAGNESIUM CHLORIDE' ? ? ?
1 2 1 MPD ? ? ?
1 3 1 'SODIUM CACODYLATE BUFFER' ? ? ?
1 4 1 HOH ? ? ?
1 5 2 'MAGNESIUM CHLORIDE' ? ? ?
1 6 2 MPD ? ? ?
1 7 2 'SODIUM CACODYLATE BUFFER' ? ? ?
1 8 2 HOH ? ? ?
#
_diffrn.id 1
_diffrn.ambient_temp 105.0
_diffrn.ambient_temp_details ?
_diffrn.crystal_id 1
#
_diffrn_detector.diffrn_id 1
_diffrn_detector.detector 'IMAGE PLATE'
_diffrn_detector.type 'RIGAKU RAXIS IV'
_diffrn_detector.pdbx_collection_date 2006-07-17
_diffrn_detector.details 'OSMIC FOCUSING MIRROR SYSTEM'
#
_diffrn_radiation.diffrn_id 1
_diffrn_radiation.wavelength_id 1
_diffrn_radiation.pdbx_monochromatic_or_laue_m_l M
_diffrn_radiation.monochromator 'NI FILTER'
_diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH'
_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 'ROTATING ANODE'
_diffrn_source.type 'RIGAKU RU200'
_diffrn_source.pdbx_synchrotron_site ?
_diffrn_source.pdbx_synchrotron_beamline ?
_diffrn_source.pdbx_wavelength 1.5418
_diffrn_source.pdbx_wavelength_list ?
#
_reflns.entry_id 2I5A
_reflns.observed_criterion_sigma_I 0.000
_reflns.observed_criterion_sigma_F ?
_reflns.d_resolution_low 25.000
_reflns.d_resolution_high 1.650
_reflns.number_obs 7580
_reflns.number_all ?
_reflns.percent_possible_obs 93.1
_reflns.pdbx_Rmerge_I_obs 0.035
_reflns.pdbx_Rsym_value ?
_reflns.pdbx_netI_over_sigmaI 33.42
_reflns.B_iso_Wilson_estimate ?
_reflns.pdbx_redundancy 2.91
_reflns.R_free_details ?
_reflns.pdbx_chi_squared ?
_reflns.pdbx_scaling_rejects ?
_reflns.pdbx_diffrn_id 1
_reflns.pdbx_ordinal 1
#
_reflns_shell.d_res_high 1.65
_reflns_shell.d_res_low 1.71
_reflns_shell.percent_possible_all 90.7
_reflns_shell.Rmerge_I_obs 0.219
_reflns_shell.pdbx_Rsym_value ?
_reflns_shell.meanI_over_sigI_obs 4.80
_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_diffrn_id ?
_reflns_shell.pdbx_ordinal 1
#
_refine.entry_id 2I5A
_refine.ls_number_reflns_obs 7500
_refine.ls_number_reflns_all ?
_refine.pdbx_ls_sigma_I ?
_refine.pdbx_ls_sigma_F 2.000
_refine.pdbx_data_cutoff_high_absF ?
_refine.pdbx_data_cutoff_low_absF ?
_refine.pdbx_data_cutoff_high_rms_absF ?
_refine.ls_d_res_low 8.00
_refine.ls_d_res_high 1.65
_refine.ls_percent_reflns_obs 84.2
_refine.ls_R_factor_obs 0.201
_refine.ls_R_factor_all 0.206
_refine.ls_R_factor_R_work 0.201
_refine.ls_R_factor_R_free 0.287
_refine.ls_R_factor_R_free_error ?
_refine.ls_R_factor_R_free_error_details ?
_refine.ls_percent_reflns_R_free 9.92
_refine.ls_number_reflns_R_free 744
_refine.ls_number_parameters 2359
_refine.ls_number_restraints 2359
_refine.occupancy_min ?
_refine.occupancy_max ?
_refine.correlation_coeff_Fo_to_Fc ?
_refine.correlation_coeff_Fo_to_Fc_free ?
_refine.B_iso_mean ?
_refine.aniso_B[1][1] ?
_refine.aniso_B[2][2] ?
_refine.aniso_B[3][3] ?
_refine.aniso_B[1][2] ?
_refine.aniso_B[1][3] ?
_refine.aniso_B[2][3] ?
_refine.solvent_model_details 'MOEWS & KRETSINGER, J.MOL.BIOL.91(1973)201-22'
_refine.solvent_model_param_ksol ?
_refine.solvent_model_param_bsol ?
_refine.pdbx_solvent_vdw_probe_radii ?
_refine.pdbx_solvent_ion_probe_radii ?
_refine.pdbx_solvent_shrinkage_radii ?
_refine.pdbx_ls_cross_valid_method THROUGHOUT
_refine.details ?
_refine.pdbx_starting_model 'PDB ENTRY 2DBE'
_refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT'
_refine.pdbx_isotropic_thermal_model ?
_refine.pdbx_stereochemistry_target_values 'ENGH & HUBER'
_refine.pdbx_stereochem_target_val_spec_case ?
_refine.pdbx_R_Free_selection_details RANDOM
_refine.pdbx_overall_ESU_R ?
_refine.pdbx_overall_ESU_R_Free ?
_refine.overall_SU_ML ?
_refine.overall_SU_B ?
_refine.ls_redundancy_reflns_obs ?
_refine.overall_SU_R_Cruickshank_DPI ?
_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_overall_phase_error ?
_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine.pdbx_diffrn_id 1
_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_analyze.entry_id 2I5A
_refine_analyze.Luzzati_coordinate_error_obs ?
