data_2M6V # _entry.id 2M6V # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.371 _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 2M6V pdb_00002m6v 10.2210/pdb2m6v/pdb RCSB RCSB103283 ? ? BMRB 19158 ? ? WWPDB D_1000103283 ? ? # _pdbx_database_related.db_id 19158 _pdbx_database_related.db_name BMRB _pdbx_database_related.content_type unspecified _pdbx_database_related.details . # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2M6V _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2013-04-10 _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code REL _pdbx_database_status.status_code_mr REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data REL # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Karsisiotis, A.I.' 1 'Webba da Silva, M.' 2 # _citation.id primary _citation.title 'Encoding canonical DNA quadruplex structure.' _citation.journal_abbrev 'Sci Adv' _citation.journal_volume 4 _citation.page_first eaat3007 _citation.page_last eaat3007 _citation.year 2018 _citation.journal_id_ASTM ? _citation.country US _citation.journal_id_ISSN 2375-2548 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 30182059 _citation.pdbx_database_id_DOI 10.1126/sciadv.aat3007 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Dvorkin, S.A.' 1 0000-0003-2924-751X primary 'Karsisiotis, A.I.' 2 ? primary 'Webba da Silva, M.' 3 0000-0001-6146-2522 # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;DNA (5'-D(*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*TP*GP*GP*G)-3') ; _entity.formula_weight 6034.863 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _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 '(DG)(DG)(DG)(DT)(DT)(DG)(DG)(DG)(DT)(DT)(DT)(DT)(DG)(DG)(DG)(DT)(DG)(DG)(DG)' _entity_poly.pdbx_seq_one_letter_code_can GGGTTGGGTTTTGGGTGGG _entity_poly.pdbx_strand_id A _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 DG n 1 2 DG n 1 3 DG n 1 4 DT n 1 5 DT n 1 6 DG n 1 7 DG n 1 8 DG n 1 9 DT n 1 10 DT n 1 11 DT n 1 12 DT n 1 13 DG n 1 14 DG n 1 15 DG n 1 16 DT n 1 17 DG n 1 18 DG n 1 19 DG n # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 2M6V _struct_ref.pdbx_db_accession 2M6V _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2M6V _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 19 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 2M6V _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 19 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 19 # 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 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 # loop_ _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 1 '2D 1H-1H NOESY' 2 2 2 '2D 1H-1H NOESY' 2 3 2 '2D 1H-1H TOCSY' 2 4 2 '2D DQF-COSY' 1 5 1 '2D [1H-13C] H1(C5)H8 JR HMBC' 2 6 2 '2D [1H-31P]-HSQC' # loop_ _pdbx_nmr_exptl_sample_conditions.conditions_id _pdbx_nmr_exptl_sample_conditions.ionic_strength _pdbx_nmr_exptl_sample_conditions.pH _pdbx_nmr_exptl_sample_conditions.pressure _pdbx_nmr_exptl_sample_conditions.pressure_units _pdbx_nmr_exptl_sample_conditions.temperature _pdbx_nmr_exptl_sample_conditions.temperature_units 1 25 7.8 ambient atm 278 K 2 25 7.8 ambient atm 293 K # loop_ _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.solvent_system ;5 mM DNA (5'-D(*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*TP*GP*GP*G)-3'), 20 mM sodium phosphate, 93% H2O/7% D2O ; 1 '93% H2O/7% D2O' ;5 mM DNA (5'-D(*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*TP*GP*GP*G)-3'), 20 mM sodium phosphate, 100% D2O ; 2 '100% D2O' # _pdbx_nmr_spectrometer.field_strength 500 _pdbx_nmr_spectrometer.manufacturer Varian _pdbx_nmr_spectrometer.model 'VNMRS 500' _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type 'Varian VNMRS 500' # _pdbx_nmr_refine.entry_id 2M6V _pdbx_nmr_refine.method 'simulated annealing, molecular dynamics' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy' _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2M6V _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.entry_id 2M6V _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.ordinal 'Accelrys Software Inc.' processing Felix ? 