data_1F6E # _entry.id 1F6E # _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 1F6E pdb_00001f6e 10.2210/pdb1f6e/pdb NDB AD0009 ? ? RCSB RCSB011299 ? ? WWPDB D_1000011299 ? ? # 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 2000-08-28 2 'Structure model' 1 1 2008-04-27 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_leaving_atom_flag' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1F6E _pdbx_database_status.recvd_initial_deposition_date 2000-06-21 _pdbx_database_status.deposit_site NDB _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1F69 'B-DNA HEXAMER GGCGCC WITH COBALT HEXAMINE' unspecified PDB 1F6C 'B-DNA HEXAMER GGCGCC WITH SPERMINE' unspecified PDB 1F6I 'E-DNA HEXAMER GGCGM5CC' unspecified PDB 1F6J 'E-DNA HEXAMER GGCGBR5CC' unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Vargason, J.M.' 1 'Eichman, B.F.' 2 'Ho, P.S.' 3 # _citation.id primary _citation.title 'The extended and eccentric E-DNA structure induced by cytosine methylation or bromination.' _citation.journal_abbrev Nat.Struct.Biol. _citation.journal_volume 7 _citation.page_first 758 _citation.page_last 761 _citation.year 2000 _citation.journal_id_ASTM NSBIEW _citation.country US _citation.journal_id_ISSN 1072-8368 _citation.journal_id_CSD 2024 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 10966645 _citation.pdbx_database_id_DOI 10.1038/78985 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Vargason, J.M.' 1 ? primary 'Eichman, B.F.' 2 ? primary 'Ho, P.S.' 3 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*GP*GP*CP*GP*(5CM)P*C)-3') ; 1824.232 6 ? ? ? ? 2 water nat water 18.015 126 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DG)(DG)(DC)(DG)(5CM)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GGCGCC _entity_poly.pdbx_strand_id A,B,C,D,E,F _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _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 DG n 1 2 DG n 1 3 DC n 1 4 DG n 1 5 5CM n 1 6 DC 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 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DG 1 1 1 DG G A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 5CM 5 5 5 5CM +C A . n A 1 6 DC 6 6 6 DC C A . n B 1 1 DG 1 7 7 DG G B . n B 1 2 DG 2 8 8 DG G B . n B 1 3 DC 3 9 9 DC C B . n B 1 4 DG 4 10 10 DG G B . n B 1 5 5CM 5 11 11 5CM +C B . n B 1 6 DC 6 12 12 DC C B . n C 1 1 DG 1 13 13 DG G C . n C 1 2 DG 2 14 14 DG G C . n C 1 3 DC 3 15 15 DC C C . n C 1 4 DG 4 16 16 DG G C . n C 1 5 5CM 5 17 17 5CM +C C . n C 1 6 DC 6 18 18 DC C C . n D 1 1 DG 1 19 19 DG G D . n D 1 2 DG 2 20 20 DG G D . n D 1 3 DC 3 21 21 DC C D . n D 1 4 DG 4 22 22 DG G D . n D 1 5 5CM 5 23 23 5CM +C D . n D 1 6 DC 6 24 24 DC C D . n E 1 1 DG 1 25 25 DG G E . n E 1 2 DG 2 26 26 DG G E . n E 1 3 DC 3 27 27 DC C E . n E 1 4 DG 4 28 28 DG G E . n E 1 5 5CM 5 29 29 5CM +C E . n E 1 6 DC 6 30 30 DC C E . n F 1 1 DG 1 31 31 DG G F . n F 1 2 DG 2 32 32 DG G F . n F 1 3 DC 3 33 33 DC C F . n F 1 4 DG 4 34 34 DG G F . n F 1 5 5CM 5 35 35 5CM +C F . n F 1 6 DC 6 36 36 DC C F . 