_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 0.00
_refine_analyze.occupancy_sum_hydrogen 0.00
_refine_analyze.occupancy_sum_non_hydrogen 598.0
_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 486
_refine_hist.pdbx_number_atoms_ligand 28
_refine_hist.number_atoms_solvent 84
_refine_hist.number_atoms_total 598
_refine_hist.d_res_high 1.65
_refine_hist.d_res_low 8.00
#
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
s_bond_d 0.008 ? ? ? 'X-RAY DIFFRACTION' ?
s_angle_d 0.027 ? ? ? 'X-RAY DIFFRACTION' ?
s_similar_dist 0.000 ? ? ? 'X-RAY DIFFRACTION' ?
s_from_restr_planes 0.012 ? ? ? 'X-RAY DIFFRACTION' ?
s_zero_chiral_vol 0.000 ? ? ? 'X-RAY DIFFRACTION' ?
s_non_zero_chiral_vol 0.007 ? ? ? 'X-RAY DIFFRACTION' ?
s_anti_bump_dis_restr 0.006 ? ? ? 'X-RAY DIFFRACTION' ?
s_rigid_bond_adp_cmpnt 0.000 ? ? ? 'X-RAY DIFFRACTION' ?
s_similar_adp_cmpnt 0.063 ? ? ? 'X-RAY DIFFRACTION' ?
s_approx_iso_adps 0.000 ? ? ? 'X-RAY DIFFRACTION' ?
#
_pdbx_refine.entry_id 2I5A
_pdbx_refine.R_factor_all_no_cutoff 0.206
_pdbx_refine.R_factor_obs_no_cutoff 0.201
_pdbx_refine.free_R_factor_no_cutoff 0.287
_pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 9.92
_pdbx_refine.free_R_val_test_set_ct_no_cutoff 744
_pdbx_refine.R_factor_all_4sig_cutoff 0.198
_pdbx_refine.R_factor_obs_4sig_cutoff 0.194
_pdbx_refine.free_R_factor_4sig_cutoff 0.278
_pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 9.87
_pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 663
_pdbx_refine.number_reflns_obs_4sig_cutoff 6716
_pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_pdbx_refine.free_R_error_no_cutoff ?
#
_struct.entry_id 2I5A
_struct.title 'Crystal structure of a DB1055-D(CGCGAATTCGCG)2 complex'
_struct.pdbx_model_details ?
_struct.pdbx_CASP_flag ?
_struct.pdbx_model_type_details ?
#
_struct_keywords.entry_id 2I5A
_struct_keywords.pdbx_keywords DNA
_struct_keywords.text 'B-type DNA dodecamer with compound DB 1055, DNA'
#
loop_
_struct_asym.id
_struct_asym.pdbx_blank_PDB_chainid_flag
_struct_asym.pdbx_modified
_struct_asym.entity_id
_struct_asym.details
A N N 1 ?
B N N 1 ?
C N N 2 ?
D N N 3 ?
E N N 4 ?
F N N 4 ?
#
_struct_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 ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 26 A HOH 27 1_555 ? ? ? ? ? ? ? 2.118 ? ?
metalc2 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 26 A HOH 28 1_555 ? ? ? ? ? ? ? 2.117 ? ?
metalc3 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 26 A HOH 29 1_555 ? ? ? ? ? ? ? 2.134 ? ?
metalc4 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 26 B HOH 25 1_555 ? ? ? ? ? ? ? 2.133 ? ?
metalc5 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 26 B HOH 26 1_555 ? ? ? ? ? ? ? 2.129 ? ?
metalc6 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 26 B HOH 27 1_555 ? ? ? ? ? ? ? 2.114 ? ?
hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 9 N3 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 9 O2 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 9 N4 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog15 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog16 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog17 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog18 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog21 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog22 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog23 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog24 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog25 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog26 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog27 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog28 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog29 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog30 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog31 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog32 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
#
loop_
_struct_conn_type.id
_struct_conn_type.criteria
_struct_conn_type.reference
metalc ? ?
hydrog ? ?
#
loop_
_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 MG 26 ? 6 'BINDING SITE FOR RESIDUE MG A 26'
AC2 Software A M1B 25 ? 12 'BINDING SITE FOR RESIDUE M1B A 25'
1 ? ? ? ? ? ? ?