1 Goddard 'chemical shift assignment' Sparky ? 2 Goddard 'data analysis' Sparky ? 3 Brunger 'structure solution' X-PLOR ? 4 Brunger refinement X-PLOR ? 5 'Schwieters, Kuszewski, Tjandra and Clore' 'structure solution' 'X-PLOR NIH' ? 6 'Schwieters, Kuszewski, Tjandra and Clore' refinement 'X-PLOR NIH' ? 7 'Koradi, Billeter and Wuthrich' 'data analysis' MOLMOL ? 8 Varian collection VnmrJ ? 9 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.crystals_number ? _exptl.details ? _exptl.entry_id 2M6V _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2M6V _struct.title 'Solution NMR structure of the d(GGGTTGGGTTTTGGGTGGG) quadruplex in sodium conditions' _struct.pdbx_model_details 'lowest energy, model1' _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2M6V _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'G-Quadruplex, Folding Topology, DNA' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _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 hydrog1 hydrog ? ? A DG 1 N7 ? ? ? 1_555 A DG 8 N2 ? ? A DG 1 A DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog2 hydrog ? ? A DG 1 O6 ? ? ? 1_555 A DG 8 N1 ? ? A DG 1 A DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog3 hydrog ? ? A DG 1 N1 ? ? ? 1_555 A DG 13 O6 ? ? A DG 1 A DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog4 hydrog ? ? A DG 1 N2 ? ? ? 1_555 A DG 13 N7 ? ? A DG 1 A DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog5 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DG 6 O6 ? ? A DG 2 A DG 6 1_555 ? ? ? ? ? ? 'DG-DG MISPAIR' ? ? ? hydrog6 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DG 7 O6 ? ? A DG 2 A DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog7 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DG 7 N7 ? ? A DG 2 A DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog8 hydrog ? ? A DG 2 N7 ? ? ? 1_555 A DG 14 N2 ? ? A DG 2 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog9 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DG 14 N1 ? ? A DG 2 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog10 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DT 16 N3 ? ? A DG 2 A DT 16 1_555 ? ? ? ? ? ? 'DG-DT MISPAIR' ? ? ? hydrog11 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DG 15 N7 ? ? A DG 3 A DG 15 1_555 ? ? ? ? ? ? 'DG-DG MISPAIR' ? ? ? hydrog12 hydrog ? ? A DG 6 N1 ? ? ? 1_555 A DT 16 O2 ? ? A DG 6 A DT 16 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog13 hydrog ? ? A DG 6 O6 ? ? ? 1_555 A DT 16 N3 ? ? A DG 6 A DT 16 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog14 hydrog ? ? A DG 7 N1 ? ? ? 1_555 A DG 17 O6 ? ? A DG 7 A DG 17 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog15 hydrog ? ? A DG 7 N2 ? ? ? 1_555 A DG 17 N7 ? ? A DG 7 A DG 17 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog16 hydrog ? ? A DG 8 N1 ? ? ? 1_555 A DT 11 O4 ? ? A DG 8 A DT 11 1_555 ? ? ? ? ? ? 'DG-DT MISPAIR' ? ? ? hydrog17 hydrog ? ? A DG 8 N7 ? ? ? 1_555 A DG 18 N2 ? ? A DG 8 A DG 18 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog18 hydrog ? ? A DG 8 O6 ? ? ? 1_555 A DG 18 N1 ? ? A DG 8 A DG 18 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog19 hydrog ? ? A DT 9 O2 ? ? ? 1_555 A DT 11 N3 ? ? A DT 9 A DT 11 1_555 ? ? ? ? ? ? 'DT-DT MISPAIR' ? ? ? hydrog20 hydrog ? ? A DT 9 O4 ? ? ? 1_555 A DG 18 N2 ? ? A DT 9 A DG 18 1_555 ? ? ? ? ? ? 'DT-DG MISPAIR' ? ? ? hydrog21 hydrog ? ? A DG 13 N1 ? ? ? 1_555 A DG 18 O6 ? ? A DG 13 A DG 18 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog22 hydrog ? ? A DG 13 N2 ? ? ? 