data_1VZK
#
_entry.id 1VZK
#
_audit_conform.dict_name mmcif_pdbx.dic
_audit_conform.dict_version 5.382
_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 1VZK pdb_00001vzk 10.2210/pdb1vzk/pdb
PDBE EBI-15035 ? ?
WWPDB D_1290015035 ? ?
#
_pdbx_database_related.db_name PDB
_pdbx_database_related.db_id 2DBE
_pdbx_database_related.content_type unspecified
_pdbx_database_related.details
;DNA (5'- D( CP GP CP GP AP AP TP TP CP GP CP GP)-3') COMPLEXED WITH BERENIL (DIMINAZENE ACETURATE) (1,3-BIS(4'-AMIDINOPHENYL)TRIAZENE)
;
#
_pdbx_database_status.status_code REL
_pdbx_database_status.entry_id 1VZK
_pdbx_database_status.deposit_site PDBE
_pdbx_database_status.process_site PDBE
_pdbx_database_status.SG_entry .
_pdbx_database_status.recvd_initial_deposition_date 2004-05-20
_pdbx_database_status.pdb_format_compatible Y
_pdbx_database_status.status_code_sf REL
_pdbx_database_status.status_code_mr ?
_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
'Mallena, S.' 1
'Lee, M.P.H.' 2
'Bailly, C.' 3
'Neidle, S.' 4
'Kumar, A.' 5
'Boykin, D.W.' 6
'Wilson, W.D.' 7
#
_citation.id primary
_citation.title
;Thiophene-Based Diamidine Forms a "Super" at Binding Minor Groove Agent
;
_citation.journal_abbrev J.Am.Chem.Soc.
_citation.journal_volume 142
_citation.page_first 13659
_citation.page_last ?
_citation.year 2004
_citation.journal_id_ASTM JACSAT
_citation.country US
_citation.journal_id_ISSN 0002-7863
_citation.journal_id_CSD 0004
_citation.book_publisher ?
_citation.pdbx_database_id_PubMed 15493923
_citation.pdbx_database_id_DOI 10.1021/JA048175M
#
loop_
_citation_author.citation_id
_citation_author.name
_citation_author.ordinal
_citation_author.identifier_ORCID
primary 'Mallena, S.' 1 ?
primary 'Lee, M.P.H.' 2 ?
primary 'Bailly, C.' 3 ?
primary 'Neidle, S.' 4 ?
primary 'Kumar, A.' 5 ?
primary 'Boykin, D.W.' 6 ?
primary 'Wilson, W.D.' 7 ?
#
_cell.entry_id 1VZK
_cell.length_a 25.677
_cell.length_b 39.921
_cell.length_c 65.185
_cell.angle_alpha 90.00
_cell.angle_beta 90.00
_cell.angle_gamma 90.00
_cell.Z_PDB 8
_cell.pdbx_unique_axis ?
#
_symmetry.entry_id 1VZK
_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
#
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 '2-(5-{4-[AMINO(IMINO)METHYL]PHENYL}-2-THIENYL)-1H-BENZIMIDAZOLE-6- CARBOXIMIDAMIDE DIHYDROCHLORIDE' 360.436 1
? ? ? ?
3 non-polymer syn 'MAGNESIUM ION' 24.305 1
? ? ? ?
4 water nat water 18.015 60
? ? ? ?
#
_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.db_name PDB
_struct_ref.db_code 1VZK
_struct_ref.entity_id 1
_struct_ref.pdbx_seq_one_letter_code ?
_struct_ref.pdbx_align_begin ?
_struct_ref.pdbx_db_accession 1VZK
_struct_ref.pdbx_db_isoform ?
#
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 1VZK A 1 ? 12 ? 1VZK 1 ? 12 ? 1 12
2 1 1VZK B 1 ? 12 ? 1VZK 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
D1B non-polymer . '2-(5-{4-[AMINO(IMINO)METHYL]PHENYL}-2-THIENYL)-1H-BENZIMIDAZOLE-6- CARBOXIMIDAMIDE DIHYDROCHLORIDE' ?
'C19 H16 N6 S' 360.436
DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ?
'C10 H14 N5 O6 P' 331.222
DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ?
'C9 H14 N3 O7 P' 307.197
DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ?
'C10 H14 N5 O7 P' 347.221
DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ?
'C10 H15 N2 O8 P' 322.208
HOH non-polymer . WATER ? 'H2 O'
18.015
MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2'
24.305
#
_exptl.entry_id 1VZK
_exptl.method 'X-RAY DIFFRACTION'
_exptl.crystals_number 1
#
_exptl_crystal.id 1
_exptl_crystal.density_meas ?
_exptl_crystal.density_Matthews 2.80
_exptl_crystal.density_percent_sol 56.05
_exptl_crystal.description ?
#
_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_pH_range ?
_exptl_crystal_grow.pdbx_details 'MGCL2, DNA, COMPOUND DB818, MPD, SPERMINE, SODIUM CACODYLATE BUFFER., pH 7.00'
#
_diffrn.id 1
_diffrn.ambient_temp 103.0
_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 2003-04-28
_diffrn_detector.details 'OSMIC FOCUSSING MIRRORS'
#
_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 1.54178
_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 1.54178
_diffrn_source.pdbx_wavelength_list ?
#
_reflns.pdbx_diffrn_id 1
_reflns.pdbx_ordinal 1
_reflns.entry_id 1VZK
_reflns.observed_criterion_sigma_I 1.000
_reflns.observed_criterion_sigma_F ?