#
loop_
_struct_site_gen.id
_struct_site_gen.site_id
_struct_site_gen.pdbx_num_res
_struct_site_gen.label_comp_id
_struct_site_gen.label_asym_id
_struct_site_gen.label_seq_id
_struct_site_gen.pdbx_auth_ins_code
_struct_site_gen.auth_comp_id
_struct_site_gen.auth_asym_id
_struct_site_gen.auth_seq_id
_struct_site_gen.label_atom_id
_struct_site_gen.label_alt_id
_struct_site_gen.symmetry
_struct_site_gen.details
1 AC1 6 HOH E . ? HOH A 27 . ? 1_555 ?
2 AC1 6 HOH E . ? HOH A 28 . ? 1_555 ?
3 AC1 6 HOH E . ? HOH A 29 . ? 1_555 ?
4 AC1 6 HOH F . ? HOH B 25 . ? 1_555 ?
5 AC1 6 HOH F . ? HOH B 26 . ? 1_555 ?
6 AC1 6 HOH F . ? HOH B 27 . ? 1_555 ?
7 AC2 12 DA A 5 ? DA A 5 . ? 1_555 ?
8 AC2 12 DA A 6 ? DA A 6 . ? 1_555 ?
9 AC2 12 DT A 7 ? DT A 7 . ? 1_555 ?
10 AC2 12 DT A 8 ? DT A 8 . ? 1_555 ?
11 AC2 12 DC A 9 ? DC A 9 . ? 1_555 ?
12 AC2 12 HOH E . ? HOH A 50 . ? 1_555 ?
13 AC2 12 HOH E . ? HOH A 72 . ? 1_555 ?
14 AC2 12 HOH E . ? HOH A 76 . ? 1_555 ?
15 AC2 12 DA B 6 ? DA B 18 . ? 1_555 ?
16 AC2 12 DT B 7 ? DT B 19 . ? 1_555 ?
17 AC2 12 DT B 8 ? DT B 20 . ? 1_555 ?
18 AC2 12 DC B 9 ? DC B 21 . ? 1_555 ?
#
_database_PDB_matrix.entry_id 2I5A
_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
#
_atom_sites.entry_id 2I5A
_atom_sites.fract_transf_matrix[1][1] 0.041416
_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] 0.025099
_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] 0.015199
_atom_sites.fract_transf_vector[1] 0.00000
_atom_sites.fract_transf_vector[2] 0.00000
_atom_sites.fract_transf_vector[3] 0.00000
#
loop_
_atom_type.symbol
C
MG
N
O
P
#
loop_
_pdbx_poly_seq_scheme.asym_id
_pdbx_poly_seq_scheme.entity_id
_pdbx_poly_seq_scheme.seq_id
_pdbx_poly_seq_scheme.mon_id
_pdbx_poly_seq_scheme.ndb_seq_num
_pdbx_poly_seq_scheme.pdb_seq_num
_pdbx_poly_seq_scheme.auth_seq_num
_pdbx_poly_seq_scheme.pdb_mon_id
_pdbx_poly_seq_scheme.auth_mon_id
_pdbx_poly_seq_scheme.pdb_strand_id
_pdbx_poly_seq_scheme.pdb_ins_code
_pdbx_poly_seq_scheme.hetero
A 1 1 DC 1 1 1 DC C A . n
A 1 2 DG 2 2 2 DG G A . n
A 1 3 DC 3 3 3 DC C A . n
A 1 4 DG 4 4 4 DG G A . n
A 1 5 DA 5 5 5 DA A A . n
A 1 6 DA 6 6 6 DA A A . n
A 1 7 DT 7 7 7 DT T A . n
A 1 8 DT 8 8 8 DT T A . n
A 1 9 DC 9 9 9 DC C A . n
A 1 10 DG 10 10 10 DG G A . n
A 1 11 DC 11 11 11 DC C A . n
A 1 12 DG 12 12 12 DG G A . n
B 1 1 DC 1 13 13 DC C B . n
B 1 2 DG 2 14 14 DG G B . n
B 1 3 DC 3 15 15 DC C B . n
B 1 4 DG 4 16 16 DG G B . n
B 1 5 DA 5 17 17 DA A B . n
B 1 6 DA 6 18 18 DA A B . n
B 1 7 DT 7 19 19 DT T B . n
B 1 8 DT 8 20 20 DT T B . n
B 1 9 DC 9 21 21 DC C B . n
B 1 10 DG 10 22 22 DG G B . n
B 1 11 DC 11 23 23 DC C B . n
B 1 12 DG 12 24 24 DG G B . n
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.pdb_ins_code
C 2 MG 1 26 26 MG MG A .
D 3 M1B 1 25 25 M1B M1B A .
E 4 HOH 1 27 127 HOH HOH A .
E 4 HOH 2 28 128 HOH HOH A .
E 4 HOH 3 29 131 HOH HOH A .
E 4 HOH 4 30 28 HOH HOH A .
E 4 HOH 5 31 29 HOH HOH A .
E 4 HOH 6 32 31 HOH HOH A .
E 4 HOH 7 33 32 HOH HOH A .
E 4 HOH 8 34 33 HOH HOH A .
E 4 HOH 9 35 35 HOH HOH A .
E 4 HOH 10 36 36 HOH HOH A .
E 4 HOH 11 37 38 HOH HOH A .
E 4 HOH 12 38 41 HOH HOH A .
E 4 HOH 13 39 42 HOH HOH A .
E 4 HOH 14 40 43 HOH HOH A .
E 4 HOH 15 41 44 HOH HOH A .
E 4 HOH 16 42 45 HOH HOH A .
E 4 HOH 17 43 46 HOH HOH A .
E 4 HOH 18 44 48 HOH HOH A .
E 4 HOH 19 45 49 HOH HOH A .
E 4 HOH 20 46 50 HOH HOH A .
E 4 HOH 21 47 51 HOH HOH A .
E 4 HOH 22 48 55 HOH HOH A .
E 4 HOH 23 49 56 HOH HOH A .
E 4 HOH 24 50 57 HOH HOH A .
E 4 HOH 25 51 61 HOH HOH A .
E 4 HOH 26 52 62 HOH HOH A .
E 4 HOH 27 53 63 HOH HOH A .
E 4 HOH 28 54 64 HOH HOH A .
E 4 HOH 29 55 65 HOH HOH A .
E 4 HOH 30 56 66 HOH HOH A .
E 4 HOH 31 57 67 HOH HOH A .
E 4 HOH 32 58 69 HOH HOH A .
E 4 HOH 33 59 72 HOH HOH A .
E 4 HOH 34 60 73 HOH HOH A .
E 4 HOH 35 61 74 HOH HOH A .
