data_145D # _entry.id 145D # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.385 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 145D pdb_0000145d 10.2210/pdb145d/pdb RCSB ZDFB37 ? ? WWPDB D_1000170104 ? ? # 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 1994-01-15 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-07 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' 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' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_conn.pdbx_dist_value' 4 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 5 4 'Structure model' '_struct_conn.pdbx_ptnr1_label_alt_id' 6 4 'Structure model' '_struct_conn.pdbx_ptnr2_label_alt_id' 7 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 8 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 9 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 10 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 11 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 12 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 13 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 14 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 15 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 16 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 17 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 18 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 145D _pdbx_database_status.recvd_initial_deposition_date 1993-11-11 _pdbx_database_status.deposit_site BNL _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Schroth, G.P.' 1 'Kagawa, T.F.' 2 'Shing Ho, P.' 3 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary ;Structure and thermodynamics of nonalternating C.G base pairs in Z-DNA: the 1.3-A crystal structure of the asymmetric hexanucleotide d(m5CGGGm5CG).d(m5CGCCm5CG). ; Biochemistry 32 13381 13392 1993 BICHAW US 0006-2960 0033 ? 8257675 10.1021/bi00212a002 1 'Molecular Structure of (m5dC-dG)3: The Role of the Methyl Group on 5-Methyl Cytosine in Stabilizing Z-DNA' 'Nucleic Acids Res.' 10 7879 7892 1982 NARHAD UK 0305-1048 0389 ? ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Schroth, G.P.' 1 ? primary 'Kagawa, T.F.' 2 ? primary 'Ho, P.S.' 3 ? 1 'Fujii, S.' 4 ? 1 'Wang, A.H.-J.' 5 ? 1 'Van Der Marel, G.' 6 ? 1 'Van Boom, J.H.' 7 ? 1 'Rich, A.' 8 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*(MCY)P*GP*GP*GP*(5CM)P*G)-3') ; 1798.303 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*(MCY)P*GP*CP*CP*(5CM)P*G)-3') ; 1718.255 2 ? ? ? ? 3 polymer syn ;DNA (5'-D(*(5CM)P*DGP*DGP*DGP*(5CM)P*DG)-3') ; 1878.283 1 ? ? ? ? 4 water nat water 18.015 48 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no yes '(MCY)(DG)(DG)(DG)(5CM)(DG)' CGGGCG A ? 2 polydeoxyribonucleotide no yes '(MCY)(DG)(DC)(DC)(5CM)(DG)' CGCCCG B,C ? 