_reflns.d_resolution_low 17.000
_reflns.d_resolution_high 1.770
_reflns.number_obs 6667
_reflns.number_all ?
_reflns.percent_possible_obs 95.2
_reflns.pdbx_Rmerge_I_obs 0.04300
_reflns.pdbx_Rsym_value ?
_reflns.pdbx_netI_over_sigmaI 70.1800
_reflns.B_iso_Wilson_estimate ?
_reflns.pdbx_redundancy 6.580
#
_reflns_shell.pdbx_diffrn_id 1
_reflns_shell.pdbx_ordinal 1
_reflns_shell.d_res_high 1.77
_reflns_shell.d_res_low 1.83
_reflns_shell.percent_possible_all 92.5
_reflns_shell.Rmerge_I_obs 0.13500
_reflns_shell.pdbx_Rsym_value ?
_reflns_shell.meanI_over_sigI_obs 13.160
_reflns_shell.pdbx_redundancy ?
#
_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine.entry_id 1VZK
_refine.pdbx_diffrn_id 1
_refine.pdbx_TLS_residual_ADP_flag ?
_refine.ls_number_reflns_obs ?
_refine.ls_number_reflns_all 5894
_refine.pdbx_ls_sigma_I ?
_refine.pdbx_ls_sigma_F 2.0
_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 1.77
_refine.ls_percent_reflns_obs 85.8
_refine.ls_R_factor_obs 0.2273
_refine.ls_R_factor_all 0.2226
_refine.ls_R_factor_R_work ?
_refine.ls_R_factor_R_free 0.2953
_refine.ls_R_factor_R_free_error ?
_refine.ls_R_factor_R_free_error_details ?
_refine.ls_percent_reflns_R_free 10.1
_refine.ls_number_reflns_R_free 662
_refine.ls_number_parameters 2307
_refine.ls_number_restraints 2538
_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)201-228'
_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 'FREE R-VALUE'
_refine.details
'ANISOTROPIC SCALING APPLIED BY THE METHOD OF PARKIN, MOEZZI & HOPE, J.APPL.CRYST.28(1995)53-56'
_refine.pdbx_starting_model 'DNA PART OF NDB ENTRY GDL009 OR PDB ENTRY 2DBE'
_refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT'
_refine.pdbx_isotropic_thermal_model ?
_refine.pdbx_stereochemistry_target_values 'ENGH AND 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.pdbx_overall_phase_error ?
_refine.overall_SU_B ?
_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.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine_analyze.entry_id 1VZK
_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
_refine_analyze.occupancy_sum_hydrogen 0.00
_refine_analyze.occupancy_sum_non_hydrogen 573.00
#
_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 27
_refine_hist.number_atoms_solvent 60
_refine_hist.number_atoms_total 573
_refine_hist.d_res_high 1.77
_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 0.028 ? ? ? 'X-RAY DIFFRACTION' ?
s_similar_dist 0.000 ? ? ? 'X-RAY DIFFRACTION' ?
s_from_restr_planes 0.0015 ? ? ? 'X-RAY DIFFRACTION' ?
s_zero_chiral_vol 0.000 ? ? ? 'X-RAY DIFFRACTION' ?
s_non_zero_chiral_vol 0.006 ? ? ? 'X-RAY DIFFRACTION' ?
s_anti_bump_dis_restr 0.004 ? ? ? 'X-RAY DIFFRACTION' ?
s_rigid_bond_adp_cmpnt 0.000 ? ? ? 'X-RAY DIFFRACTION' ?
s_similar_adp_cmpnt 0.040 ? ? ? 'X-RAY DIFFRACTION' ?
s_approx_iso_adps 0.000 ? ? ? 'X-RAY DIFFRACTION' ?
#
_pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_pdbx_refine.entry_id 1VZK
_pdbx_refine.R_factor_all_no_cutoff 0.2226
_pdbx_refine.R_factor_obs_no_cutoff 0.2273
_pdbx_refine.free_R_factor_no_cutoff 0.2953
_pdbx_refine.free_R_error_no_cutoff ?
_pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 10.1
_pdbx_refine.free_R_val_test_set_ct_no_cutoff 662
_pdbx_refine.R_factor_all_4sig_cutoff 0.2150
_pdbx_refine.R_factor_obs_4sig_cutoff 0.2203
_pdbx_refine.free_R_factor_4sig_cutoff 0.2906
_pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 10.1
_pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 617
_pdbx_refine.number_reflns_obs_4sig_cutoff 5495
#
_struct.entry_id 1VZK
_struct.title
;A Thiophene Based Diamidine Forms a "Super" AT Binding Minor Groove Agent
;
_struct.pdbx_model_details ?
_struct.pdbx_CASP_flag ?
_struct.pdbx_model_type_details ?
#
_struct_keywords.entry_id 1VZK
_struct_keywords.pdbx_keywords 'NUCLEIC ACID'
_struct_keywords.text
'NUCLEIC ACID, NUCLEIC ACIDS, MINOR GROOVE BINDER, DOUBLE HELIX, DNA-DRUG COMPLEX, MAGNESIUM-WATER COMPLEX, DNA HYDRATION'
#
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
#
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 ? ? D MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 1014 A HOH 2009 1_555 ? ? ? ? ? ? ? 2.127 ? ?
metalc2 metalc ? ? D MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 1014 A HOH 2011 1_555 ? ? ? ? ? ? ? 2.117 ? ?
metalc3 metalc ? ? D MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 1014 A HOH 2015 3_655 ? ? ? ? ? ? ? 2.114 ? ?
metalc4 metalc ? ? D MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 1014 A HOH 2016 3_655 ? ? ? ? ? ? ? 2.125 ? ?
metalc5 metalc ? ? D MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 1014 A HOH 2020 3_655 ? ? ? ? ? ? ? 2.123 ? ?
metalc6 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 1014 B HOH 2019 1_555 ? ? ? ? ? ? ? 2.132 ? ?