E 4 HOH 36 62 75 HOH HOH A .
E 4 HOH 37 63 77 HOH HOH A .
E 4 HOH 38 64 79 HOH HOH A .
E 4 HOH 39 65 80 HOH HOH A .
E 4 HOH 40 66 81 HOH HOH A .
E 4 HOH 41 67 85 HOH HOH A .
E 4 HOH 42 68 86 HOH HOH A .
E 4 HOH 43 69 89 HOH HOH A .
E 4 HOH 44 70 91 HOH HOH A .
E 4 HOH 45 71 93 HOH HOH A .
E 4 HOH 46 72 95 HOH HOH A .
E 4 HOH 47 73 96 HOH HOH A .
E 4 HOH 48 74 97 HOH HOH A .
E 4 HOH 49 75 98 HOH HOH A .
E 4 HOH 50 76 99 HOH HOH A .
E 4 HOH 51 77 101 HOH HOH A .
E 4 HOH 52 78 102 HOH HOH A .
E 4 HOH 53 79 103 HOH HOH A .
E 4 HOH 54 80 104 HOH HOH A .
F 4 HOH 1 25 126 HOH HOH B .
F 4 HOH 2 26 129 HOH HOH B .
F 4 HOH 3 27 130 HOH HOH B .
F 4 HOH 4 28 27 HOH HOH B .
F 4 HOH 5 29 30 HOH HOH B .
F 4 HOH 6 30 34 HOH HOH B .
F 4 HOH 7 31 37 HOH HOH B .
F 4 HOH 8 32 39 HOH HOH B .
F 4 HOH 9 33 40 HOH HOH B .
F 4 HOH 10 34 47 HOH HOH B .
F 4 HOH 11 35 52 HOH HOH B .
F 4 HOH 12 36 53 HOH HOH B .
F 4 HOH 13 37 54 HOH HOH B .
F 4 HOH 14 38 58 HOH HOH B .
F 4 HOH 15 39 59 HOH HOH B .
F 4 HOH 16 40 60 HOH HOH B .
F 4 HOH 17 41 68 HOH HOH B .
F 4 HOH 18 42 70 HOH HOH B .
F 4 HOH 19 43 71 HOH HOH B .
F 4 HOH 20 44 76 HOH HOH B .
F 4 HOH 21 45 78 HOH HOH B .
F 4 HOH 22 46 82 HOH HOH B .
F 4 HOH 23 47 83 HOH HOH B .
F 4 HOH 24 48 84 HOH HOH B .
F 4 HOH 25 49 87 HOH HOH B .
F 4 HOH 26 50 88 HOH HOH B .
F 4 HOH 27 51 90 HOH HOH B .
F 4 HOH 28 52 92 HOH HOH B .
F 4 HOH 29 53 94 HOH HOH B .
F 4 HOH 30 54 100 HOH HOH B .
#
_struct_site_keywords.site_id 1
_struct_site_keywords.text 'MINOR GROOVE BINDER'
#
_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
#
loop_
_pdbx_struct_conn_angle.id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_alt_id
_pdbx_struct_conn_angle.ptnr1_label_asym_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr1_auth_atom_id
_pdbx_struct_conn_angle.ptnr1_auth_asym_id
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_PDB_ins_code
_pdbx_struct_conn_angle.ptnr1_symmetry
_pdbx_struct_conn_angle.ptnr2_label_atom_id
_pdbx_struct_conn_angle.ptnr2_label_alt_id
_pdbx_struct_conn_angle.ptnr2_label_asym_id
_pdbx_struct_conn_angle.ptnr2_label_comp_id
_pdbx_struct_conn_angle.ptnr2_label_seq_id
_pdbx_struct_conn_angle.ptnr2_auth_atom_id
_pdbx_struct_conn_angle.ptnr2_auth_asym_id
_pdbx_struct_conn_angle.ptnr2_auth_comp_id
_pdbx_struct_conn_angle.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_PDB_ins_code
_pdbx_struct_conn_angle.ptnr2_symmetry
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_alt_id
_pdbx_struct_conn_angle.ptnr3_label_asym_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_atom_id
_pdbx_struct_conn_angle.ptnr3_auth_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_PDB_ins_code
