data_3SYW # _entry.id 3SYW # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 3SYW pdb_00003syw 10.2210/pdb3syw/pdb NDB NA1321 ? ? RCSB RCSB066824 ? ? WWPDB D_1000066824 ? ? # 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 2012-04-25 2 'Structure model' 1 1 2024-02-28 3 'Structure model' 1 2 2024-03-13 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Data collection' 2 2 'Structure model' 'Database references' 3 2 'Structure model' 'Derived calculations' 4 3 'Structure model' 'Source and taxonomy' 5 3 'Structure model' 'Structure summary' # 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 2 'Structure model' chem_comp_atom 2 2 'Structure model' chem_comp_bond 3 2 'Structure model' database_2 4 2 'Structure model' pdbx_struct_special_symmetry 5 2 'Structure model' struct_site 6 3 'Structure model' entity 7 3 'Structure model' pdbx_entity_src_syn # 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 2 'Structure model' '_database_2.pdbx_DOI' 2 2 'Structure model' '_database_2.pdbx_database_accession' 3 2 'Structure model' '_struct_site.pdbx_auth_asym_id' 4 2 'Structure model' '_struct_site.pdbx_auth_comp_id' 5 2 'Structure model' '_struct_site.pdbx_auth_seq_id' 6 3 'Structure model' '_entity.details' # _database_PDB_caveat.id 1 _database_PDB_caveat.text ;THE FOLLOWING BASE A CHIRALITY ISSUE: A G 16 C3'(A) ; # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3SYW _pdbx_database_status.recvd_initial_deposition_date 2011-07-18 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 3SZX _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kumar, A.' 1 'Park, H.' 2 'Pengfei, F.' 3 'Parkesh, R.' 4 'Guo, M.' 5 'Nettles, K.W.' 6 'Disney, M.D.' 7 # _citation.id primary _citation.title 'Crystal Structure of the Triplet Repeat in Myotonic Dystrophy Reveals Heterogeneous 1x1 Nucleotide UU Internal Loop Conformations' _citation.journal_abbrev Biochemistry _citation.journal_volume 50 _citation.page_first 9928 _citation.page_last 9935 _citation.year 2011 _citation.journal_id_ASTM BICHAW _citation.country US _citation.journal_id_ISSN 0006-2960 _citation.journal_id_CSD 0033 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 21988728 _citation.pdbx_database_id_DOI 10.1021/bi2013068 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kumar, A.' 1 ? primary 'Park, H.' 2 ? primary 'Fang, P.' 3 ? primary 'Parkesh, R.' 4 ? primary 'Guo, M.' 5 ? primary 'Nettles, K.W.' 6 ? primary 'Disney, M.D.' 7 ? # 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 ;RNA (5'-R(*UP*UP*GP*GP*GP*CP*CP*UP*GP*CP*UP*GP*CP*UP*GP*GP*UP*CP*C)-3') ; 6039.569 2 ? ? RNA RNA 2 non-polymer syn 'PHOSPHATE ION' 94.971 2 ? ? ? Polyribonucleotide 3 water nat water 18.015 176 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code UUGGGCCUGCUGCUGGUCC _entity_poly.pdbx_seq_one_letter_code_can UUGGGCCUGCUGCUGGUCC _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'PHOSPHATE ION' PO4 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 U n 1 2 U n 1 3 G n 1 4 G n 1 5 G n 1 6 C n 1 7 C n 1 8 U n 1 9 G n 1 10 C n 1 11 U n 1 12 G n 1 13 C n 1 14 U n 1 15 G n 1 16 G n 1 17 U n 1 18 C n 1 19 C n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details Polyribonucleotide # 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 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 PO4 non-polymer . 