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 G 2 HOH 1 38 38 HOH HOH A . G 2 HOH 2 40 40 HOH HOH A . G 2 HOH 3 42 42 HOH HOH A . G 2 HOH 4 51 51 HOH HOH A . G 2 HOH 5 55 55 HOH HOH A . G 2 HOH 6 57 57 HOH HOH A . G 2 HOH 7 68 68 HOH HOH A . G 2 HOH 8 69 69 HOH HOH A . G 2 HOH 9 78 78 HOH HOH A . G 2 HOH 10 80 80 HOH HOH A . G 2 HOH 11 97 97 HOH HOH A . G 2 HOH 12 107 107 HOH HOH A . G 2 HOH 13 108 108 HOH HOH A . G 2 HOH 14 109 109 HOH HOH A . G 2 HOH 15 110 110 HOH HOH A . G 2 HOH 16 111 111 HOH HOH A . G 2 HOH 17 112 112 HOH HOH A . G 2 HOH 18 125 125 HOH HOH A . G 2 HOH 19 135 135 HOH HOH A . G 2 HOH 20 141 141 HOH HOH A . G 2 HOH 21 142 142 HOH HOH A . G 2 HOH 22 143 143 HOH HOH A . G 2 HOH 23 146 146 HOH HOH A . G 2 HOH 24 147 147 HOH HOH A . G 2 HOH 25 153 153 HOH HOH A . G 2 HOH 26 154 154 HOH HOH A . G 2 HOH 27 156 156 HOH HOH A . G 2 HOH 28 157 157 HOH HOH A . G 2 HOH 29 158 158 HOH HOH A . G 2 HOH 30 159 159 HOH HOH A . H 2 HOH 1 37 37 HOH HOH B . H 2 HOH 2 39 39 HOH HOH B . H 2 HOH 3 41 41 HOH HOH B . H 2 HOH 4 58 58 HOH HOH B . H 2 HOH 5 65 65 HOH HOH B . H 2 HOH 6 67 67 HOH HOH B . H 2 HOH 7 77 77 HOH HOH B . H 2 HOH 8 87 87 HOH HOH B . H 2 HOH 9 100 100 HOH HOH B . H 2 HOH 10 101 101 HOH HOH B . H 2 HOH 11 102 102 HOH HOH B . H 2 HOH 12 117 117 HOH HOH B . H 2 HOH 13 121 121 HOH HOH B . H 2 HOH 14 138 138 HOH HOH B . H 2 HOH 15 139 139 HOH HOH B . H 2 HOH 16 155 155 HOH HOH B . H 2 HOH 17 161 161 HOH HOH B . I 2 HOH 1 43 43 HOH HOH C . I 2 HOH 2 45 45 HOH HOH C . I 2 HOH 3 47 47 HOH HOH C . I 2 HOH 4 52 52 HOH HOH C . I 2 HOH 5 62 62 HOH HOH C . I 2 HOH 6 63 63 HOH HOH C . I 2 HOH 7 64 64 HOH HOH C . I 2 HOH 8 66 66 HOH HOH C . I 2 HOH 9 75 75 HOH HOH C . I 2 HOH 10 81 81 HOH HOH C . I 2 HOH 11 84 84 HOH HOH C . I 2 HOH 12 85 85 HOH HOH C . I 2 HOH 13 86 86 HOH HOH C . I 2 HOH 14 90 90 HOH HOH C . I 2 HOH 15 91 91 HOH HOH C . I 2 HOH 16 92 92 HOH HOH C . I 2 HOH 17 93 93 HOH HOH C . I 2 HOH 18 94 94 HOH HOH C . I 2 HOH 19 105 105 HOH HOH C . I 2 HOH 20 118 118 HOH HOH C . I 2 HOH 21 126 126 HOH HOH C . I 2 HOH 22 136 136 HOH HOH C . I 2 HOH 23 144 144 HOH HOH C . I 2 HOH 24 145 145 HOH HOH C . I 2 HOH 25 160 160 HOH HOH C . J 2 HOH 1 44 44 HOH HOH D . J 2 HOH 2 46 46 HOH HOH D . J 2 HOH 3 53 53 HOH HOH D . J 2 HOH 4 59 59 HOH HOH D . J 2 HOH 5 60 60 HOH HOH D . J 2 HOH 6 61 61 HOH HOH D . J 2 HOH 7 73 73 HOH HOH D . J 2 HOH 8 74 74 HOH HOH D . J 2 HOH 9 76 76 HOH HOH D . J 2 HOH 10 95 95 HOH HOH D . J 2 HOH 11 104 104 HOH HOH D . J 2 HOH 12 119 119 HOH HOH D . J 2 HOH 13 127 127 HOH HOH D . J 2 HOH 14 133 133 HOH HOH D . J 2 HOH 15 134 134 HOH HOH D . J 2 HOH 16 148 148 HOH HOH D . J 2 HOH 17 151 151 HOH HOH D . J 2 HOH 18 152 152 HOH HOH D . K 2 HOH 1 48 48 HOH HOH E . K 2 HOH 2 50 50 HOH HOH E . K 2 HOH 3 54 54 HOH HOH E . K 2 HOH 4 71 71 HOH