3 polydeoxyribonucleotide no yes '(5CM)(DG)(DG)(DG)(5CM)(DG)' CGGGCG D ? # _pdbx_entity_nonpoly.entity_id 4 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MCY n 1 2 DG n 1 3 DG n 1 4 DG n 1 5 5CM n 1 6 DG n 2 1 MCY n 2 2 DG n 2 3 DC n 2 4 DC n 2 5 5CM n 2 6 DG n 3 1 5CM n 3 2 DG n 3 3 DG n 3 4 DG n 3 5 5CM n 3 6 DG n # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight 5CM 'DNA linking' n "5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE" ? 'C10 H16 N3 O7 P' 321.224 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 HOH non-polymer . WATER ? 'H2 O' 18.015 MCY 'DNA linking' n "5-METHYL-2'-DEOXYCYTIDINE" ? 'C10 H15 N3 O4' 241.244 # 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 MCY 1 1 1 MCY MCY A . n A 1 2 DG 2 2 2 DG DG A . n A 1 3 DG 3 3 3 DG DG A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 5CM 5 5 5 5CM 5CM A . n A 1 6 DG 6 6 6 DG DG A . n B 2 1 MCY 1 7 7 MCY MCY B . n B 2 2 DG 2 8 8 DG DG B . n B 2 3 DC 3 9 9 DC DC B . n B 2 4 DC 4 10 10 DC DC B . n B 2 5 5CM 5 11 11 5CM 5CM B . n B 2 6 DG 6 12 12 DG DG B . n C 2 1 MCY 1 13 13 MCY MCY C . n C 2 2 DG 2 14 14 DG DG C . n C 2 3 DC 3 15 15 DC DC C . n C 2 4 DC 4 16 16 DC DC C . n C 2 5 5CM 5 17 17 5CM 5CM C . n C 2 6 DG 6 18 18 DG DG C . n D 3 1 5CM 1 19 19 5CM MCY D . n D 3 2 DG 2 20 20 DG DG D . n D 3 3 DG 3 21 21 DG DG D . n D 3 4 DG 4 22 22 DG DG D . n D 3 5 5CM 5 23 23 5CM 5CM D . n D 3 6 DG 6 24 24 DG DG D . 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 E 4 HOH 1 31 31 HOH HOH A . E 4 HOH 2 37 37 HOH HOH A . E 4 HOH 3 41 41 HOH HOH A . E 4 HOH 4 44 44 HOH HOH A . E 4 HOH 5 53 53 HOH HOH A . E 4 HOH 6 58 58 HOH HOH A . E 4 HOH 7 67 67 HOH HOH A . E 4 HOH 8 70 70 HOH HOH A . E 4 HOH 9 71 71 HOH HOH A . E 4 HOH 10 72 72 HOH HOH A . F 4 HOH 1 25 25 HOH HOH B . F 4 HOH 2 34 34 HOH HOH B . F 4 HOH 3 38 38 HOH HOH B . F 4 HOH 4 40 40 HOH HOH B . F 4 HOH 5 42 42 HOH HOH B . F 4 HOH 6 45 45 HOH HOH B . F 4 HOH 7 46 46 HOH HOH B . F 4 HOH 8 47 47 HOH HOH B . F 4 HOH 9 50 50 HOH HOH B . F 4 HOH 10 52 52 HOH HOH B . F 4 HOH 11 55 55 HOH HOH B . G 4 HOH 1 26 26 HOH HOH C . G 4 HOH 2 27 27 HOH HOH C . G 4 HOH 3 29 29 HOH HOH C . G 4 HOH 4 32 32 HOH HOH C . G 4 HOH 5 35 35 HOH HOH C . G 4 HOH 6 39 39 HOH HOH C . G 4 HOH 7 43 43 HOH HOH C . G 4 HOH 8 48 48 HOH HOH C . G 4 HOH 9 51 51 HOH HOH C . G 4 HOH 10 54 54 HOH HOH C . G 4 HOH 11 60 60 HOH HOH C . G 4 HOH 12 61 61 HOH HOH C . G 4 HOH 13 62 62 HOH HOH C . G 4 HOH 14 64 64 HOH HOH C . G 4 HOH 15 66 66 HOH HOH C . H 4 HOH 1 28 28 HOH HOH D . H 4 HOH 2 30 30 HOH HOH D . H 4 HOH 3 33 33 HOH HOH D . H 4 HOH 4 36 36 HOH HOH D . H 4 HOH 5 49 49 HOH HOH D . H 4 HOH 6 56 56 HOH HOH D . H 4 HOH 7 57 57 HOH HOH D . H 4 HOH 8 59 59 HOH HOH D . H 4 HOH 9 63 63 HOH HOH D . H 4 HOH 10 65 65 HOH HOH D . H 4 HOH 11 68 68 HOH HOH D . H 4 HOH 12 69 69 HOH HOH D . # _software.name NUCLSQ _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 145D _cell.length_a 17.865 _cell.length_b 30.822 _cell.length_c 44.797 _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 145D _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 # _exptl.entry_id 145D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol ? _exptl_crystal.density_Matthews ? _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details 'ROOM TEMPERATURE' _exptl_crystal_grow.pH 7.00 _exptl_crystal_grow.pdbx_details 'pH 7.00, VAPOR DIFFUSION' _exptl_crystal_grow.pdbx_pH_range . # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 WATER ? ? ? 