'PHOSPHATE ION' ? 'O4 P -3' 94.971 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # 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 U 1 1 1 U U A . n A 1 2 U 2 2 2 U U A . n A 1 3 G 3 3 3 G G A . n A 1 4 G 4 4 4 G G A . n A 1 5 G 5 5 5 G G A . n A 1 6 C 6 6 6 C C A . n A 1 7 C 7 7 7 C C A . n A 1 8 U 8 8 8 U U A . n A 1 9 G 9 9 9 G G A . n A 1 10 C 10 10 10 C C A . n A 1 11 U 11 11 11 U U A . n A 1 12 G 12 12 12 G G A . n A 1 13 C 13 13 13 C C A . n A 1 14 U 14 14 14 U U A . n A 1 15 G 15 15 15 G G A . n A 1 16 G 16 16 16 G G A . n A 1 17 U 17 17 17 U U A . n A 1 18 C 18 18 18 C C A . n A 1 19 C 19 19 19 C C A . n B 1 1 U 1 1 1 U U B . n B 1 2 U 2 2 2 U U B . n B 1 3 G 3 3 3 G G B . n B 1 4 G 4 4 4 G G B . n B 1 5 G 5 5 5 G G B . n B 1 6 C 6 6 6 C C B . n B 1 7 C 7 7 7 C C B . n B 1 8 U 8 8 8 U U B . n B 1 9 G 9 9 9 G G B . n B 1 10 C 10 10 10 C C B . n B 1 11 U 11 11 11 U U B . n B 1 12 G 12 12 12 G G B . n B 1 13 C 13 13 13 C C B . n B 1 14 U 14 14 14 U U B . n B 1 15 G 15 15 15 G G B . n B 1 16 G 16 16 16 G G B . n B 1 17 U 17 17 17 U U B . n B 1 18 C 18 18 18 C C B . n B 1 19 C 19 19 19 C C B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 PO4 1 20 1 PO4 PO4 A . D 2 PO4 1 20 2 PO4 PO4 B . E 3 HOH 1 21 1 HOH HOH A . E 3 HOH 2 22 22 HOH HOH A . E 3 HOH 3 23 23 HOH HOH A . E 3 HOH 4 24 24 HOH HOH A . E 3 HOH 5 25 25 HOH HOH A . E 3 HOH 6 26 26 HOH HOH A . E 3 HOH 7 27 27 HOH HOH A . E 3 HOH 8 28 28 HOH HOH A . E 3 HOH 9 29 29 HOH HOH A . E 3 HOH 10 30 30 HOH HOH A . E 3 HOH 11 31 3 HOH HOH A . E 3 HOH 12 32 6 HOH HOH A . E 3 HOH 13 33 33 HOH HOH A . E 3 HOH 14 34 7 HOH HOH A . E 3 HOH 15 35 12 HOH HOH A . E 3 HOH 16 36 36 HOH HOH A . E 3 HOH 17 37 14 HOH HOH A . E 3 HOH 18 38 38 HOH HOH A . E 3 HOH 19 39 19 HOH HOH A . E 3 HOH 20 40 20 HOH HOH A . E 3 HOH 21 41 41 HOH HOH A . E 3 HOH 22 44 44 HOH HOH A . E 3 HOH 23 46 46 HOH HOH A . E 3 HOH 24 48 48 HOH HOH A . E 3 HOH 25 49 49 HOH HOH A . E 3 HOH 26 51 51 HOH HOH A . E 3 HOH 27 54 54 HOH HOH A . E 3 HOH 28 58 58 HOH HOH A . E 3 HOH 29 60 60 HOH HOH A . E 3 HOH 30 63 63 HOH HOH A . E 3 HOH 31 65 65 HOH HOH A . E 3 HOH 32 66 66 HOH HOH A . E 3 HOH 33 67 67 HOH HOH A . E 3 HOH 34 69 69 HOH HOH A . E 3 HOH 35 71 71 HOH HOH A . E 3 HOH 36 73 73 HOH HOH A . E 3 HOH 37 75 75 HOH HOH A . E 3 HOH 38 80 80 HOH HOH A . E 3 HOH 39 81 81 HOH HOH A . E 3 HOH 40 82 82 HOH HOH A . E 3 HOH 41 83 83 HOH HOH A . E 3 HOH 42 84 84 HOH HOH A . E 3 HOH 43 86 86 HOH HOH A . E 3 HOH 44 87 87 HOH HOH A . E 3 HOH 45 88 88 HOH HOH A . E 3 HOH 46 89 89 HOH HOH A . E 3 HOH 47 91 91 HOH HOH A . E 3 HOH 48 92 92 HOH HOH A . E 3 HOH 49 94 94 HOH HOH A . E 3 HOH 50 96 96 HOH HOH A . E 3 HOH 51 98 98 HOH HOH A . E 3 HOH 52 100 100 HOH HOH A . E 3 HOH 53 106 106 HOH HOH A . E 3 HOH 54 109 109 HOH HOH A . E 3 HOH 55 111 111 HOH HOH A . E 3 HOH 56 112 112 HOH HOH A . E 3 HOH 57 115 115 HOH HOH A . E 3 HOH 58 116 116 HOH HOH A . E 3 HOH 59 117 117 HOH HOH A . E 3 HOH 60 118 118 HOH HOH A . E 3 HOH 61 119 119 HOH HOH A . E 3 HOH 62 120 120 HOH HOH A . E 3 HOH 63 121 121 HOH HOH A . E 3 HOH 64 122 122 HOH HOH A . E 3 HOH 65 127 127 HOH HOH A . E 3 HOH 66 128 128 HOH HOH A . E 3 HOH 67 132 132 HOH HOH A . E 3 HOH 68 142 142 HOH HOH A . E 3 HOH 69 144 144 HOH HOH A . E 3 HOH 70 146 146 HOH HOH A . E 3 HOH 71 147 147 HOH HOH A . E 3 HOH 72 