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 ? ? ? ? 6 'BINDING SITE FOR RESIDUE MG A1014'
AC2 Software ? ? ? ? 10 'BINDING SITE FOR RESIDUE D1B A1013'
#
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 2009 . ? 1_555 ?
2 AC1 6 HOH E . ? HOH A 2011 . ? 1_555 ?
3 AC1 6 HOH E . ? HOH A 2015 . ? 1_555 ?
4 AC1 6 HOH E . ? HOH A 2016 . ? 1_555 ?
5 AC1 6 HOH E . ? HOH A 2020 . ? 1_555 ?
6 AC1 6 HOH F . ? HOH B 2019 . ? 1_555 ?
7 AC2 10 DA A 6 ? DA A 6 . ? 1_555 ?
8 AC2 10 DT A 7 ? DT A 7 . ? 1_555 ?
9 AC2 10 DT A 8 ? DT A 8 . ? 1_555 ?
10 AC2 10 DC A 9 ? DC A 9 . ? 1_555 ?
11 AC2 10 HOH E . ? HOH A 2034 . ? 1_555 ?
12 AC2 10 DA B 5 ? DA B 17 . ? 1_555 ?
13 AC2 10 DA B 6 ? DA B 18 . ? 1_555 ?
14 AC2 10 DT B 7 ? DT B 19 . ? 1_555 ?
15 AC2 10 DT B 8 ? DT B 20 . ? 1_555 ?
16 AC2 10 DC B 9 ? DC B 21 . ? 1_555 ?
#
_database_PDB_matrix.entry_id 1VZK
_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 1VZK
_atom_sites.fract_transf_matrix[1][1] 0.038945
_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] 0.025049
_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] 0.015341
_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
S
#
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 DG 2 2 2 DG DG A . n
A 1 3 DC 3 3 3 DC DC A . n
A 1 4 DG 4 4 4 DG DG A . n
A 1 5 DA 5 5 5 DA DA A . n
A 1 6 DA 6 6 6 DA DA A . n
A 1 7 DT 7 7 7 DT DT A . n
A 1 8 DT 8 8 8 DT DT A . n
A 1 9 DC 9 9 9 DC DC A . n
A 1 10 DG 10 10 10 DG DG A . n
A 1 11 DC 11 11 11 DC DC A . n
A 1 12 DG 12 12 12 DG DG A . n
B 1 1 DC 1 13 13 DC DC B . n
B 1 2 DG 2 14 14 DG DG B . n
B 1 3 DC 3 15 15 DC DC B . n
B 1 4 DG 4 16 16 DG DG B . n
B 1 5 DA 5 17 17 DA DA B . n
B 1 6 DA 6 18 18 DA DA B . n
B 1 7 DT 7 19 19 DT DT B . n
B 1 8 DT 8 20 20 DT DT B . n
B 1 9 DC 9 21 21 DC DC B . n
B 1 10 DG 10 22 22 DG DG B . n
B 1 11 DC 11 23 23 DC DC B . n
B 1 12 DG 12 24 24 DG DG 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 D1B 1 1013 1013 D1B D1B A .
D 3 MG 1 1014 1014 MG MG A .
E 4 HOH 1 2001 2001 HOH HOH A .
E 4 HOH 2 2002 2002 HOH HOH A .
E 4 HOH 3 2003 2003 HOH HOH A .
E 4 HOH 4 2004 2004 HOH HOH A .
E 4 HOH 5 2005 2005 HOH HOH A .
E 4 HOH 6 2006 2006 HOH HOH A .
E 4 HOH 7 2007 2007 HOH HOH A .
E 4 HOH 8 2008 2008 HOH HOH A .
E 4 HOH 9 2009 2009 HOH HOH A .
E 4 HOH 10 2010 2010 HOH HOH A .
E 4 HOH 11 2011 2011 HOH HOH A .
E 4 HOH 12 2012 2012 HOH HOH A .
E 4 HOH 13 2013 2013 HOH HOH A .
E 4 HOH 14 2014 2014 HOH HOH A .
E 4 HOH 15 2015 2015 HOH HOH A .
E 4 HOH 16 2016 2016 HOH HOH A .
E 4 HOH 17 2017 2017 HOH HOH A .
E 4 HOH 18 2018 2018 HOH HOH A .
E 4 HOH 19 2019 2019 HOH HOH A .
E 4 HOH 20 2020 2020 HOH HOH A .
E 4 HOH 21 2021 2021 HOH HOH A .
E 4 HOH 22 2022 2022 HOH HOH A .
E 4 HOH 23 2023 2023 HOH HOH A .
E 4 HOH 24 2024 2024 HOH HOH A .
E 4 HOH 25 2025 2025 HOH HOH A .
E 4 HOH 26 2026 2026 HOH HOH A .
E 4 HOH 27 2027 2027 HOH HOH A .
E 4 HOH 28 2028 2028 HOH HOH A .
E 4 HOH 29 2029 2029 HOH HOH A .
E 4 HOH 30 2030 2030 HOH HOH A .
E 4 HOH 31 2031 2031 HOH HOH A .
E 4 HOH 32 2032 2032 HOH HOH A .
E 4 HOH 33 2033 2033 HOH HOH A .
E 4 HOH 34 2034 2034 HOH HOH A .