1 2 1 MPD ? ? ? 1 3 1 MGCL2 ? ? ? 1 4 1 SPERMIDINE ? ? ? 1 5 2 WATER ? ? ? 1 6 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details 'ROOM TEMPERATURE' _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type SIEMENS _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type SIEMENS _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _refine.entry_id 145D _refine.ls_number_reflns_obs 5029 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.500 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 8.000 _refine.ls_d_res_high 1.250 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.193 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 776 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 144 _refine_hist.number_atoms_total 920 _refine_hist.d_res_high 1.250 _refine_hist.d_res_low 8.000 # _database_PDB_matrix.entry_id 145D _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 145D _struct.title ;Structure and thermodynamics of nonalternating C/G base pairs in Z-DNA: the 1.3 angstroms crystal structure of the asymmetric hexanucleotide D(M(5)CGGGM(5) CG)/D(M(5)CGCCM(5)CG) ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 145D _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Z-DNA, DOUBLE HELIX, MODIFIED, DNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 2 ? D N N 3 ? E N N 4 ? F N N 4 ? G N N 4 ? H N N 4 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 1 PDB 145D 145D ? ? ? 2 2 PDB 145D 145D ? ? ? 3 3 PDB 145D 145D ? ? ? # 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 145D A 1 ? 6 ? 145D 1 ? 6 ? 1 6 2 2 145D B 1 ? 6 ? 145D 7 ? 12 ? 7 12 3 2 145D C 1 ? 6 ? 145D 13 ? 18 ? 13 18 4 3 145D D 1 ? 6 ? 145D 19 ? 24 ? 19 24 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_defined_assembly ? dimeric 2 2 author_defined_assembly ? dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,E,F 2 1 C,D,G,H # _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_ _struct_biol.id _struct_biol.pdbx_parent_biol_id _struct_biol.details 1 ? ? 2 ? ? # 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 covale1 covale both ? A MCY 1 "O3'" A ? ? 1_555 A DG 2 P A ? A MCY 1 A DG 2 1_555 ? ? ? ? ? ? ? 1.601 ? ? covale2 covale both ? A DG 4 "O3'" A ? ? 1_555 A 5CM 5 P A ? A DG 4 A 5CM 5 1_555 ? ? ? ? ? ? ? 1.619 ? ? covale3 covale both ? A 5CM 5 "O3'" A ? ? 1_555 A DG 6 P A ? A 5CM 5 A DG 6 1_555 ? ? ? ? ? ? ? 1.610 ? ? covale4 covale both ? B MCY 1 "O3'" A ? ? 1_555 B DG 2 P A ? B MCY 7 B DG 8 1_555 ? ? ? ? ? ? ? 1.579 ? ? covale5 covale both ? B DC 4 "O3'" A ? ? 