_pdbx_struct_conn_angle.ptnr3_symmetry
_pdbx_struct_conn_angle.value
_pdbx_struct_conn_angle.value_esd
1 O ? E HOH . ? A HOH 27 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 28 ? 1_555 90.6 ?
2 O ? E HOH . ? A HOH 27 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 29 ? 1_555 88.9 ?
3 O ? E HOH . ? A HOH 28 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 29 ? 1_555 91.0 ?
4 O ? E HOH . ? A HOH 27 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 25 ? 1_555 92.1 ?
5 O ? E HOH . ? A HOH 28 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 25 ? 1_555 177.3 ?
6 O ? E HOH . ? A HOH 29 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 25 ? 1_555 88.7 ?
7 O ? E HOH . ? A HOH 27 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 26 ? 1_555 176.6 ?
8 O ? E HOH . ? A HOH 28 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 26 ? 1_555 87.5 ?
9 O ? E HOH . ? A HOH 29 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 26 ? 1_555 88.3 ?
10 O ? F HOH . ? B HOH 25 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 26 ? 1_555 89.8 ?
11 O ? E HOH . ? A HOH 27 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 27 ? 1_555 91.0 ?
12 O ? E HOH . ? A HOH 28 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 27 ? 1_555 90.4 ?
13 O ? E HOH . ? A HOH 29 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 27 ? 1_555 178.6 ?
14 O ? F HOH . ? B HOH 25 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 27 ? 1_555 89.8 ?
15 O ? F HOH . ? B HOH 26 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 27 ? 1_555 91.8 ?
#
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 2008-04-08
2 'Structure model' 1 1 2011-07-13
3 'Structure model' 1 2 2018-01-31
4 'Structure model' 1 3 2019-07-24
5 'Structure model' 1 4 2023-08-30
#
_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' 'Experimental preparation'
3 4 'Structure model' 'Data collection'
4 4 'Structure model' 'Refinement description'
5 5 'Structure model' 'Data collection'
6 5 'Structure model' 'Database references'
7 5 'Structure model' 'Derived calculations'
8 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 3 'Structure model' exptl_crystal_grow
2 4 'Structure model' software
3 5 'Structure model' chem_comp_atom
4 5 'Structure model' chem_comp_bond
5 5 'Structure model' database_2
6 5 'Structure model' pdbx_initial_refinement_model
7 5 'Structure model' pdbx_struct_conn_angle
8 5 'Structure model' struct_conn
9 5 '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 3 'Structure model' '_exptl_crystal_grow.pdbx_details'
2 3 'Structure model' '_exptl_crystal_grow.temp'
3 4 'Structure model' '_software.classification'
4 4 'Structure model' '_software.name'
5 5 'Structure model' '_database_2.pdbx_DOI'
6 5 'Structure model' '_database_2.pdbx_database_accession'
7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id'
8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id'
9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id'
10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id'
11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id'
12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id'
13 5 'Structure model' '_pdbx_struct_conn_angle.value'
14 5 'Structure model' '_struct_conn.pdbx_dist_value'
15 5 'Structure model' '_struct_conn.ptnr2_auth_asym_id'
16 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id'
17 5 'Structure model' '_struct_conn.ptnr2_label_asym_id'
18 5 'Structure model' '_struct_site.pdbx_auth_asym_id'
19 5 'Structure model' '_struct_site.pdbx_auth_comp_id'
20 5 'Structure model' '_struct_site.pdbx_auth_seq_id'
#
loop_
_software.name
_software.classification
_software.version
_software.citation_id
_software.pdbx_ordinal
SHELXL-97 refinement . ? 1
CNS refinement . ? 2
CrystalClear 'data collection' . ? 3
DENZO 'data reduction' . ? 4
SCALEPACK 'data scaling' . ? 5
CNS phasing . ? 6
#
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 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 103.28 108.00 -4.72 0.70 N