F 4 HOH 1 2001 2001 HOH HOH B .
F 4 HOH 2 2002 2002 HOH HOH B .
F 4 HOH 3 2003 2003 HOH HOH B .
F 4 HOH 4 2004 2004 HOH HOH B .
F 4 HOH 5 2005 2005 HOH HOH B .
F 4 HOH 6 2006 2006 HOH HOH B .
F 4 HOH 7 2007 2007 HOH HOH B .
F 4 HOH 8 2008 2008 HOH HOH B .
F 4 HOH 9 2009 2009 HOH HOH B .
F 4 HOH 10 2010 2010 HOH HOH B .
F 4 HOH 11 2011 2011 HOH HOH B .
F 4 HOH 12 2012 2012 HOH HOH B .
F 4 HOH 13 2013 2013 HOH HOH B .
F 4 HOH 14 2014 2014 HOH HOH B .
F 4 HOH 15 2015 2015 HOH HOH B .
F 4 HOH 16 2016 2016 HOH HOH B .
F 4 HOH 17 2017 2017 HOH HOH B .
F 4 HOH 18 2018 2018 HOH HOH B .
F 4 HOH 19 2019 2019 HOH HOH B .
F 4 HOH 20 2020 2020 HOH HOH B .
F 4 HOH 21 2021 2021 HOH HOH B .
F 4 HOH 22 2022 2022 HOH HOH B .
F 4 HOH 23 2023 2023 HOH HOH B .
F 4 HOH 24 2024 2024 HOH HOH B .
F 4 HOH 25 2025 2025 HOH HOH B .
F 4 HOH 26 2026 2026 HOH HOH B .
#
_pdbx_struct_assembly.id 1
_pdbx_struct_assembly.details author_and_software_defined_assembly
_pdbx_struct_assembly.method_details PQS
_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 2009 ? 1_555 MG ? D MG . ? A MG 1014 ? 1_555 O ? E HOH . ? A HOH 2011 ? 1_555 89.7 ?