1_555 B 5CM 5 P A ? B DC 10 B 5CM 11 1_555 ? ? ? ? ? ? ? 1.619 ? ? covale6 covale both ? B 5CM 5 "O3'" A ? ? 1_555 B DG 6 P A ? B 5CM 11 B DG 12 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale7 covale both ? C MCY 1 "O3'" B ? ? 1_555 C DG 2 P B ? C MCY 13 C DG 14 1_555 ? ? ? ? ? ? ? 1.611 ? ? covale8 covale both ? C DC 4 "O3'" B ? ? 1_555 C 5CM 5 P B ? C DC 16 C 5CM 17 1_555 ? ? ? ? ? ? ? 1.641 ? ? covale9 covale both ? C 5CM 5 "O3'" B ? ? 1_555 C DG 6 P B ? C 5CM 17 C DG 18 1_555 ? ? ? ? ? ? ? 1.585 ? ? covale10 covale both ? D 5CM 1 "O3'" B ? ? 1_555 D DG 2 P B ? D 5CM 19 D DG 20 1_555 ? ? ? ? ? ? ? 1.622 ? ? covale11 covale both ? D DG 4 "O3'" B ? ? 1_555 D 5CM 5 P B ? D DG 22 D 5CM 23 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale12 covale both ? D 5CM 5 "O3'" B ? ? 1_555 D DG 6 P B ? D 5CM 23 D DG 24 1_555 ? ? ? ? ? ? ? 1.615 ? ? hydrog1 hydrog ? ? A MCY 1 N3 A ? ? 1_555 B DG 6 N1 A ? A MCY 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A MCY 1 N4 A ? ? 1_555 B DG 6 O6 A ? A MCY 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A MCY 1 O2 A ? ? 1_555 B DG 6 N2 A ? A MCY 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 A ? ? 1_555 B 5CM 5 N3 A ? A DG 2 B 5CM 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 A ? ? 1_555 B 5CM 5 O2 A ? A DG 2 B 5CM 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 A ? ? 1_555 B 5CM 5 N4 A ? A DG 2 B 5CM 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N1 A ? ? 1_555 B DC 4 N3 A ? A DG 3 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 N2 A ? ? 1_555 B DC 4 O2 A ? A DG 3 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 3 O6 A ? ? 1_555 B DC 4 N4 A ? A DG 3 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 A ? ? 1_555 B DC 3 N3 A ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 A ? ? 1_555 B DC 3 O2 A ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 A ? ? 1_555 B DC 3 N4 A ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A 5CM 5 N3 A ? ? 1_555 B DG 2 N1 A ? A 5CM 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A 5CM 5 N4 A ? ? 1_555 B DG 2 O6 A ? A 5CM 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A 5CM 5 O2 A ? ? 1_555 B DG 2 N2 A ? A 5CM 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 N1 A ? ? 1_555 B MCY 1 N3 A ? A DG 6 B MCY 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 6 N2 A ? ? 1_555 B MCY 1 O2 A ? A DG 6 B MCY 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 6 O6 A ? ? 1_555 B MCY 1 N4 A ? A DG 6 B MCY 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O B HOH 25 ? ? H2 B HOH 46 ? ? 1.44 2 1 H2 D HOH 56 ? ? O D HOH 57 ? ? 1.45 3 1 H2 A HOH 53 ? ? O C HOH 54 ? ? 