149 149 HOH HOH A . E 3 HOH 73 152 152 HOH HOH A . E 3 HOH 74 153 153 HOH HOH A . E 3 HOH 75 154 154 HOH HOH A . E 3 HOH 76 155 155 HOH HOH A . E 3 HOH 77 158 158 HOH HOH A . E 3 HOH 78 159 159 HOH HOH A . E 3 HOH 79 164 164 HOH HOH A . E 3 HOH 80 166 166 HOH HOH A . E 3 HOH 81 167 167 HOH HOH A . E 3 HOH 82 168 168 HOH HOH A . E 3 HOH 83 169 169 HOH HOH A . E 3 HOH 84 172 172 HOH HOH A . E 3 HOH 85 173 173 HOH HOH A . F 3 HOH 1 21 21 HOH HOH B . F 3 HOH 2 22 2 HOH HOH B . F 3 HOH 3 23 4 HOH HOH B . F 3 HOH 4 24 5 HOH HOH B . F 3 HOH 5 25 8 HOH HOH B . F 3 HOH 6 26 9 HOH HOH B . F 3 HOH 7 27 10 HOH HOH B . F 3 HOH 8 28 11 HOH HOH B . F 3 HOH 9 29 13 HOH HOH B . F 3 HOH 10 30 15 HOH HOH B . F 3 HOH 11 31 31 HOH HOH B . F 3 HOH 12 32 32 HOH HOH B . F 3 HOH 13 33 16 HOH HOH B . F 3 HOH 14 34 34 HOH HOH B . F 3 HOH 15 35 35 HOH HOH B . F 3 HOH 16 36 17 HOH HOH B . F 3 HOH 17 37 37 HOH HOH B . F 3 HOH 18 38 18 HOH HOH B . F 3 HOH 19 39 39 HOH HOH B . F 3 HOH 20 40 40 HOH HOH B . F 3 HOH 21 42 42 HOH HOH B . F 3 HOH 22 43 43 HOH HOH B . F 3 HOH 23 45 45 HOH HOH B . F 3 HOH 24 47 47 HOH HOH B . F 3 HOH 25 50 50 HOH HOH B . F 3 HOH 26 52 52 HOH HOH B . F 3 HOH 27 53 53 HOH HOH B . F 3 HOH 28 55 55 HOH HOH B . F 3 HOH 29 56 56 HOH HOH B . F 3 HOH 30 57 57 HOH HOH B . F 3 HOH 31 59 59 HOH HOH B . F 3 HOH 32 61 61 HOH HOH B . F 3 HOH 33 62 62 HOH HOH B . F 3 HOH 34 64 64 HOH HOH B . F 3 HOH 35 68 68 HOH HOH B . F 3 HOH 36 70 70 HOH HOH B . F 3 HOH 37 72 72 HOH HOH B . F 3 HOH 38 74 74 HOH HOH B . F 3 HOH 39 76 76 HOH HOH B . F 3 HOH 40 77 77 HOH HOH B . F 3 HOH 41 78 78 HOH HOH B . F 3 HOH 42 79 79 HOH HOH B . F 3 HOH 43 85 85 HOH HOH B . F 3 HOH 44 90 90 HOH HOH B . F 3 HOH 45 93 93 HOH HOH B . F 3 HOH 46 95 95 HOH HOH B . F 3 HOH 47 97 97 HOH HOH B . F 3 HOH 48 99 99 HOH HOH B . F 3 HOH 49 101 101 HOH HOH B . F 3 HOH 50 102 102 HOH HOH B . F 3 HOH 51 103 103 HOH HOH B . F 3 HOH 52 104 104 HOH HOH B . F 3 HOH 53 105 105 HOH HOH B . F 3 HOH 54 107 107 HOH HOH B . F 3 HOH 55 108 108 HOH HOH B . F 3 HOH 56 110 110 HOH HOH B . F 3 HOH 57 113 113 HOH HOH B . F 3 HOH 58 114 114 HOH HOH B . F 3 HOH 59 123 123 HOH HOH B . F 3 HOH 60 124 124 HOH HOH B . F 3 HOH 61 125 125 HOH HOH B . F 3 HOH 62 126 126 HOH HOH B . F 3 HOH 63 129 129 HOH HOH B . F 3 HOH 64 130 130 HOH HOH B . F 3 HOH 65 131 131 HOH HOH B . F 3 HOH 66 133 133 HOH HOH B . F 3 HOH 67 134 134 HOH HOH B . F 3 HOH 68 135 135 HOH HOH B . F 3 HOH 69 136 136 HOH HOH B . F 3 HOH 70 137 137 HOH HOH B . F 3 HOH 71 138 138 HOH HOH B . F 3 HOH 72 139 139 HOH HOH B . F 3 HOH 73 140 140 HOH HOH B . F 3 HOH 74 141 141 HOH HOH B . F 3 HOH 75 143 143 HOH HOH B . F 3 HOH 76 145 145 HOH HOH B . F 3 HOH 77 148 148 HOH HOH B . F 3 HOH 78 150 150 HOH HOH B . F 3 HOH 79 151 151 HOH HOH B . F 3 HOH 80 156 156 HOH HOH B . F 3 HOH 81 157 157 HOH HOH B . F 3 HOH 82 160 160 HOH HOH B . F 3 HOH 83 161 161 HOH HOH B . F 3 HOH 84 162 162 HOH HOH B . F 3 HOH 85 163 163 HOH HOH B . F 3 HOH 86 165 165 HOH HOH B . F 3 HOH 87 170 170 HOH HOH B . F 3 HOH 88 171 171 HOH HOH B . F 3 HOH 89 174 174 HOH HOH B . F 3 HOH 90 175 175 HOH HOH B . F 3 HOH 91 176 176 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal Blu-Ice 'data collection' . ? 1 PHASER phasing . ? 2 PHENIX refinement . ? 3 HKL-2000 'data reduction' . ? 4 HKL-2000 'data scaling' . ? 