HOH E . K 2 HOH 5 79 79 HOH HOH E . K 2 HOH 6 82 82 HOH HOH E . K 2 HOH 7 83 83 HOH HOH E . K 2 HOH 8 88 88 HOH HOH E . K 2 HOH 9 98 98 HOH HOH E . K 2 HOH 10 99 99 HOH HOH E . K 2 HOH 11 103 103 HOH HOH E . K 2 HOH 12 106 106 HOH HOH E . K 2 HOH 13 114 114 HOH HOH E . K 2 HOH 14 120 120 HOH HOH E . K 2 HOH 15 122 122 HOH HOH E . K 2 HOH 16 123 123 HOH HOH E . K 2 HOH 17 128 128 HOH HOH E . K 2 HOH 18 129 129 HOH HOH E . K 2 HOH 19 130 130 HOH HOH E . K 2 HOH 20 131 131 HOH HOH E . K 2 HOH 21 132 132 HOH HOH E . K 2 HOH 22 140 140 HOH HOH E . L 2 HOH 1 49 49 HOH HOH F . L 2 HOH 2 56 56 HOH HOH F . L 2 HOH 3 70 70 HOH HOH F . L 2 HOH 4 72 72 HOH HOH F . L 2 HOH 5 89 89 HOH HOH F . L 2 HOH 6 96 96 HOH HOH F . L 2 HOH 7 113 113 HOH HOH F . L 2 HOH 8 115 115 HOH HOH F . L 2 HOH 9 116 116 HOH HOH F . L 2 HOH 10 124 124 HOH HOH F . L 2 HOH 11 137 137 HOH HOH F . L 2 HOH 12 149 149 HOH HOH F . L 2 HOH 13 150 150 HOH HOH F . L 2 HOH 14 162 162 HOH HOH F . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 E DG 25 ? "O5'" ? E DG 1 "O5'" 2 1 Y 1 E DG 25 ? "C5'" ? E DG 1 "C5'" 3 1 Y 1 E DG 25 ? "C4'" ? E DG 1 "C4'" 4 1 Y 1 E DG 25 ? "O4'" ? E DG 1 "O4'" 5 1 Y 1 E DG 25 ? "C3'" ? E DG 1 "C3'" 6 1 Y 1 E DG 25 ? "C2'" ? E DG 1 "C2'" 7 1 Y 1 E DG 25 ? "C1'" ? E DG 1 "C1'" 8 1 Y 1 E DG 25 ? N9 ? E DG 1 N9 9 1 Y 1 E DG 25 ? C8 ? E DG 1 C8 10 1 Y 1 E DG 25 ? N7 ? E DG 1 N7 11 1 Y 1 E DG 25 ? C5 ? E DG 1 C5 12 1 Y 1 E DG 25 ? C6 ? E DG 1 C6 13 1 Y 1 E DG 25 ? O6 ? E DG 1 O6 14 1 Y 1 E DG 25 ? N1 ? E DG 1 N1 15 1 Y 1 E DG 25 ? C2 ? E DG 1 C2 16 1 Y 1 E DG 25 ? N2 ? E DG 1 N2 17 1 Y 1 E DG 25 ? N3 ? E DG 1 N3 18 1 Y 1 E DG 25 ? C4 ? E DG 1 C4 19 1 Y 1 F DC 36 ? "C5'" ? F DC 6 "C5'" 20 1 Y 1 F DC 36 ? "C4'" ? F DC 6 "C4'" 21 1 Y 1 F DC 36 ? "O4'" ? F DC 6 "O4'" 22 1 Y 1 F DC 36 ? "C3'" ? F DC 6 "C3'" 23 1 Y 1 F DC 36 ? "O3'" ? F DC 6 "O3'" 24 1 Y 1 F DC 36 ? "C2'" ? F DC 6 "C2'" 25 1 Y 1 F DC 36 ? "C1'" ? F DC 6 "C1'" 26 1 Y 1 F DC 36 ? N1 ? F DC 6 N1 27 1 Y 1 F DC 36 ? C2 ? F DC 6 C2 28 1 Y 1 F DC 36 ? O2 ? F DC 6 O2 29 1 Y 1 F DC 36 ? N3 ? F DC 6 N3 30 1 Y 1 F DC 36 ? C4 ? F DC 6 C4 31 1 Y 1 F DC 36 ? N4 ? F DC 6 N4 32 1 Y 1 F DC 36 ? C5 ? F DC 6 C5 33 1 Y 1 F DC 36 ? C6 ? F DC 6 C6 # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal AMoRE phasing . ? 1 CNS refinement 0.9 ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 # _cell.entry_id 1F6E _cell.length_a 37.060 _cell.length_b 46.727 _cell.length_c 110.689 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1F6E _symmetry.space_group_name_H-M 'C 2 2 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 20 # _exptl.entry_id 1F6E _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 51.27 _exptl_crystal.density_Matthews 2.52 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_details 'MGCL2, SPERMINE, SODIUM CACODYLATE, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K' _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 'SODIUM CACODYLATE' ? ? ? 