2 O ? E HOH . ? A HOH 2009 ? 1_555 MG ? D MG . ? A MG 1014 ? 1_555 O ? E HOH . ? A HOH 2015 ? 3_655 179.8 ?
3 O ? E HOH . ? A HOH 2011 ? 1_555 MG ? D MG . ? A MG 1014 ? 1_555 O ? E HOH . ? A HOH 2015 ? 3_655 90.5 ?
4 O ? E HOH . ? A HOH 2009 ? 1_555 MG ? D MG . ? A MG 1014 ? 1_555 O ? E HOH . ? A HOH 2016 ? 3_655 90.2 ?
5 O ? E HOH . ? A HOH 2011 ? 1_555 MG ? D MG . ? A MG 1014 ? 1_555 O ? E HOH . ? A HOH 2016 ? 3_655 179.8 ?
6 O ? E HOH . ? A HOH 2015 ? 3_655 MG ? D MG . ? A MG 1014 ? 1_555 O ? E HOH . ? A HOH 2016 ? 3_655 89.6 ?
7 O ? E HOH . ? A HOH 2009 ? 1_555 MG ? D MG . ? A MG 1014 ? 1_555 O ? E HOH . ? A HOH 2020 ? 3_655 90.1 ?
8 O ? E HOH . ? A HOH 2011 ? 1_555 MG ? D MG . ? A MG 1014 ? 1_555 O ? E HOH . ? A HOH 2020 ? 3_655 89.8 ?
9 O ? E HOH . ? A HOH 2015 ? 3_655 MG ? D MG . ? A MG 1014 ? 1_555 O ? E HOH . ? A HOH 2020 ? 3_655 89.8 ?
10 O ? E HOH . ? A HOH 2016 ? 3_655 MG ? D MG . ? A MG 1014 ? 1_555 O ? E HOH . ? A HOH 2020 ? 3_655 90.4 ?
11 O ? E HOH . ? A HOH 2009 ? 1_555 MG ? D MG . ? A MG 1014 ? 1_555 O ? F HOH . ? B HOH 2019 ? 1_555 90.4 ?
12 O ? E HOH . ? A HOH 2011 ? 1_555 MG ? D MG . ? A MG 1014 ? 1_555 O ? F HOH . ? B HOH 2019 ? 1_555 90.2 ?
13 O ? E HOH . ? A HOH 2015 ? 3_655 MG ? D MG . ? A MG 1014 ? 1_555 O ? F HOH . ? B HOH 2019 ? 1_555 89.8 ?
14 O ? E HOH . ? A HOH 2016 ? 3_655 MG ? D MG . ? A MG 1014 ? 1_555 O ? F HOH . ? B HOH 2019 ? 1_555 89.6 ?
15 O ? E HOH . ? A HOH 2020 ? 3_655 MG ? D MG . ? A MG 1014 ? 1_555 O ? F HOH . ? B HOH 2019 ? 1_555 179.6 ?
#
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 2004-10-25
2 'Structure model' 1 1 2011-05-08
3 'Structure model' 1 2 2011-07-13
4 'Structure model' 1 3 2019-05-22
5 'Structure model' 1 4 2023-12-13
#
_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' Other
5 4 'Structure model' 'Refinement description'
6 5 'Structure model' 'Data collection'
7 5 'Structure model' 'Database references'
8 5 'Structure model' 'Derived calculations'
9 5 'Structure model' Other
10 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' pdbx_database_proc
2 4 'Structure model' pdbx_database_status
3 4 'Structure model' pdbx_seq_map_depositor_info
4 4 'Structure model' refine
5 5 'Structure model' chem_comp_atom
6 5 'Structure model' chem_comp_bond
7 5 'Structure model' database_2
8 5 'Structure model' pdbx_database_status
9 5 'Structure model' pdbx_initial_refinement_model
10 5 'Structure model' pdbx_struct_conn_angle
11 5 'Structure model' struct_conn
#
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' '_pdbx_database_status.recvd_author_approval'
2 4 'Structure model' '_pdbx_seq_map_depositor_info.one_letter_code_mod'
3 4 'Structure model' '_refine.pdbx_ls_cross_valid_method'
4 5 'Structure model' '_database_2.pdbx_DOI'
5 5 'Structure model' '_database_2.pdbx_database_accession'
6 5 'Structure model' '_pdbx_database_status.status_code_sf'
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.ptnr1_symmetry'
11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id'
12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id'
13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id'
14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry'
15 5 'Structure model' '_pdbx_struct_conn_angle.value'
16 5 'Structure model' '_struct_conn.pdbx_dist_value'
17 5 'Structure model' '_struct_conn.ptnr2_auth_asym_id'
18 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id'
19 5 'Structure model' '_struct_conn.ptnr2_label_asym_id'
20 5 'Structure model' '_struct_conn.ptnr2_symmetry'
#
loop_
_software.name
_software.classification
_software.version
_software.citation_id
_software.pdbx_ordinal
SHELXL-97 refinement . ? 1
DENZO 'data reduction' . ? 2
SCALEPACK 'data scaling' . ? 3
CNS phasing . ? 4
#
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 ? ? 103.64 108.00 -4.36 0.70 N
2 1 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 103.22 108.00 -4.78 0.70 N
3 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? N9 A DA 6 ? ? 102.97 108.00 -5.03 0.70 N
4 1 "O4'" A DT 7 ? ? "C1'" A DT 7 ? ? N1 A DT 7 ? ? 103.64 108.00 -4.36 0.70 N
5 1 "O4'" A DT 8 ? ? "C1'" A DT 8 ? ? N1 A DT 8 ? ? 103.47 108.00 -4.53 0.70 N