5 # _cell.entry_id 3SYW _cell.length_a 46.535 _cell.length_b 46.535 _cell.length_c 135.001 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3SYW _symmetry.space_group_name_H-M 'H 3' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? # _exptl.entry_id 3SYW _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 2 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.33 _exptl_crystal.density_percent_sol 47.18 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details '15 mM magnesium acetate, 50 mM sodium cacodylate, pH 6.0, 1.7 M ammonium sulfate, VAPOR DIFFUSION, SITTING DROP, temperature 291K' # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'MARMOSAIC 325 mm CCD' _diffrn_detector.pdbx_collection_date 2011-01-09 _diffrn_detector.details 'RH COATED FLAT MIRROR, TOROIDAL FOCUSING MIRROR' # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'DOUBLE CRYSTAL MONOCHROMATOR' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97855 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SSRL BEAMLINE BL9-2' _diffrn_source.pdbx_synchrotron_site SSRL _diffrn_source.pdbx_synchrotron_beamline BL9-2 _diffrn_source.pdbx_wavelength 0.97855 _diffrn_source.pdbx_wavelength_list ? # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 3SYW _reflns.observed_criterion_sigma_I 1.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 34.600 _reflns.d_resolution_high 1.520 _reflns.number_obs 16712 _reflns.number_all ? _reflns.percent_possible_obs 99.5 _reflns.pdbx_Rmerge_I_obs 0.057 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 48.99 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 1.52 _reflns_shell.d_res_low 1.57 _reflns_shell.percent_possible_all 98.9 _reflns_shell.Rmerge_I_obs 0.487 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 3.1 _reflns_shell.pdbx_redundancy 4.2 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 3SYW _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 16068 _refine.ls_number_reflns_all 16712 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.150 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 34.60 _refine.ls_d_res_high 1.57 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.168 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.167 _refine.ls_R_factor_R_free 0.187 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.010 _refine.ls_number_reflns_R_free 805 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _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_Free ? _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_overall_ESU_R ? # _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 796 _refine_hist.pdbx_number_atoms_ligand 10 _refine_hist.number_atoms_solvent 176 _refine_hist.number_atoms_total 982 _refine_hist.d_res_high 1.57 _refine_hist.d_res_low 34.60 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.weight _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function f_bond_d 0.008 ? 998 ? 'X-RAY DIFFRACTION' ? f_angle_d 0.982 ? 1558 ? 'X-RAY DIFFRACTION' ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_all _refine_ls_shell.R_factor_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.number_reflns_obs 'X-RAY DIFFRACTION' . 1.5199 1.6151 0 0.2143 1.00 0.2096 . . 0 . . . . 'X-RAY DIFFRACTION' . 1.6151 1.7398 0 0.1518 1.00 0.1619 . . 0 . . . . 'X-RAY DIFFRACTION' . 1.7398 1.9149 0 0.1460 1.00 0.1586 . . 