1 2 1 SPERMINE ? ? ? 1 3 1 MGCL2 ? ? ? 1 4 2 MGCL2 ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 298 _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 2000-02-21 _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 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'RIGAKU RU300' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.5418 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1F6E _reflns.observed_criterion_sigma_I 0.0 _reflns.observed_criterion_sigma_F 0.0 _reflns.d_resolution_low 500 _reflns.d_resolution_high 2.0 _reflns.number_obs 6053 _reflns.number_all 6053 _reflns.percent_possible_obs 88.6 _reflns.pdbx_Rmerge_I_obs 0.055 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 21.2 _reflns.B_iso_Wilson_estimate 26.2 _reflns.pdbx_redundancy 4.6 _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.00 _reflns_shell.d_res_low 2.07 _reflns_shell.percent_possible_all 62.9 _reflns_shell.Rmerge_I_obs 0.384 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy 1.9 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1F6E _refine.ls_number_reflns_obs 5740 _refine.ls_number_reflns_all 5740 _refine.pdbx_ls_sigma_I 0.0 _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 8.0 _refine.ls_d_res_high 2.0 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.208 _refine.ls_R_factor_all 0.208 _refine.ls_R_factor_R_work 0.205 _refine.ls_R_factor_R_free 0.248 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10.2 _refine.ls_number_reflns_R_free 585 _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 THROUGHOUT _refine.details ;RESIDUES G E 25 AND C F 36 WERE DISORDERED AND WERE NOT MODELLED WITH THE EXCEPTION OF THE BACKBONE ATOMS IN THE COORDINATE SECTION ; _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values MLF _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_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 687 _refine_hist.pdbx_number_atoms_ligand 6 _refine_hist.number_atoms_solvent 126 _refine_hist.number_atoms_total 819 _refine_hist.d_res_high 2.0 _refine_hist.d_res_low 8.0 # 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 c_bond_d 0.004 ? ? ? 'X-RAY DIFFRACTION' ? c_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 0.8 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? c_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? c_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? c_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 1F6E _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 1F6E _struct.title 'CRYSTAL STRUCTURE OF THE A-DNA HEXAMER GGCGM5CC' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1F6E _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'A-DNA, E-DNA, DOUBLE HELIX, DNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 1 ? D N N 1 ? E N N 1 ? F N N 1 ? G N N 2 ? H N N 2 ? I N N 2 ? J N N 2 ? K N N 2 ? L N N 2 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1F6E _struct_ref.pdbx_db_accession 1F6E _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1F6E A 1 ? 