2 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 103.36 108.00 -4.64 0.70 N
3 1 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 103.17 108.00 -4.83 0.70 N
4 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? N9 A DA 6 ? ? 102.35 108.00 -5.65 0.70 N
5 1 "O4'" A DT 8 ? ? "C1'" A DT 8 ? ? N1 A DT 8 ? ? 102.92 108.00 -5.08 0.70 N
6 1 "O4'" A DC 9 ? ? "C1'" A DC 9 ? ? N1 A DC 9 ? ? 102.35 108.00 -5.65 0.70 N
7 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 102.66 108.00 -5.34 0.70 N
8 1 "C3'" A DC 11 ? ? "O3'" A DC 11 ? ? P A DG 12 ? ? 126.92 119.70 7.22 1.20 Y
9 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 103.16 108.00 -4.84 0.70 N
10 1 "O4'" B DA 18 ? ? "C1'" B DA 18 ? ? N9 B DA 18 ? ? 103.72 108.00 -4.28 0.70 N
11 1 "O4'" B DC 21 ? ? "C1'" B DC 21 ? ? N1 B DC 21 ? ? 101.68 108.00 -6.32 0.70 N
#
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
DA OP3 O N N 1
DA P P N N 2
DA OP1 O N N 3
DA OP2 O N N 4
DA "O5'" O N N 5
DA "C5'" C N N 6
DA "C4'" C N R 7
DA "O4'" O N N 8
DA "C3'" C N S 9
DA "O3'" O N N 10
DA "C2'" C N N 11
DA "C1'" C N R 12
DA N9 N Y N 13
DA C8 C Y N 14
DA N7 N Y N 15
DA C5 C Y N 16
DA C6 C Y N 17
DA N6 N N N 18
DA N1 N Y N 19
DA C2 C Y N 20
DA N3 N Y N 21
DA C4 C Y N 22
DA HOP3 H N N 23
DA HOP2 H N N 24
DA "H5'" H N N 25
DA "H5''" H N N 26
DA "H4'" H N N 27
DA "H3'" H N N 28
DA "HO3'" H N N 29
DA "H2'" H N N 30
DA "H2''" H N N 31
DA "H1'" H N N 32
DA H8 H N N 33
DA H61 H N N 34
DA H62 H N N 35
DA H2 H N N 36
DC OP3 O N N 37
DC P P N N 38
DC OP1 O N N 39
DC OP2 O N N 40
DC "O5'" O N N 41
DC "C5'" C N N 42
DC "C4'" C N R 43
DC "O4'" O N N 44
DC "C3'" C N S 45
DC "O3'" O N N 46
DC "C2'" C N N 47
DC "C1'" C N R 48
DC N1 N N N 49
DC C2 C N N 50
DC O2 O N N 51
DC N3 N N N 52
DC C4 C N N 53
DC N4 N N N 54
DC C5 C N N 55
DC C6 C N N 56
DC HOP3 H N N 57
DC HOP2 H N N 58
DC "H5'" H N N 59
DC "H5''" H N N 60
DC "H4'" H N N 61
DC "H3'" H N N 62
DC "HO3'" H N N 63
DC "H2'" H N N 64
DC "H2''" H N N 65
DC "H1'" H N N 66
DC H41 H N N 67
DC H42 H N N 68
DC H5 H N N 69
DC H6 H N N 70
DG OP3 O N N 71
DG P P N N 72
DG OP1 O N N 73
DG OP2 O N N 74
DG "O5'" O N N 75
DG "C5'" C N N 76
DG "C4'" C N R 77
DG "O4'" O N N 78
DG "C3'" C N S 79
DG "O3'" O N N 80
DG "C2'" C N N 81
DG "C1'" C N R 82
DG N9 N Y N 83
DG C8 C Y N 84
DG N7 N Y N 85
DG C5 C Y N 86
DG C6 C N N 87
DG O6 O N N 88
DG N1 N N N 89
DG C2 C N N 90
DG N2 N N N 91
DG N3 N N N 92
DG C4 C Y N 93
DG HOP3 H N N 94
DG HOP2 H N N 95
DG "H5'" H N N 96
DG "H5''" H N N 97
DG "H4'" H N N 98
DG "H3'" H N N 99
DG "HO3'" H N N 100
DG "H2'" H N N 101
DG "H2''" H N N 102
DG "H1'" H N N 103
DG H8 H N N 104
DG H1 H N N 105
DG H21 H N N 106
DG H22 H N N 107
DT OP3 O N N 108
DT P P N N 109
DT OP1 O N N 110
DT OP2 O N N 111
DT "O5'" O N N 112
DT "C5'" C N N 113
DT "C4'" C N R 114
DT "O4'" O N N 115
DT "C3'" C N S 116
DT "O3'" O N N 117
DT "C2'" C N N 118
DT "C1'" C N R 119
DT N1 N N N 120
DT C2 C N N 121
DT O2 O N N 122
DT N3 N N N 123
DT C4 C N N 124
DT O4 O N N 125
DT C5 C N N 126
DT C7 C N N 127
DT C6 C N N 128
DT HOP3 H N N 129
DT HOP2 H N N 130
DT "H5'" H N N 131
DT "H5''" H N N 132
DT "H4'" H N N 133
DT "H3'" H N N 134
DT "HO3'" H N N 135
DT "H2'" H N N 136
DT "H2''" H N N 137
DT "H1'" H N N 138
DT H3 H N N 139
DT H71 H N N 140
DT H72 H N N 141
DT H73 H N N 142
DT H6 H N N 143
HOH O O N N 144
HOH H1 H N N 145
HOH H2 H N N 146
M1B C1 C Y N 147
M1B C2 C Y N 148
M1B C3 C Y N 149
M1B C4 C Y N 150
M1B C5 C Y N 151
M1B C6 C Y N 152
M1B C7 C Y N 153
M1B C8 C Y N 154
M1B C9 C Y N 155
M1B C10 C Y N 156
M1B C11 C Y N 157
M1B C12 C Y N 158
M1B C13 C Y N 159
M1B C14 C N N 160
M1B N15 N N N 161
M1B N16 N N N 162
M1B N17 N Y N 163
M1B C18 C Y N 164
M1B C19 C Y N 165
M1B N20 N Y N 166
M1B C21 C Y N 167
M1B C22 C Y N 168
M1B C23 C Y N 169
M1B C24 C Y N 170
M1B C25 C N N 171
M1B N26 N N N 172
M1B N27 N N N 173
M1B H1 H N N 174
M1B H2 H N N 175
M1B H3 H N N 176
M1B H5 H N N 177
M1B H8 H N N 178
M1B H9 H N N 179
M1B H11 H N N 180
M1B H12 H N N 181