1.56 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 C8 _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 DG _pdbx_validate_rmsd_bond.auth_seq_id_1 4 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 A _pdbx_validate_rmsd_bond.auth_atom_id_2 N9 _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 DG _pdbx_validate_rmsd_bond.auth_seq_id_2 4 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 A _pdbx_validate_rmsd_bond.bond_value 1.328 _pdbx_validate_rmsd_bond.bond_target_value 1.374 _pdbx_validate_rmsd_bond.bond_deviation -0.046 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.007 _pdbx_validate_rmsd_bond.linker_flag N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 N7 A DG 2 ? A C8 A DG 2 ? A N9 A DG 2 ? A 116.14 113.10 3.04 0.50 N 2 1 "C3'" A DG 2 ? A "O3'" A DG 2 ? A P A DG 3 ? A 127.78 119.70 8.08 1.20 Y 3 1 "O4'" A DG 4 ? A "C1'" A DG 4 ? A N9 A DG 4 ? A 102.41 108.00 -5.59 0.70 N 4 1 "O4'" A DG 6 ? A "C4'" A DG 6 ? A "C3'" A DG 6 ? A 109.79 106.00 3.79 0.60 N 5 1 "C4'" A DG 6 ? A "C3'" A DG 6 ? A "C2'" A DG 6 ? A 97.49 102.20 -4.71 0.70 N 6 1 N7 A DG 6 ? A C8 A DG 6 ? A N9 A DG 6 ? A 116.65 113.10 3.55 0.50 N 7 1 "O4'" B DG 8 ? A "C1'" B DG 8 ? A "C2'" B DG 8 ? A 110.25 106.80 3.45 0.50 N 8 1 "C3'" B 5CM 11 ? A "O3'" B 5CM 11 ? A P B DG 12 ? A 128.35 119.70 8.65 1.20 Y 9 1 N7 C DG 14 ? B C8 C DG 14 ? B N9 C DG 14 ? B 116.60 113.10 3.50 0.50 N 10 1 "O4'" C DC 15 ? B "C1'" C DC 15 ? B N1 C DC 15 ? B 110.68 108.30 2.38 0.30 N 11 1 "O4'" C DC 16 ? B "C1'" C DC 16 ? B N1 C DC 16 ? B 111.83 108.30 3.53 0.30 N 12 1 "C3'" D 5CM 19 ? B "O3'" D 5CM 19 ? B P D DG 20 ? B 128.30 119.70 8.60 1.20 Y 13 1 "O4'" D DG 20 ? B "C1'" D DG 20 ? B N9 D DG 20 ? B 110.71 108.30 2.41 0.30 N 14 1 N7 D DG 20 ? B C8 D DG 20 ? B N9 D DG 20 ? B 116.10 113.10 3.00 0.50 N 15 1 N7 D DG 21 ? B C8 D DG 21 ? B N9 D DG 21 ? B 116.37 113.10 3.27 0.50 N 16 1 N7 D DG 22 ? B C8 D DG 22 ? B N9 D DG 22 ? B 116.57 113.10 3.47 0.50 N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DG _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 2 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id A _pdbx_validate_planes.rmsd 0.063 _pdbx_validate_planes.type 'SIDE CHAIN' # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A MCY 1 A MCY 1 ? DC "5-METHYL-2'-DEOXYCYTIDINE" 2 A 5CM 5 A 5CM 5 ? DC ? 3 B MCY 1 B MCY 7 ? DC "5-METHYL-2'-DEOXYCYTIDINE" 4 B 5CM 5 B 5CM 11 ? DC ? 5 C MCY 1 C MCY 13 ? DC "5-METHYL-2'-DEOXYCYTIDINE" 6 C 5CM 5 C 5CM 17 ? DC ? 7 D 5CM 1 D 5CM 19 ? DC ? 8 D 5CM 5 D 5CM 23 ? DC ? # 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 5CM N1 N N N 1 5CM C2 C N N 2 5CM N3 N N N 3 5CM C4 C N N 4 5CM C5 C N N 5 5CM C5A C N N 6 5CM C6 C N N 7 5CM O2 O N N 8 5CM N4 N N N 9 5CM "C1'" C N R 10 5CM "C2'" C N N 11 5CM "C3'" C N S 12 5CM "C4'" C N R 13 5CM "O4'" O N N 14 5CM "O3'" O N N 15 5CM "C5'" C N N 16 5CM "O5'" O N N 17 5CM P P N N 18 5CM OP1 O N N 19 5CM OP2 O N N 20 5CM OP3 O N N 21 5CM H5A1 H N N 22 5CM H5A2 H N N 23 5CM H5A3 H N N 24 5CM H6 H N N 25 5CM HN41 H N N 26 5CM HN42 H N N 27 5CM "H1'" H N N 28 5CM "H2'" H N N 29 5CM "H2''" H N N 30 5CM "H3'" H N N 31 5CM "H4'" H N N 32 5CM "HO3'" H N N 33 5CM "H5'" H N N 34 5CM "H5''" H