6 ? 1F6E 1 ? 6 ? 1 6 2 1 1F6E B 1 ? 6 ? 1F6E 7 ? 12 ? 7 12 3 1 1F6E C 1 ? 6 ? 1F6E 13 ? 18 ? 13 18 4 1 1F6E D 1 ? 6 ? 1F6E 19 ? 24 ? 19 24 5 1 1F6E E 1 ? 6 ? 1F6E 25 ? 30 ? 25 30 6 1 1F6E F 1 ? 6 ? 1F6E 31 ? 36 ? 31 36 # 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 3 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,G,H 2 1 C,D,I,J 3 1 E,F,K,L # _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 1 2 3 # 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 DG 4 "O3'" ? ? ? 1_555 A 5CM 5 P ? ? A DG 4 A 5CM 5 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale2 covale both ? A 5CM 5 "O3'" ? ? ? 1_555 A DC 6 P ? ? A 5CM 5 A DC 6 1_555 ? ? ? ? ? ? ? 1.612 ? ? covale3 covale both ? B DG 4 "O3'" ? ? ? 1_555 B 5CM 5 P ? ? B DG 10 B 5CM 11 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale4 covale both ? B 5CM 5 "O3'" ? ? ? 1_555 B DC 6 P ? ? B 5CM 11 B DC 12 1_555 ? ? ? ? ? ? ? 1.605 ? ? covale5 covale both ? C DG 4 "O3'" ? ? ? 1_555 C 5CM 5 P ? ? C DG 16 C 5CM 17 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale6 covale both ? C 5CM 5 "O3'" ? ? ? 1_555 C DC 6 P ? ? C 5CM 17 C DC 18 1_555 ? ? ? ? ? ? ? 1.610 ? ? covale7 covale both ? D DG 4 "O3'" ? ? ? 1_555 D 5CM 5 P ? ? D DG 22 D 5CM 23 1_555 ? ? ? ? ? ? ? 1.602 ? ? covale8 covale both ? D 5CM 5 "O3'" ? ? ? 1_555 D DC 6 P ? ? D 5CM 23 D DC 24 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale9 covale both ? E DG 4 "O3'" ? ? ? 1_555 E 5CM 5 P ? ? E DG 28 E 5CM 29 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale10 covale both ? E 5CM 5 "O3'" ? ? ? 1_555 E DC 6 P ? ? E 5CM 29 E DC 30 1_555 ? ? ? ? ? ? ? 1.605 ? ? covale11 covale both ? F DG 4 "O3'" ? ? ? 1_555 F 5CM 5 P ? ? F DG 34 F 5CM 35 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale12 covale both ? F 5CM 5 "O3'" ? ? ? 1_555 F DC 6 P ? ? F 5CM 35 F DC 36 1_555 ? ? ? ? ? ? ? 1.614 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DC 6 N3 ? ? A DG 1 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DC 6 O2 ? ? A DG 1 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DC 6 N4 ? ? A DG 1 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B 5CM 5 N3 ? ? A DG 2 B 5CM 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B 5CM 5 O2 ? ? A DG 2 B 5CM 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B 5CM 5 N4 ? ? A DG 2 B 5CM 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A 5CM 5 N3 ? ? ? 1_555 B DG 2 N1 ? ? A 5CM 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A 5CM 5 N4 ? ? ? 1_555 B DG 2 O6 ? ? A 5CM 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A 5CM 5 O2 ? ? ? 1_555 B DG 2 N2 ? ? A 5CM 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 6 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 6 B DG 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 6 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 6 B DG 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 6 O2 ? ? ? 