M1B HN15 H N N 182
M1B H161 H N N 183
M1B H162 H N N 184
M1B HN17 H N N 185
M1B H21 H N N 186
M1B H22 H N N 187
M1B H23 H N N 188
M1B H261 H N N 189
M1B H262 H N N 190
M1B HN27 H N N 191
MG MG MG N N 192
#
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
M1B C1 C2 doub Y N 152
M1B C1 C6 sing Y N 153
M1B C1 H1 sing N N 154
M1B C2 C3 sing Y N 155
M1B C2 H2 sing N N 156
M1B C3 C4 doub Y N 157
M1B C3 H3 sing N N 158
M1B C4 C7 sing Y N 159
M1B C4 C5 sing Y N 160
M1B C5 C6 doub Y N 161
M1B C5 H5 sing N N 162
M1B C6 C14 sing N N 163
M1B C7 C8 doub Y N 164
M1B C7 C12 sing Y N 165
M1B C8 C9 sing Y N 166
M1B C8 H8 sing N N 167
M1B C9 C10 doub Y N 168
M1B C9 H9 sing N N 169
M1B C10 C13 sing Y N 170
M1B C10 C11 sing Y N 171
M1B C11 C12 doub Y N 172
M1B C11 H11 sing N N 173
M1B C12 H12 sing N N 174
M1B C13 N20 doub Y N 175
M1B C13 N17 sing Y N 176
M1B C14 N16 sing N N 177
M1B C14 N15 doub N E 178
M1B N15 HN15 sing N N 179
M1B N16 H161 sing N N 180
M1B N16 H162 sing N N 181
M1B N17 C18 sing Y N 182
M1B N17 HN17 sing N N 183
M1B C18 C22 doub Y N 184
M1B C18 C19 sing Y N 185
M1B C19 C21 doub Y N 186
M1B C19 N20 sing Y N 187
M1B C21 C24 sing Y N 188
M1B C21 H21 sing N N 189
M1B C22 C23 sing Y N 190
M1B C22 H22 sing N N 191
M1B C23 C24 doub Y N 192
M1B C23 H23 sing N N 193
M1B C24 C25 sing N N 194
M1B C25 N26 sing N N 195
M1B C25 N27 doub N E 196
M1B N26 H261 sing N N 197
M1B N26 H262 sing N N 198
M1B N27 HN27 sing N N 199
#
_ndb_struct_conf_na.entry_id 2I5A
_ndb_struct_conf_na.feature 'b-form double helix'
#
loop_
_ndb_struct_na_base_pair.model_number
_ndb_struct_na_base_pair.i_label_asym_id
_ndb_struct_na_base_pair.i_label_comp_id
_ndb_struct_na_base_pair.i_label_seq_id
_ndb_struct_na_base_pair.i_symmetry
_ndb_struct_na_base_pair.j_label_asym_id
_ndb_struct_na_base_pair.j_label_comp_id
_ndb_struct_na_base_pair.j_label_seq_id
_ndb_struct_na_base_pair.j_symmetry
_ndb_struct_na_base_pair.shear
_ndb_struct_na_base_pair.stretch
_ndb_struct_na_base_pair.stagger
_ndb_struct_na_base_pair.buckle
_ndb_struct_na_base_pair.propeller
_ndb_struct_na_base_pair.opening
_ndb_struct_na_base_pair.pair_number
_ndb_struct_na_base_pair.pair_name
_ndb_struct_na_base_pair.i_auth_asym_id
_ndb_struct_na_base_pair.i_auth_seq_id
_ndb_struct_na_base_pair.i_PDB_ins_code
_ndb_struct_na_base_pair.j_auth_asym_id
_ndb_struct_na_base_pair.j_auth_seq_id
_ndb_struct_na_base_pair.j_PDB_ins_code
_ndb_struct_na_base_pair.hbond_type_28
_ndb_struct_na_base_pair.hbond_type_12
1 A DC 1 1_555 B DG 12 1_555 0.225 -0.235 0.034 1.060 -18.298 -0.329 1 A_DC1:DG24_B A 1 ? B 24 ? 19 1
1 A DG 2 1_555 B DC 11 1_555 -0.210 -0.216 0.356 5.453 -7.750 -4.064 2 A_DG2:DC23_B A 2 ? B 23 ? 19 1
1 A DC 3 1_555 B DG 10 1_555 0.283 -0.140 0.245 -4.375 -6.990 1.345 3 A_DC3:DG22_B A 3 ? B 22 ? 19 1
1 A DG 4 1_555 B DC 9 1_555 -0.372 -0.071 -0.001 10.959 -11.853 -1.219 4 A_DG4:DC21_B A 4 ? B 21 ? 19 1
1 A DA 5 1_555 B DT 8 1_555 0.024 -0.065 0.018 12.515 -20.163 2.598 5 A_DA5:DT20_B A 5 ? B 20 ? 20 1
1 A DA 6 1_555 B DT 7 1_555 0.141 -0.200 -0.108 1.425 -21.553 7.320 6 A_DA6:DT19_B A 6 ? B 19 ? 20 1
1 A DT 7 1_555 B DA 6 1_555 -0.022 -0.196 0.009 -0.958 -24.427 6.026 7 A_DT7:DA18_B A 7 ? B 18 ? 20 1
1 A DT 8 1_555 B DA 5 1_555 -0.191 -0.224 -0.066 -5.361 -17.127 3.788 8 A_DT8:DA17_B A 8 ? B 17 ? 20 1
1 A DC 9 1_555 B DG 4 1_555 0.256 -0.148 -0.099 -9.886 -13.420 0.953 9 A_DC9:DG16_B A 9 ? B 16 ? 19 1
1 A DG 10 1_555 B DC 3 1_555 -0.210 -0.155 0.112 9.400 -3.974 -0.119 10 A_DG10:DC15_B A 10 ? B 15 ? 19 1
1 A DC 11 1_555 B DG 2 1_555 0.108 -0.206 0.253 13.226 -25.523 -6.903 11 A_DC11:DG14_B A 11 ? B 14 ? 19 1
1 A DG 12 1_555 B DC 1 1_555 -0.407 -0.094 -0.152 6.374 17.410 -1.988 12 A_DG12:DC13_B A 12 ? B 13 ? 19 1
#
loop_
_ndb_struct_na_base_pair_step.model_number
_ndb_struct_na_base_pair_step.i_label_asym_id_1
_ndb_struct_na_base_pair_step.i_label_comp_id_1
_ndb_struct_na_base_pair_step.i_label_seq_id_1
_ndb_struct_na_base_pair_step.i_symmetry_1
_ndb_struct_na_base_pair_step.j_label_asym_id_1