6 1 "O4'" A DC 9 ? ? "C1'" A DC 9 ? ? N1 A DC 9 ? ? 102.08 108.00 -5.92 0.70 N
7 1 "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? "C1'" A DG 10 ? ? 97.08 102.40 -5.32 0.80 N
8 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 100.30 108.00 -7.70 0.70 N
9 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 103.74 108.00 -4.26 0.70 N
10 1 "O4'" B DA 17 ? ? "C1'" B DA 17 ? ? N9 B DA 17 ? ? 100.46 108.00 -7.54 0.70 N
11 1 "O4'" B DA 18 ? ? "C1'" B DA 18 ? ? N9 B DA 18 ? ? 102.25 108.00 -5.75 0.70 N
12 1 "O4'" B DC 21 ? ? "C1'" B DC 21 ? ? N1 B DC 21 ? ? 103.17 108.00 -4.83 0.70 N
#
_pdbx_distant_solvent_atoms.id 1
_pdbx_distant_solvent_atoms.PDB_model_num 1
_pdbx_distant_solvent_atoms.auth_atom_id O
_pdbx_distant_solvent_atoms.label_alt_id ?
_pdbx_distant_solvent_atoms.auth_asym_id A
_pdbx_distant_solvent_atoms.auth_comp_id HOH
_pdbx_distant_solvent_atoms.auth_seq_id 2003
_pdbx_distant_solvent_atoms.PDB_ins_code ?
_pdbx_distant_solvent_atoms.neighbor_macromolecule_distance 5.96
_pdbx_distant_solvent_atoms.neighbor_ligand_distance .
#
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
D1B C1 C Y N 1
D1B S2 S Y N 2
D1B C3 C Y N 3
D1B C4 C Y N 4
D1B C5 C Y N 5
D1B C6 C Y N 6
D1B N7 N Y N 7
D1B C8 C Y N 8
D1B C9 C Y N 9
D1B N10 N Y N 10
D1B C11 C Y N 11
D1B C12 C Y N 12
D1B C13 C Y N 13
D1B C14 C Y N 14
D1B C15 C Y N 15
D1B C16 C Y N 16
D1B C17 C Y N 17
D1B C18 C Y N 18
D1B C19 C Y N 19
D1B C20 C Y N 20
D1B C21 C N N 21
D1B N22 N N N 22
D1B N23 N N N 23
D1B C24 C N N 24
D1B N25 N N N 25
D1B N26 N N N 26
D1B H4 H N N 27
D1B H5 H N N 28
D1B H10 H N N 29
D1B H11 H N N 30
D1B H12 H N N 31
D1B H14 H N N 32
D1B H16 H N N 33
D1B H17 H N N 34
D1B H19 H N N 35
D1B H20 H N N 36
D1B H221 H N N 37
D1B H222 H N N 38
D1B H23 H N N 39
D1B H25 H N N 40
D1B H261 H N N 41
D1B H262 H N N 42
DA OP3 O N N 43
DA P P N N 44
DA OP1 O N N 45
DA OP2 O N N 46
DA "O5'" O N N 47
DA "C5'" C N N 48
DA "C4'" C N R 49
DA "O4'" O N N 50
DA "C3'" C N S 51
DA "O3'" O N N 52
DA "C2'" C N N 53
DA "C1'" C N R 54
DA N9 N Y N 55
DA C8 C Y N 56
DA N7 N Y N 57
DA C5 C Y N 58
DA C6 C Y N 59
DA N6 N N N 60
DA N1 N Y N 61
DA C2 C Y N 62
DA N3 N Y N 63
DA C4 C Y N 64
DA HOP3 H N N 65
DA HOP2 H N N 66
DA "H5'" H N N 67
DA "H5''" H N N 68
DA "H4'" H N N 69
DA "H3'" H N N 70
DA "HO3'" H N N 71
DA "H2'" H N N 72
DA "H2''" H N N 73
DA "H1'" H N N 74
DA H8 H N N 75
DA H61 H N N 76
DA H62 H N N 77
DA H2 H N N 78
DC OP3 O N N 79
DC P P N N 80
DC OP1 O N N 81
DC OP2 O N N 82
DC "O5'" O N N 83
DC "C5'" C N N 84
DC "C4'" C N R 85
DC "O4'" O N N 86
DC "C3'" C N S 87
DC "O3'" O N N 88
DC "C2'" C N N 89
DC "C1'" C N R 90
DC N1 N N N 91
DC C2 C N N 92
DC O2 O N N 93
DC N3 N N N 94
DC C4 C N N 95
DC N4 N N N 96
DC C5 C N N 97
DC C6 C N N 98
DC HOP3 H N N 99
DC HOP2 H N N 100
DC "H5'" H N N 101
DC "H5''" H N N 102
DC "H4'" H N N 103
DC "H3'" H N N 104
DC "HO3'" H N N 105
DC "H2'" H N N 106
DC "H2''" H N N 107
DC "H1'" H N N 108
DC H41 H N N 109
DC H42 H N N 110
DC H5 H N N 111
DC H6 H N N 112
DG OP3 O N N 113
DG P P N N 114
DG OP1 O N N 115
DG OP2 O N N 116
DG "O5'" O N N 117
DG "C5'" C N N 118
DG "C4'" C N R 119
DG "O4'" O N N 120
DG "C3'" C N S 121
DG "O3'" O N N 122
DG "C2'" C N N 123
DG "C1'" C N R 124
DG N9 N Y N 125
DG C8 C Y N 126
DG N7 N Y N 127
DG C5 C Y N 128
DG C6 C N N 129
DG O6 O N N 130
DG N1 N N N 131
DG C2 C N N 132
DG N2 N N N 133
DG N3 N N N 134
DG C4 C Y N 135
DG HOP3 H N N 136
DG HOP2 H N N 137
DG "H5'" H N N 138
DG "H5''" H N N 139
DG "H4'" H N N 140
DG "H3'" H N N 141
DG "HO3'" H N N 142
DG "H2'" H N N 143
DG "H2''" H N N 144
DG "H1'" H N N 145
DG H8 H N N 146
DG H1 H N N 147
DG H21 H N N 148
DG H22 H N N 149
DT OP3 O N N 150
DT P P N N 151
DT OP1 O N N 152
DT OP2 O N N 153
DT "O5'" O N N 154
DT "C5'" C N N 155
DT "C4'" C N R 156
DT "O4'" O N N 157
DT "C3'" C N S 158
DT "O3'" O N N 159
DT "C2'" C N N 160
DT "C1'" C N R 161
DT N1 N N N 162
DT C2 C N N 163
DT O2 O N N 164
DT N3 N N N 165
DT C4 C N N 166
DT O4 O N N 167
DT C5 C N N 168
DT C7 C N N 169
DT C6 C N N 170
DT HOP3 H N N 171
DT HOP2 H N N 172
DT "H5'" H N N 173
DT "H5''" H N N 174