1_555 B DG 1 N2 ? ? A DC 6 B DG 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? C DG 1 N1 ? ? ? 1_555 D DC 6 N3 ? ? C DG 13 D DC 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? C DG 1 N2 ? ? ? 1_555 D DC 6 O2 ? ? C DG 13 D DC 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? C DG 1 O6 ? ? ? 1_555 D DC 6 N4 ? ? C DG 13 D DC 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? C DG 2 N1 ? ? ? 1_555 D 5CM 5 N3 ? ? C DG 14 D 5CM 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? C DG 2 N2 ? ? ? 1_555 D 5CM 5 O2 ? ? C DG 14 D 5CM 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? C DG 2 O6 ? ? ? 1_555 D 5CM 5 N4 ? ? C DG 14 D 5CM 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? C DC 3 N3 ? ? ? 1_555 D DG 4 N1 ? ? C DC 15 D DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? C DC 3 N4 ? ? ? 1_555 D DG 4 O6 ? ? C DC 15 D DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C DC 3 O2 ? ? ? 1_555 D DG 4 N2 ? ? C DC 15 D DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C DG 4 N1 ? ? ? 1_555 D DC 3 N3 ? ? C DG 16 D DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? C DG 4 N2 ? ? ? 1_555 D DC 3 O2 ? ? C DG 16 D DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? C DG 4 O6 ? ? ? 1_555 D DC 3 N4 ? ? C DG 16 D DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? C 5CM 5 N3 ? ? ? 1_555 D DG 2 N1 ? ? C 5CM 17 D DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? C 5CM 5 N4 ? ? ? 1_555 D DG 2 O6 ? ? C 5CM 17 D DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? C 5CM 5 O2 ? ? ? 1_555 D DG 2 N2 ? ? C 5CM 17 D DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? C DC 6 N3 ? ? ? 1_555 D DG 1 N1 ? ? C DC 18 D DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? C DC 6 N4 ? ? ? 1_555 D DG 1 O6 ? ? C DC 18 D DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? C DC 6 O2 ? ? ? 1_555 D DG 1 N2 ? ? C DC 18 D DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? E DG 2 N1 ? ? ? 1_555 F 5CM 5 N3 ? ? E DG 26 F 5CM 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? E DG 2 N2 ? ? ? 1_555 F 5CM 5 O2 ? ? E DG 26 F 5CM 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? E DG 2 O6 ? ? ? 1_555 F 5CM 5 N4 ? ? E DG 26 F 5CM 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? E DC 3 N3 ? ? ? 1_555 F DG 4 N1 ? ? E DC 27 F DG 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? E DC 3 N4 ? ? ? 1_555 F DG 4 O6 ? ? E DC 27 F DG 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? E DC 3 O2 ? ? ? 1_555 F DG 4 N2 ? ? E DC 27 F DG 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? E DG 4 N1 ? ? ? 1_555 F DC 3 N3 ? ? E DG 28 F DC 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? E DG 4 N2 ? ? ? 1_555 F DC 3 O2 ? ? E DG 28 F DC 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? E DG 4 O6 ? ? ? 