0 . . . . 'X-RAY DIFFRACTION' . 1.9149 2.1919 0 0.1682 1.00 0.1752 . . 0 . . . . 'X-RAY DIFFRACTION' . 2.1919 2.7614 0 0.1680 1.00 0.2028 . . 0 . . . . 'X-RAY DIFFRACTION' . 2.7614 34.6114 0 0.1677 1.00 0.1916 . . 0 . . . . # _database_PDB_matrix.entry_id 3SYW _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 3SYW _struct.title 'Crystal Structure of the Triplet Repeat in Myotonic Dystrophy Reveals Heterogeneous 1x1 Nucleotide UU Internal Loop Conformations' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3SYW _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'CUG repeat RNA, A-form RNA, Myotonic dystrophy, Internal loop, RNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 3 ? F N N 3 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3SYW _struct_ref.pdbx_db_accession 3SYW _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 3SYW A 1 ? 19 ? 3SYW 1 ? 19 ? 1 19 2 1 3SYW B 1 ? 19 ? 3SYW 1 ? 19 ? 1 19 # 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_and_software_defined_assembly PISA dimeric 2 2 software_defined_assembly PISA hexameric 6 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 2090 ? 1 MORE -21 ? 1 'SSA (A^2)' 6410 ? 2 'ABSA (A^2)' 9900 ? 2 MORE -120 ? 2 'SSA (A^2)' 15610 ? # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,C,D,E,F 2 1,2,3 A,B,C,D,E,F # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 2_545 -y,x-y-1,z -0.5000000000 -0.8660254038 0.0000000000 23.2675000000 0.8660254038 -0.5000000000 0.0000000000 -40.3004921651 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 3_655 -x+y+1,-x,z -0.5000000000 0.8660254038 0.0000000000 46.5350000000 -0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 # _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 G 3 N1 ? ? ? 1_555 B C 19 N3 ? ? A G 3 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 19 O2 ? ? A G 3 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 19 N4 ? ? A G 3 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 4 N1 ? ? ? 1_555 B C 18 N3 ? ? A G 4 B C 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 4 N2 ? ? ? 1_555 B C 18 O2 ? ? A G 4 B C 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 4 O6 ? ? ? 1_555 B C 18 N4 ? ? A G 4 B C 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 5 N1 ? ? ? 1_555 B U 17 O2 ? ? A G 5 B U 17 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog8 hydrog ? ? A G 5 O6 ? ? ? 1_555 B U 17 N3 ? ? A G 5 B U 17 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog9 hydrog ? ? A C 6 N3 ? ? ? 1_555 B G 16 N1 A ? A C 6 B G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 6 N4 ? ? ? 1_555 B G 16 O6 A ? A C 6 B G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 6 O2 ? ? ? 1_555 B G 16 N2 A ? A C 6 B G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 15 N1 A ? A C 7 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 15 O6 A ? A C 7 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 15 N2 A ? A C 7 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A U 8 N3 ? ? ? 1_555 B U 14 O2 ? ? A U 8 B U 14 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog16 hydrog ? ? A U 8 O4 ? ? ? 1_555 B U 14 N3 ? ? A U 8 B U 14 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog17 hydrog ? ? A G 9 N1 ? ? ? 1_555 B C 13 N3 ? ? A G 9 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 9 N2 ? ? ? 