DT "H4'" H N N 175
DT "H3'" H N N 176
DT "HO3'" H N N 177
DT "H2'" H N N 178
DT "H2''" H N N 179
DT "H1'" H N N 180
DT H3 H N N 181
DT H71 H N N 182
DT H72 H N N 183
DT H73 H N N 184
DT H6 H N N 185
HOH O O N N 186
HOH H1 H N N 187
HOH H2 H N N 188
MG MG MG N N 189
#
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
D1B C1 S2 sing Y N 1
D1B C1 C5 doub Y N 2
D1B C1 C15 sing Y N 3
D1B S2 C3 sing Y N 4
D1B C3 C4 doub Y N 5
D1B C3 C6 sing Y N 6
D1B C4 C5 sing Y N 7
D1B C4 H4 sing N N 8
D1B C5 H5 sing N N 9
D1B C6 N7 doub Y N 10
D1B C6 N10 sing Y N 11
D1B N7 C8 sing Y N 12
D1B C8 C9 doub Y N 13
D1B C8 C11 sing Y N 14
D1B C9 N10 sing Y N 15
D1B C9 C14 sing Y N 16
D1B N10 H10 sing N N 17
D1B C11 C12 doub Y N 18
D1B C11 H11 sing N N 19
D1B C12 C13 sing Y N 20
D1B C12 H12 sing N N 21
D1B C13 C14 doub Y N 22
D1B C13 C21 sing N N 23
D1B C14 H14 sing N N 24
D1B C15 C16 sing Y N 25
D1B C15 C20 doub Y N 26
D1B C16 C17 doub Y N 27
D1B C16 H16 sing N N 28
D1B C17 C18 sing Y N 29
D1B C17 H17 sing N N 30
D1B C18 C19 doub Y N 31
D1B C18 C24 sing N N 32
D1B C19 C20 sing Y N 33
D1B C19 H19 sing N N 34
D1B C20 H20 sing N N 35
D1B C21 N22 sing N N 36
D1B C21 N23 doub N Z 37
D1B N22 H221 sing N N 38
D1B N22 H222 sing N N 39
D1B N23 H23 sing N N 40
D1B C24 N25 doub N N 41
D1B C24 N26 sing N N 42
D1B N25 H25 sing N N 43
D1B N26 H261 sing N N 44
D1B N26 H262 sing N N 45
DA OP3 P sing N N 46
DA OP3 HOP3 sing N N 47
DA P OP1 doub N N 48
DA P OP2 sing N N 49
DA P "O5'" sing N N 50
DA OP2 HOP2 sing N N 51
DA "O5'" "C5'" sing N N 52
DA "C5'" "C4'" sing N N 53
DA "C5'" "H5'" sing N N 54
DA "C5'" "H5''" sing N N 55
DA "C4'" "O4'" sing N N 56
DA "C4'" "C3'" sing N N 57
DA "C4'" "H4'" sing N N 58
DA "O4'" "C1'" sing N N 59
DA "C3'" "O3'" sing N N 60
DA "C3'" "C2'" sing N N 61
DA "C3'" "H3'" sing N N 62
DA "O3'" "HO3'" sing N N 63
DA "C2'" "C1'" sing N N 64
DA "C2'" "H2'" sing N N 65
DA "C2'" "H2''" sing N N 66
DA "C1'" N9 sing N N 67
DA "C1'" "H1'" sing N N 68
DA N9 C8 sing Y N 69
DA N9 C4 sing Y N 70
DA C8 N7 doub Y N 71
DA C8 H8 sing N N 72
DA N7 C5 sing Y N 73
DA C5 C6 sing Y N 74
DA C5 C4 doub Y N 75
DA C6 N6 sing N N 76
DA C6 N1 doub Y N 77
DA N6 H61 sing N N 78
DA N6 H62 sing N N 79
DA N1 C2 sing Y N 80
DA C2 N3 doub Y N 81
DA C2 H2 sing N N 82
DA N3 C4 sing Y N 83
DC OP3 P sing N N 84
DC OP3 HOP3 sing N N 85
DC P OP1 doub N N 86
DC P OP2 sing N N 87
DC P "O5'" sing N N 88
DC OP2 HOP2 sing N N 89
DC "O5'" "C5'" sing N N 90
DC "C5'" "C4'" sing N N 91
DC "C5'" "H5'" sing N N 92
DC "C5'" "H5''" sing N N 93
DC "C4'" "O4'" sing N N 94
DC "C4'" "C3'" sing N N 95
DC "C4'" "H4'" sing N N 96
DC "O4'" "C1'" sing N N 97
DC "C3'" "O3'" sing N N 98
DC "C3'" "C2'" sing N N 99
DC "C3'" "H3'" sing N N 100
DC "O3'" "HO3'" sing N N 101
DC "C2'" "C1'" sing N N 102
DC "C2'" "H2'" sing N N 103
DC "C2'" "H2''" sing N N 104
DC "C1'" N1 sing N N 105
DC "C1'" "H1'" sing N N 106
DC N1 C2 sing N N 107
DC N1 C6 sing N N 108
DC C2 O2 doub N N 109
DC C2 N3 sing N N 110
DC N3 C4 doub N N 111
DC C4 N4 sing N N 112
DC C4 C5 sing N N 113
DC N4 H41 sing N N 114
DC N4 H42 sing N N 115
DC C5 C6 doub N N 116
DC C5 H5 sing N N 117
DC C6 H6 sing N N 118
DG OP3 P sing N N 119
DG OP3 HOP3 sing N N 120
DG P OP1 doub N N 121
DG P OP2 sing N N 122
DG P "O5'" sing N N 123
DG OP2 HOP2 sing N N 124
DG "O5'" "C5'" sing N N 125
DG "C5'" "C4'" sing N N 126
DG "C5'" "H5'" sing N N 127
DG "C5'" "H5''" sing N N 128
DG "C4'" "O4'" sing N N 129
DG "C4'" "C3'" sing N N 130
DG "C4'" "H4'" sing N N 131
DG "O4'" "C1'" sing N N 132
DG "C3'" "O3'" sing N N 133
DG "C3'" "C2'" sing N N 134
DG "C3'" "H3'" sing N N 135
DG "O3'" "HO3'" sing N N 136
DG "C2'" "C1'" sing N N 137
DG "C2'" "H2'" sing N N 138
DG "C2'" "H2''" sing N N 139
DG "C1'" N9 sing N N 140
DG "C1'" "H1'" sing N N 141
DG N9 C8 sing Y N 142
DG N9 C4 sing Y N 143
DG C8 N7 doub Y N 144
DG C8 H8 sing N N 145
DG N7 C5 sing Y N 146
DG C5 C6 sing N N 147
DG C5 C4 doub Y N 148
DG C6 O6 doub N N 149
DG C6 N1 sing N N 150
DG N1 C2 sing N N 151
DG N1 H1 sing N N 152
DG C2 N2 sing N N 153
DG C2 N3 doub N N 154
DG N2 H21 sing N N 155
DG N2 H22 sing N N 156
DG N3 C4 sing N N 157