1_555 F DC 3 N4 ? ? E DG 28 F DC 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? E 5CM 5 N3 ? ? ? 1_555 F DG 2 N1 ? ? E 5CM 29 F DG 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? E 5CM 5 N4 ? ? ? 1_555 F DG 2 O6 ? ? E 5CM 29 F DG 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? E 5CM 5 O2 ? ? ? 1_555 F DG 2 N2 ? ? E 5CM 29 F DG 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? E DC 6 N3 ? ? ? 1_555 F DG 1 N1 ? ? E DC 30 F DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? E DC 6 N4 ? ? ? 1_555 F DG 1 O6 ? ? E DC 30 F DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? E DC 6 O2 ? ? ? 1_555 F DG 1 N2 ? ? E DC 30 F DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DG B 8 ? ? 0.063 'SIDE CHAIN' 2 1 DG B 10 ? ? 0.063 '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 5CM 5 A 5CM 5 ? DC ? 2 B 5CM 5 B 5CM 11 ? DC ? 3 C 5CM 5 C 5CM 17 ? DC ? 4 D 5CM 5 D 5CM 23 ? DC ? 5 E 5CM 5 E 5CM 29 ? DC ? 6 F 5CM 5 F 5CM 35 ? 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 # 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 # _ndb_struct_conf_na.entry_id 1F6E _ndb_struct_conf_na.feature 'a-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 DG 1 1_555 B DC 6 1_555 -0.163 -0.165 -0.106 -7.650 -1.524 -1.732 1 A_DG1:DC12_B A 1 ? B 12 ? 19 1 1 A DG 2 1_555 B 5CM 5 1_555 -0.385 -0.120 -0.031 -1.725 -8.138 1.994 2 A_DG2:5CM11_B A 2 ? B 11 ? 19 1 1 A DC 3 1_555 B DG 4 1_555 0.391 -0.092 -0.201 2.595 -10.939 6.316 3 A_DC3:DG10_B A 3 ? B 10 ? 19 1 1 A DG 4 1_555 B DC 3 1_555 -0.325 -0.033 -0.241 -8.243 -11.347 4.081 4 A_DG4:DC9_B A 4 ? B 9 ? 19 1 1 A 5CM 5 1_555 B DG 2 1_555 0.225 -0.213 -0.129 6.205 -10.319 0.986 5 A_5CM5:DG8_B A 5 ? B 8 ? 19 1 1 A DC 6 1_555 B DG 1 1_555 0.337 -0.291 -0.121 9.012 -5.039 -0.673 6 A_DC6:DG7_B A 6 ? B 7 ? 19 1 1 C DG 1 1_555 D DC 6 1_555 -0.333 -0.181 0.149 -7.875 -7.149 1.122 7 C_DG13:DC24_D C 13 ? D 24 ? 19 1 1 C DG 2 1_555 D 5CM 5 1_555 -0.308 -0.217 0.001 -0.968 -11.320 -1.445 8 C_DG14:5CM23_D C 14 ? D 23 ? 19 1 1 C DC 3 1_555 D DG 4 1_555 0.240 -0.110 -0.279 9.105 -11.515 4.313 9 C_DC15:DG22_D C 15 ? D 22 ? 19 1 1 C DG 4 1_555 D DC 3 1_555 -0.221 -0.084 0.024 -2.693 -7.721 5.051 10 C_DG16:DC21_D C 16 ? D 21 ? 19 1 1 C 5CM 5 1_555 D DG 2 1_555 0.321 -0.177 -0.239 4.377 -8.964 0.879 11 C_5CM17:DG20_D C 17 ? D 20 ? 19 1 1 C DC 6 1_555 D DG 1 1_555 0.271 -0.177 0.074 5.589 -3.553 -0.450 12 C_DC18:DG19_D C 18 ? D 19 ? 19 1 1 E DG 2 1_555 F 5CM 5 1_555 -0.438 -0.054 -0.049 -4.749 -8.494 0.477 13 E_DG26:5CM35_F E 26 ? F 35 ? 19 1 1 E DC 3 1_555 F DG 4 1_555 -0.015 -0.355 -0.077 3.248 -13.530 -0.843 14 E_DC27:DG34_F E 27 ? F 34 ? 19 1 1 E DG 4 1_555 F DC 3 1_555 -0.299 -0.410 -0.188 -5.175 -11.770 0.459 15 E_DG28:DC33_F E 28 ? F 33 ? 19 1 1 E 5CM 5 1_555 F DG 2 1_555 0.245 -0.196 0.078 -0.122 -10.437 1.209 16 E_5CM29:DG32_F E 29 ? F 32 ? 19 1 1 E DC 6 1_555 F DG 1 1_555 0.359 -0.101 -0.010 5.211 -6.490 -1.486 17 E_DC30:DG31_F E 30 ? F 31 ? 