N N 35 5CM HOP2 H N N 36 5CM HOP3 H N N 37 DC OP3 O N N 38 DC P P N N 39 DC OP1 O N N 40 DC OP2 O N N 41 DC "O5'" O N N 42 DC "C5'" C N N 43 DC "C4'" C N R 44 DC "O4'" O N N 45 DC "C3'" C N S 46 DC "O3'" O N N 47 DC "C2'" C N N 48 DC "C1'" C N R 49 DC N1 N N N 50 DC C2 C N N 51 DC O2 O N N 52 DC N3 N N N 53 DC C4 C N N 54 DC N4 N N N 55 DC C5 C N N 56 DC C6 C N N 57 DC HOP3 H N N 58 DC HOP2 H N N 59 DC "H5'" H N N 60 DC "H5''" H N N 61 DC "H4'" H N N 62 DC "H3'" H N N 63 DC "HO3'" H N N 64 DC "H2'" H N N 65 DC "H2''" H N N 66 DC "H1'" H N N 67 DC H41 H N N 68 DC H42 H N N 69 DC H5 H N N 70 DC H6 H N N 71 DG OP3 O N N 72 DG P P N N 73 DG OP1 O N N 74 DG OP2 O N N 75 DG "O5'" O N N 76 DG "C5'" C N N 77 DG "C4'" C N R 78 DG "O4'" O N N 79 DG "C3'" C N S 80 DG "O3'" O N N 81 DG "C2'" C N N 82 DG "C1'" C N R 83 DG N9 N Y N 84 DG C8 C Y N 85 DG N7 N Y N 86 DG C5 C Y N 87 DG C6 C N N 88 DG O6 O N N 89 DG N1 N N N 90 DG C2 C N N 91 DG N2 N N N 92 DG N3 N N N 93 DG C4 C Y N 94 DG HOP3 H N N 95 DG HOP2 H N N 96 DG "H5'" H N N 97 DG "H5''" H N N 98 DG "H4'" H N N 99 DG "H3'" H N N 100 DG "HO3'" H N N 101 DG "H2'" H N N 102 DG "H2''" H N N 103 DG "H1'" H N N 104 DG H8 H N N 105 DG H1 H N N 106 DG H21 H N N 107 DG H22 H N N 108 HOH O O N N 109 HOH H1 H N N 110 HOH H2 H N N 111 MCY N1 N N N 112 MCY C2 C N N 113 MCY N3 N N N 114 MCY C4 C N N 115 MCY C5 C N N 116 MCY C6 C N N 117 MCY O2 O N N 118 MCY N4 N N N 119 MCY "C1'" C N R 120 MCY "C2'" C N N 121 MCY "C3'" C N S 122 MCY "C4'" C N R 123 MCY "O4'" O N N 124 MCY "O3'" O N N 125 MCY "C5'" C N N 126 MCY "O5'" O N N 127 MCY C5A C N N 128 MCY H6 H N N 129 MCY HN41 H N N 130 MCY HN42 H N N 131 MCY "H1'" H N N 132 MCY "H2'" H N N 133 MCY "H2''" H N N 134 MCY "H3'" H N N 135 MCY "H4'" H N N 136 MCY "HO3'" H N N 137 MCY "H5'" H N N 138 MCY "H5''" H N N 139 MCY "HO5'" H N N 140 MCY H5A1 H N N 141 MCY H5A2 H N N 142 MCY H5A3 H N N 143 # 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 5CM N1 C2 sing N N 1 5CM N1 C6 sing N N 2 5CM N1 "C1'" sing N N 3 5CM C2 N3 sing N N 4 5CM C2 O2 doub N N 5 5CM N3 C4 doub N N 6 5CM C4 C5 sing N N 7 5CM C4 N4 sing N N 8 5CM C5 C5A sing N N 9 5CM C5 C6 doub N N 10 5CM C5A H5A1 sing N N 11 5CM C5A H5A2 sing N N 12 5CM C5A H5A3 sing N N 13 5CM C6 H6 sing N N 14 5CM N4 HN41 sing N N 15 5CM N4 HN42 sing N N 16 5CM "C1'" "C2'" sing N N 17 5CM "C1'" "O4'" sing N N 18 5CM "C1'" "H1'" sing N N 19 5CM "C2'" "C3'" sing N N 20 5CM "C2'" "H2'" sing N N 21 5CM "C2'" "H2''" sing N N 22 5CM "C3'" "C4'" sing N N 23 5CM "C3'" "O3'" sing N N 24 5CM "C3'" "H3'" sing N N 25 5CM "C4'" "O4'" sing N N 26 5CM "C4'" "C5'" sing N N 27 5CM "C4'" "H4'" sing N N 28 5CM "O3'" "HO3'" sing N N 29 5CM "C5'" "O5'" sing N N 30 5CM "C5'" "H5'" sing N N 31 5CM "C5'" "H5''" sing N N 32 5CM "O5'" P sing N N 33 5CM P OP1 doub N N 34 5CM P OP2 sing N N 35 5CM P OP3 sing N N 36 5CM OP2 HOP2 sing N N 37 5CM OP3 HOP3 sing N 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 