1_555 A DG 18 N7 ? ? A DG 13 A DG 18 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog23 hydrog ? ? A DG 14 N7 ? ? ? 1_555 A DG 17 N2 ? ? A DG 14 A DG 17 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog24 hydrog ? ? A DG 14 O6 ? ? ? 1_555 A DG 17 N1 ? ? A DG 14 A DG 17 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 2M6V _atom_sites.fract_transf_matrix[1][1] 1.000000 _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] 1.000000 _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] 1.000000 _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_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DG 1 1 1 DG DG 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 DT 4 4 4 DT DT A . n A 1 5 DT 5 5 5 DT DT A . n A 1 6 DG 6 6 6 DG DG A . n A 1 7 DG 7 7 7 DG DG A . n A 1 8 DG 8 8 8 DG DG A . n A 1 9 DT 9 9 9 DT DT A . n A 1 10 DT 10 10 10 DT DT A . n A 1 11 DT 11 11 11 DT DT A . n A 1 12 DT 12 12 12 DT DT A . n A 1 13 DG 13 13 13 DG DG A . n A 1 14 DG 14 14 14 DG DG A . n A 1 15 DG 15 15 15 DG DG A . n A 1 16 DT 16 16 16 DT DT A . n A 1 17 DG 17 17 17 DG DG A . n A 1 18 DG 18 18 18 DG DG A . n A 1 19 DG 19 19 19 DG DG A . n # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A # _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_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 2014-07-16 2 'Structure model' 1 1 2014-10-22 3 'Structure model' 1 2 2018-08-29 4 'Structure model' 1 3 2018-10-31 5 'Structure model' 1 4 2023-06-14 # _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' 'Structure summary' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Database references' 6 5 'Structure model' 'Data collection' 7 5 'Structure model' 'Database references' 8 5 'Structure model' Other # 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' citation 2 3 'Structure model' citation_author 3 4 'Structure model' citation 4 4 'Structure model' citation_author 5 5 'Structure model' database_2 6 5 'Structure model' pdbx_database_status 7 5 'Structure model' pdbx_nmr_software # 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' '_citation.country' 2 3 'Structure model' '_citation.journal_abbrev' 3 3 'Structure model' '_citation.journal_id_CSD' 4 3 'Structure model' '_citation.journal_id_ISSN' 5 3 'Structure model' '_citation.journal_volume' 6 3 'Structure model' '_citation.pdbx_database_id_DOI' 7 3 'Structure model' '_citation.title' 8 3 'Structure model' '_citation.year' 9 4 'Structure model' '_citation.page_first' 10 4 'Structure model' '_citation.page_last' 11 4 'Structure model' '_citation.pdbx_database_id_PubMed' 12 4 'Structure model' '_citation.title' 13 4 'Structure model' '_citation_author.identifier_ORCID' 14 5 'Structure model' '_database_2.pdbx_DOI' 15 5 'Structure model' '_database_2.pdbx_database_accession' 16 5 'Structure model' '_pdbx_database_status.status_code_nmr_data' 17 5 'Structure model' '_pdbx_nmr_software.name' # loop_ _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_range _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling _pdbx_nmr_exptl_sample.solution_id ;DNA (5'-D(*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*TP*GP*GP*G)-3') ; ? 5 mM ? 1 'sodium phospate' 20 ? mM ? 1 ;DNA (5'-D(*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*TP*GP*GP*G)-3') ; ? 5 mM ? 2 'sodium phosphate' 20 ? mM ? 