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 DG 1 1_555 B DC 6 1_555 A DG 2 1_555 B 5CM 5 1_555 0.006 -1.899 3.237 -2.255 6.306 29.373 -4.854 -0.440 2.771 12.236 4.376 30.111 1 AA_DG1DG2:5CM11DC12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A DG 2 1_555 B 5CM 5 1_555 A DC 3 1_555 B DG 4 1_555 0.235 -1.668 3.278 0.604 4.692 33.131 -3.647 -0.311 3.024 8.177 -1.052 33.458 2 AA_DG2DC3:DG105CM11_BB A 2 ? B 11 ? A 3 ? B 10 ? 1 A DC 3 1_555 B DG 4 1_555 A DG 4 1_555 B DC 3 1_555 -0.399 -1.953 3.568 -0.027 14.682 23.855 -7.281 0.821 2.043 31.938 0.059 27.955 3 AA_DC3DG4:DC9DG10_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 -0.685 -1.159 3.084 -1.550 4.663 31.686 -2.874 0.983 2.917 8.476 2.817 32.055 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 DC 6 1_555 B DG 1 1_555 0.652 -1.331 3.252 1.558 6.878 31.875 -3.514 -0.902 2.936 12.336 -2.795 32.626 5 AA_5CM5DC6:DG7DG8_BB A 5 ? B 8 ? A 6 ? B 7 ? 1 C DG 1 1_555 D DC 6 1_555 C DG 2 1_555 D 5CM 5 1_555 -0.832 -0.998 3.114 -2.148 7.454 32.705 -2.859 1.114 2.871 13.010 3.750 33.588 6 CC_DG13DG14:5CM23DC24_DD C 13 ? D 24 ? C 14 ? D 23 ? 1 C DG 2 1_555 D 5CM 5 1_555 C DC 3 1_555 D DG 4 1_555 0.653 -0.834 3.119 1.515 7.627 33.389 -2.533 -0.886 2.890 13.055 -2.593 34.257 7 CC_DG14DC15:DG225CM23_DD C 14 ? D 23 ? C 15 ? D 22 ? 1 C DC 3 1_555 D DG 4 1_555 C DG 4 1_555 D DC 3 1_555 0.101 -1.856 3.491 -3.426 17.297 26.879 -6.192 -0.744 1.945 33.075 6.550 32.058 8 CC_DC15DG16:DC21DG22_DD C 15 ? D 22 ? C 16 ? D 21 ? 1 C DG 4 1_555 D DC 3 1_555 C 5CM 5 1_555 D DG 2 1_555 -0.517 -1.483 3.193 2.157 4.384 32.896 -3.282 1.244 2.938 7.688 -3.783 33.247 9 CC_DG165CM17:DG20DC21_DD C 16 ? D 21 ? C 17 ? D 20 ? 1 C 5CM 5 1_555 D DG 2 1_555 C DC 6 1_555 D DG 1 1_555 0.605 -1.886 3.289 0.363 7.325 29.241 -5.031 -1.094 2.753 14.229 -0.706 30.127 10 CC_5CM17DC18:DG19DG20_DD C 17 ? D 20 ? C 18 ? D 19 ? 1 E DG 2 1_555 F 5CM 5 1_555 E DC 3 1_555 F DG 4 1_555 -0.602 -1.134 3.154 -1.884 3.486 37.168 -2.207 0.702 3.064 5.451 2.945 37.371 11 EE_DG26DC27:DG345CM35_FF E 26 ? F 35 ? E 27 ? F 34 ? 1 E DC 3 1_555 F DG 4 1_555 E DG 4 1_555 F DC 3 1_555 0.769 -1.690 3.467 1.102 16.556 27.733 -5.786 -1.203 2.168 31.248 -2.079 32.234 12 EE_DC27DG28:DC33DG34_FF E 27 ? F 34 ? E 28 ? F 33 ? 1 E DG 4 1_555 F DC 3 1_555 E 5CM 5 1_555 F DG 2 1_555 -0.472 -1.468 3.168 -2.451 11.371 35.419 -3.671 0.443 2.616 18.097 3.900 37.222 13 EE_DG285CM29:DG32DC33_FF E 28 ? F 33 ? E 29 ? F 32 ? 1 E 5CM 5 1_555 F DG 2 1_555 E DC 6 1_555 F DG 1 1_555 0.698 -1.256 3.183 3.125 6.621 33.703 -3.095 -0.719 2.941 11.255 -5.313 34.467 14 EE_5CM29DC30:DG31DG32_FF E 29 ? F 32 ? E 30 ? F 31 ? # _atom_sites.entry_id 1F6E _atom_sites.fract_transf_matrix[1][1] 0.026983 _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] 0.021401 _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] 0.009034 _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 N O P # loop_