_ndb_struct_na_base_pair_step.j_label_comp_id_1
_ndb_struct_na_base_pair_step.j_label_seq_id_1
_ndb_struct_na_base_pair_step.j_symmetry_1
_ndb_struct_na_base_pair_step.i_label_asym_id_2
_ndb_struct_na_base_pair_step.i_label_comp_id_2
_ndb_struct_na_base_pair_step.i_label_seq_id_2
_ndb_struct_na_base_pair_step.i_symmetry_2
_ndb_struct_na_base_pair_step.j_label_asym_id_2
_ndb_struct_na_base_pair_step.j_label_comp_id_2
_ndb_struct_na_base_pair_step.j_label_seq_id_2
_ndb_struct_na_base_pair_step.j_symmetry_2
_ndb_struct_na_base_pair_step.shift
_ndb_struct_na_base_pair_step.slide
_ndb_struct_na_base_pair_step.rise
_ndb_struct_na_base_pair_step.tilt
_ndb_struct_na_base_pair_step.roll
_ndb_struct_na_base_pair_step.twist
_ndb_struct_na_base_pair_step.x_displacement
_ndb_struct_na_base_pair_step.y_displacement
_ndb_struct_na_base_pair_step.helical_rise
_ndb_struct_na_base_pair_step.inclination
_ndb_struct_na_base_pair_step.tip
_ndb_struct_na_base_pair_step.helical_twist
_ndb_struct_na_base_pair_step.step_number
_ndb_struct_na_base_pair_step.step_name
_ndb_struct_na_base_pair_step.i_auth_asym_id_1
_ndb_struct_na_base_pair_step.i_auth_seq_id_1
_ndb_struct_na_base_pair_step.i_PDB_ins_code_1
_ndb_struct_na_base_pair_step.j_auth_asym_id_1
_ndb_struct_na_base_pair_step.j_auth_seq_id_1
_ndb_struct_na_base_pair_step.j_PDB_ins_code_1
_ndb_struct_na_base_pair_step.i_auth_asym_id_2
_ndb_struct_na_base_pair_step.i_auth_seq_id_2
_ndb_struct_na_base_pair_step.i_PDB_ins_code_2
_ndb_struct_na_base_pair_step.j_auth_asym_id_2
_ndb_struct_na_base_pair_step.j_auth_seq_id_2
_ndb_struct_na_base_pair_step.j_PDB_ins_code_2
1 A DC 1 1_555 B DG 12 1_555 A DG 2 1_555 B DC 11 1_555 -0.359 0.091 3.277 -2.663 7.354 32.087 -1.101 0.176 3.237 13.063
4.730 33.002 1 AA_DC1DG2:DC23DG24_BB A 1 ? B 24 ? A 2 ? B 23 ?
1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.807 0.587 3.534 2.319 -2.124 42.344 1.044 -0.860 3.539 -2.936
-3.206 42.455 2 AA_DG2DC3:DG22DC23_BB A 2 ? B 23 ? A 3 ? B 22 ?
1 A DC 3 1_555 B DG 10 1_555 A DG 4 1_555 B DC 9 1_555 -0.546 0.738 3.079 3.052 9.527 26.384 -0.649 1.815 3.073 19.983
-6.402 28.186 3 AA_DC3DG4:DC21DG22_BB A 3 ? B 22 ? A 4 ? B 21 ?
1 A DG 4 1_555 B DC 9 1_555 A DA 5 1_555 B DT 8 1_555 0.150 0.190 3.233 -0.067 2.529 38.090 -0.025 -0.238 3.238 3.870
0.102 38.171 4 AA_DG4DA5:DT20DC21_BB A 4 ? B 21 ? A 5 ? B 20 ?
1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B DT 7 1_555 0.306 -0.248 3.468 1.062 5.717 36.255 -1.220 -0.333 3.399 9.114
-1.694 36.703 5 AA_DA5DA6:DT19DT20_BB A 5 ? B 20 ? A 6 ? B 19 ?
1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 -0.006 -0.620 3.245 -1.875 0.332 32.032 -1.181 -0.322 3.234 0.600
3.395 32.087 6 AA_DA6DT7:DA18DT19_BB A 6 ? B 19 ? A 7 ? B 18 ?
1 A DT 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 -0.328 -0.259 3.306 2.420 -0.227 33.841 -0.408 0.953 3.277 -0.389
-4.151 33.925 7 AA_DT7DT8:DA17DA18_BB A 7 ? B 18 ? A 8 ? B 17 ?
1 A DT 8 1_555 B DA 5 1_555 A DC 9 1_555 B DG 4 1_555 0.097 0.372 3.366 1.835 0.491 41.345 0.473 0.065 3.371 0.696
-2.597 41.387 8 AA_DT8DC9:DG16DA17_BB A 8 ? B 17 ? A 9 ? B 16 ?
1 A DC 9 1_555 B DG 4 1_555 A DG 10 1_555 B DC 3 1_555 0.331 1.317 3.095 -2.874 7.124 26.103 1.022 -1.422 3.278 15.354
6.194 27.191 9 AA_DC9DG10:DC15DG16_BB A 9 ? B 16 ? A 10 ? B 15 ?
1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -1.057 0.997 3.415 -3.392 -13.679 43.543 2.499 1.061 3.055 -17.889
4.436 45.661 10 AA_DG10DC11:DG14DC15_BB A 10 ? B 15 ? A 11 ? B 14 ?
1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 1.544 0.625 3.697 5.060 -9.537 35.341 2.458 -1.659 3.594 -15.275
-8.104 36.903 11 AA_DC11DG12:DC13DG14_BB A 11 ? B 14 ? A 12 ? B 13 ?
#
loop_
_pdbx_entity_nonpoly.entity_id
_pdbx_entity_nonpoly.name
_pdbx_entity_nonpoly.comp_id
2 'MAGNESIUM ION' MG
3 "2-{3'-[AMINO(IMINO)METHYL]BIPHENYL-4-YL}-1H-BENZIMIDAZOLE-5-CARBOXIMIDAMIDE" M1B
4 water HOH
#
_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.accession_code 2DBE
_pdbx_initial_refinement_model.details 'PDB ENTRY 2DBE'
#