2 # _pdbx_nmr_constraints.disulfide_bond_constraints_total_count ? _pdbx_nmr_constraints.entry_id 2M6V _pdbx_nmr_constraints.hydrogen_bond_constraints_total_count ? _pdbx_nmr_constraints.NA_alpha-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_beta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_chi-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_delta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_epsilon-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_gamma-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_other-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_sugar_pucker_constraints_total_count ? _pdbx_nmr_constraints.NOE_constraints_total 542 _pdbx_nmr_constraints.NOE_interentity_total_count ? _pdbx_nmr_constraints.NOE_interproton_distance_evaluation ? _pdbx_nmr_constraints.NOE_intraresidue_total_count 257 _pdbx_nmr_constraints.NOE_long_range_total_count 102 _pdbx_nmr_constraints.NOE_medium_range_total_count 39 _pdbx_nmr_constraints.NOE_motional_averaging_correction ? _pdbx_nmr_constraints.NOE_pseudoatom_corrections ? _pdbx_nmr_constraints.NOE_sequential_total_count 144 _pdbx_nmr_constraints.protein_chi_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_other_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_phi_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_psi_angle_constraints_total_count ? # 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 C6 A DT 4 ? ? C5 A DT 4 ? ? C7 A DT 4 ? ? 119.28 122.90 -3.62 0.60 N 2 1 C6 A DT 12 ? ? C5 A DT 12 ? ? C7 A DT 12 ? ? 119.25 122.90 -3.65 0.60 N 3 2 C6 A DT 16 ? ? C5 A DT 16 ? ? C7 A DT 16 ? ? 119.06 122.90 -3.84 0.60 N 4 3 C6 A DT 4 ? ? C5 A DT 4 ? ? C7 A DT 4 ? ? 119.29 122.90 -3.61 0.60 N 5 3 C6 A DT 16 ? ? C5 A DT 16 ? ? C7 A DT 16 ? ? 119.05 122.90 -3.85 0.60 N 6 4 C6 A DT 12 ? ? C5 A DT 12 ? ? C7 A DT 12 ? ? 119.25 122.90 -3.65 0.60 N 7 4 C6 A DT 16 ? ? C5 A DT 16 ? ? C7 A DT 16 ? ? 119.06 122.90 -3.84 0.60 N 8 5 C6 A DT 11 ? ? C5 A DT 11 ? ? C7 A DT 11 ? ? 119.25 122.90 -3.65 0.60 N 9 5 C6 A DT 16 ? ? C5 A DT 16 ? ? C7 A DT 16 ? ? 118.70 122.90 -4.20 0.60 N 10 6 C6 A DT 12 ? ? C5 A DT 12 ? ? C7 A DT 12 ? ? 119.25 122.90 -3.65 0.60 N 11 6 C6 A DT 16 ? ? C5 A DT 16 ? ? C7 A DT 16 ? ? 118.84 122.90 -4.06 0.60 N 12 7 C6 A DT 16 ? ? C5 A DT 16 ? ? C7 A DT 16 ? ? 119.04 122.90 -3.86 0.60 N 13 8 C6 A DT 16 ? ? C5 A DT 16 ? ? C7 A DT 16 ? ? 118.89 122.90 -4.01 0.60 N 14 9 C6 A DT 11 ? ? C5 A DT 11 ? ? C7 A DT 11 ? ? 119.17 122.90 -3.73 0.60 N 15 10 C6 A DT 11 ? ? C5 A DT 11 ? ? C7 A DT 11 ? ? 119.27 122.90 -3.63 0.60 N 16 10 C6 A DT 12 ? ? C5 A DT 12 ? ? C7 A DT 12 ? ? 119.16 122.90 -3.74 0.60 N 17 10 C6 A DT 16 ? ? C5 A DT 16 ? ? C7 A DT 16 ? ? 119.18 122.90 -3.72 0.60 N # _ndb_struct_conf_na.entry_id 2M6V _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 DG 3 1_555 A DG 15 1_555 1.099 4.682 0.354 -61.178 -5.237 -30.082 1 A_DG3:DG15_A A 3 ? A 15 ? ? 3 1 A DG 6 1_555 A DT 16 1_555 -2.093 -0.264 -0.022 20.089 13.955 5.948 2 A_DG6:DT16_A A 6 ? A 16 ? 28 1 1 A DG 7 1_555 A DG 17 1_555 1.174 3.708 0.041 -4.047 -2.312 -94.007 3 A_DG7:DG17_A A 7 ? A 17 ? 6 3 1 A DG 13 1_555 A DG 18 1_555 0.980 3.839 0.054 10.096 3.414 -88.149 4 A_DG13:DG18_A A 13 ? A 18 ? 6 3 1 A DT 11 1_555 A DT 9 1_555 -0.378 3.464 -1.376 9.949 42.826 91.881 5 A_DT11:DT9_A A 11 ? A 9 ? ? ? 1 A DG 1 1_555 A DG 8 1_555 -1.138 -3.519 0.230 -24.977 11.055 92.940 6 A_DG1:DG8_A A 1 ? A 8 ? 6 3 1 A DG 2 1_555 A DG 14 1_555 -1.104 -3.570 0.373 2.388 13.643 90.446 7 A_DG2:DG14_A A 2 ? A 14 ? 6 3 # 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 DG 6 1_555 A DT 16 1_555 A DG 7 1_555 A DG 17 1_555 -1.221 0.462 -2.575 3.888 -3.154 23.566 0.270 1.895 -2.775 -7.612 -9.384 24.085 1 AA_DG6DG7:DG17DT16_AA A 6 ? A 16 ? A 7 ? A 17 ? 1 A DG 7 1_555 A DG 17 1_555 A DG 13 1_555 A DG 18 1_555 -1.352 -2.764 -0.207 166.122 -42.016 151.713 -1.391 0.643 -0.356 -21.040 -83.188 177.889 2 AA_DG7DG13:DG18DG17_AA A 7 ? A 17 ? A 13 ? A 18 ? 1 A DG 13 1_555 A DG 18 1_555 A DT 11 1_555 A DT 9 1_555 2.744 -0.606 1.809 4.655 -8.199 -113.107 0.412 1.670 1.704 4.908 2.787 -113.363 3 AA_DG13DT11:DT9DG18_AA A 13 ? A 18 ? A 11 ? A 9 ? 1 A DG 1 1_555 A DG 8 1_555 A DG 2 1_555 A DG 14 1_555 -0.670 3.282 0.321 -169.701 50.576 154.999 1.626 0.284 0.656 25.298 84.884 179.367 4 AA_DG1DG2:DG14DG8_AA A 1 ? A 8 ? A 2 ? A 14 ? #