DT OP3 P sing N N 158
DT OP3 HOP3 sing N N 159
DT P OP1 doub N N 160
DT P OP2 sing N N 161
DT P "O5'" sing N N 162
DT OP2 HOP2 sing N N 163
DT "O5'" "C5'" sing N N 164
DT "C5'" "C4'" sing N N 165
DT "C5'" "H5'" sing N N 166
DT "C5'" "H5''" sing N N 167
DT "C4'" "O4'" sing N N 168
DT "C4'" "C3'" sing N N 169
DT "C4'" "H4'" sing N N 170
DT "O4'" "C1'" sing N N 171
DT "C3'" "O3'" sing N N 172
DT "C3'" "C2'" sing N N 173
DT "C3'" "H3'" sing N N 174
DT "O3'" "HO3'" sing N N 175
DT "C2'" "C1'" sing N N 176
DT "C2'" "H2'" sing N N 177
DT "C2'" "H2''" sing N N 178
DT "C1'" N1 sing N N 179
DT "C1'" "H1'" sing N N 180
DT N1 C2 sing N N 181
DT N1 C6 sing N N 182
DT C2 O2 doub N N 183
DT C2 N3 sing N N 184
DT N3 C4 sing N N 185
DT N3 H3 sing N N 186
DT C4 O4 doub N N 187
DT C4 C5 sing N N 188
DT C5 C7 sing N N 189
DT C5 C6 doub N N 190
DT C7 H71 sing N N 191
DT C7 H72 sing N N 192
DT C7 H73 sing N N 193
DT C6 H6 sing N N 194
HOH O H1 sing N N 195
HOH O H2 sing N N 196
#
loop_
_ndb_struct_conf_na.entry_id
_ndb_struct_conf_na.feature
1VZK 'double helix'
1VZK '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 0.174 -0.262 0.458 3.589 -15.618 -3.449 1 A_DC1:DG24_B A 1 ? B 24 ? 19 1
1 A DG 2 1_555 B DC 11 1_555 -0.379 -0.193 0.571 10.550 -11.481 -1.460 2 A_DG2:DC23_B A 2 ? B 23 ? 19 1
1 A DC 3 1_555 B DG 10 1_555 0.085 -0.091 0.466 -7.942 -9.994 -0.172 3 A_DC3:DG22_B A 3 ? B 22 ? 19 1
1 A DG 4 1_555 B DC 9 1_555 -0.227 -0.175 -0.128 9.449 -9.976 2.067 4 A_DG4:DC21_B A 4 ? B 21 ? 19 1
1 A DA 5 1_555 B DT 8 1_555 -0.050 -0.005 -0.241 4.840 -22.499 3.668 5 A_DA5:DT20_B A 5 ? B 20 ? 20 1
1 A DA 6 1_555 B DT 7 1_555 0.095 -0.088 0.003 4.959 -20.321 6.280 6 A_DA6:DT19_B A 6 ? B 19 ? 20 1
1 A DT 7 1_555 B DA 6 1_555 -0.117 -0.020 -0.053 0.093 -19.484 7.695 7 A_DT7:DA18_B A 7 ? B 18 ? 20 1
1 A DT 8 1_555 B DA 5 1_555 -0.012 -0.126 -0.173 1.570 -14.335 4.115 8 A_DT8:DA17_B A 8 ? B 17 ? 20 1
1 A DC 9 1_555 B DG 4 1_555 0.233 -0.163 0.053 -13.775 -9.106 -1.684 9 A_DC9:DG16_B A 9 ? B 16 ? 19 1
1 A DG 10 1_555 B DC 3 1_555 -0.181 -0.173 0.440 8.545 -3.928 3.496 10 A_DG10:DC15_B A 10 ? B 15 ? 19 1
1 A DC 11 1_555 B DG 2 1_555 0.219 -0.183 0.179 3.363 -17.528 -3.287 11 A_DC11:DG14_B A 11 ? B 14 ? 19 1
1 A DG 12 1_555 B DC 1 1_555 -0.390 0.026 0.853 6.009 -17.026 -1.742 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 -0.021 -0.126 3.083 -2.190 4.016 34.118 -0.801 -0.285 3.044 6.808
3.712 34.414 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 0.642 0.331 3.831 3.745 -9.035 44.155 1.376 -0.443 3.737 -11.846
-4.910 45.172 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 -0.367 0.619 2.945 3.762 12.163 27.128 -1.159 1.440 2.878 24.304
-7.517 29.917 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 0.027 0.023 3.375 0.572 0.984 36.628 -0.102 0.038 3.375 1.565
-0.911 36.645 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 0.165 -0.287 3.157 -1.149 2.532 35.566 -0.821 -0.430 3.123 4.138
1.877 35.671 5 AA_DA5DA6:DT19DT20_BB A 5 ? B 20 ? A 6 ? B 19 ?
1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 0.163 -0.421 3.256 1.241 1.156 31.223 -0.998 -0.070 3.242 2.146
-2.303 31.268 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 -0.148 -0.211 3.203 1.040 0.111 35.276 -0.364 0.394 3.196 0.183
-1.716 35.291 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 -0.172 -0.007 3.559 -0.575 -0.431 41.356 0.041 0.177 3.561 -0.611
0.814 41.362 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 0.610 0.818 2.962 -3.788 3.810 25.897 0.867 -2.250 2.932 8.388
8.339 26.439 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 -1.233 0.622 3.426 -1.990 -11.059 43.133 1.877 1.439 3.231 -14.745
2.653 44.505 10 AA_DG10DC11:DG14DC15_BB A 10 ? B 15 ? A 11 ? B 14 ?
1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 0.121 0.287 3.128 -1.147 6.594 33.754 -0.508 -0.378 3.121 11.219
1.951 34.392 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 '2-(5-{4-[AMINO(IMINO)METHYL]PHENYL}-2-THIENYL)-1H-BENZIMIDAZOLE-6- CARBOXIMIDAMIDE DIHYDROCHLORIDE' D1B
3 'MAGNESIUM ION' MG
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 'DNA PART OF NDB ENTRY GDL009 OR PDB ENTRY 2DBE'
#