HOH O H1 sing N N 113 HOH O H2 sing N N 114 MCY N1 C2 sing N N 115 MCY N1 C6 sing N N 116 MCY N1 "C1'" sing N N 117 MCY C2 N3 sing N N 118 MCY C2 O2 doub N N 119 MCY N3 C4 doub N N 120 MCY C4 C5 sing N N 121 MCY C4 N4 sing N N 122 MCY C5 C6 doub N N 123 MCY C5 C5A sing N N 124 MCY C6 H6 sing N N 125 MCY N4 HN41 sing N N 126 MCY N4 HN42 sing N N 127 MCY "C1'" "C2'" sing N N 128 MCY "C1'" "O4'" sing N N 129 MCY "C1'" "H1'" sing N N 130 MCY "C2'" "C3'" sing N N 131 MCY "C2'" "H2'" sing N N 132 MCY "C2'" "H2''" sing N N 133 MCY "C3'" "C4'" sing N N 134 MCY "C3'" "O3'" sing N N 135 MCY "C3'" "H3'" sing N N 136 MCY "C4'" "O4'" sing N N 137 MCY "C4'" "C5'" sing N N 138 MCY "C4'" "H4'" sing N N 139 MCY "O3'" "HO3'" sing N N 140 MCY "C5'" "O5'" sing N N 141 MCY "C5'" "H5'" sing N N 142 MCY "C5'" "H5''" sing N N 143 MCY "O5'" "HO5'" sing N N 144 MCY C5A H5A1 sing N N 145 MCY C5A H5A2 sing N N 146 MCY C5A H5A3 sing N N 147 # _ndb_struct_conf_na.entry_id 145D _ndb_struct_conf_na.feature '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 MCY 1 1_555 B DG 6 1_555 -0.403 -0.109 0.007 3.039 0.768 -1.153 1 A_MCY1:DG12_B A 1 ? B 12 ? 19 1 1 A DG 2 1_555 B 5CM 5 1_555 0.431 -0.291 0.112 -2.423 0.384 2.615 2 A_DG2:5CM11_B A 2 ? B 11 ? 19 1 1 A DG 3 1_555 B DC 4 1_555 0.033 -0.119 0.617 13.709 0.078 3.019 3 A_DG3:DC10_B A 3 ? B 10 ? 19 1 1 A DG 4 1_555 B DC 3 1_555 0.378 -0.154 -0.014 -6.824 0.879 3.078 4 A_DG4:DC9_B A 4 ? B 9 ? 19 1 1 A 5CM 5 1_555 B DG 2 1_555 -0.302 -0.100 -0.015 4.290 -3.670 1.472 5 A_5CM5:DG8_B A 5 ? B 8 ? 19 1 1 A DG 6 1_555 B MCY 1 1_555 0.190 -0.124 -0.096 -3.420 -3.102 2.757 6 A_DG6:MCY7_B A 6 ? B 7 ? 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 MCY 1 1_555 B DG 6 1_555 A DG 2 1_555 B 5CM 5 1_555 0.190 5.575 3.703 -0.992 -0.208 -9.990 -31.407 -1.039 3.819 1.192 -5.676 -10.042 1 AA_MCY1DG2:5CM11DG12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A DG 2 1_555 B 5CM 5 1_555 A DG 3 1_555 B DC 4 1_555 0.210 -0.906 3.106 -2.247 0.878 -49.732 1.015 0.093 3.126 -1.043 -2.670 -49.786 2 AA_DG2DG3:DC105CM11_BB A 2 ? B 11 ? A 3 ? B 10 ? 1 A DG 3 1_555 B DC 4 1_555 A DG 4 1_555 B DC 3 1_555 -0.004 5.727 4.272 3.763 -2.366 -10.660 -23.507 7.863 5.116 12.069 19.195 -11.547 3 AA_DG3DG4:DC9DC10_BB A 3 ? B 10 ? A 4 ? B 9 ? 1 A DG 4 1_555 B DC 3 1_555 A 5CM 5 1_555 B DG 2 1_555 -0.358 -1.026 3.360 0.772 0.171 -50.452 1.191 -0.364 3.368 -0.201 0.905 -50.458 4 AA_DG45CM5:DG8DC9_BB A 4 ? B 9 ? A 5 ? B 8 ? 1 A 5CM 5 1_555 B DG 2 1_555 A DG 6 1_555 B MCY 1 1_555 0.096 5.494 3.675 1.191 -4.344 -10.756 -18.395 2.843 5.422 21.952 6.017 -11.659 5 AA_5CM5DG6:MCY7DG8_BB A 5 ? B 8 ? A 6 ? B 7 ? # _atom_sites.entry_id 145D _atom_sites.fract_transf_matrix[1][1] 0.055975 _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] 0.032444 _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] 0.022323 _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 H N O P # loop_