1_555 B C 13 O2 ? ? A G 9 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 9 O6 ? ? ? 1_555 B C 13 N4 ? ? A G 9 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 10 N3 ? ? ? 1_555 B G 12 N1 ? ? A C 10 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 10 N4 ? ? ? 1_555 B G 12 O6 ? ? A C 10 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 10 O2 ? ? ? 1_555 B G 12 N2 ? ? A C 10 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 12 N1 ? ? ? 1_555 B C 10 N3 ? ? A G 12 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 12 N2 ? ? ? 1_555 B C 10 O2 ? ? A G 12 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 12 O6 ? ? ? 1_555 B C 10 N4 ? ? A G 12 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 13 N3 ? ? ? 1_555 B G 9 N1 ? ? A C 13 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 13 N4 ? ? ? 1_555 B G 9 O6 ? ? A C 13 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 13 O2 ? ? ? 1_555 B G 9 N2 ? ? A C 13 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A U 14 N3 ? ? ? 1_555 B U 8 O4 ? ? A U 14 B U 8 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog30 hydrog ? ? A U 14 O2 ? ? ? 1_555 B U 8 N3 ? ? A U 14 B U 8 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog31 hydrog ? ? A G 15 N1 A ? ? 1_555 B C 7 N3 ? ? A G 15 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A G 15 N2 A ? ? 1_555 B C 7 O2 ? ? A G 15 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A G 15 O6 A ? ? 1_555 B C 7 N4 ? ? A G 15 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A G 16 N1 A ? ? 1_555 B C 6 N3 ? ? A G 16 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 16 N2 A ? ? 1_555 B C 6 O2 ? ? A G 16 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A G 16 O6 A ? ? 1_555 B C 6 N4 ? ? A G 16 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A U 17 N3 ? ? ? 1_555 B G 5 O6 ? ? A U 17 B G 5 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog38 hydrog ? ? A U 17 O2 ? ? ? 1_555 B G 5 N1 ? ? A U 17 B G 5 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog39 hydrog ? ? A C 18 N3 ? ? ? 1_555 B G 4 N1 ? ? A C 18 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A C 18 N4 ? ? ? 1_555 B G 4 O6 ? ? A C 18 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A C 18 O2 ? ? ? 1_555 B G 4 N2 ? ? A C 18 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A C 19 N3 ? ? ? 1_555 B G 3 N1 ? ? A C 19 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A C 19 N4 ? ? ? 1_555 B G 3 O6 ? ? A C 19 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A C 19 O2 ? ? ? 1_555 B G 3 N2 ? ? A C 19 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A PO4 20 ? 9 'BINDING SITE FOR RESIDUE PO4 A 20' AC2 Software B PO4 20 ? 10 'BINDING SITE FOR RESIDUE PO4 B 20' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 9 G A 5 ? G A 5 . ? 3_655 ? 2 AC1 9 G A 5 ? G A 5 . ? 2_545 ? 3 AC1 9 G A 5 ? G A 5 . ? 1_555 ? 4 AC1 9 C A 6 ? C A 6 . ? 3_655 ? 5 AC1 9 C A 6 ? C A 6 . ? 1_555 ? 6 AC1 9 C A 6 ? C A 6 . ? 2_545 ? 7 AC1 9 HOH E . ? HOH A 34 . ? 1_555 ? 8 AC1 9 HOH E . ? HOH A 34 . ? 3_655 ? 9 AC1 9 HOH E . ? HOH A 34 . ? 2_545 ? 10 AC2 10 G B 5 ? G B 5 . ? 2_545 ? 11 AC2 10 G B 5 ? G B 5 . ? 3_655 ? 12 AC2 10 G B 5 ? G B 5 . ? 1_555 ? 13 AC2 10 C B 6 ? C B 6 . ? 1_555 ? 14 AC2 10 C B 6 ? C B 6 . ? 3_655 ? 15 AC2 10 C B 6 ? C B 6 . ? 2_545 ? 16 AC2 10 HOH F . ? HOH B 28 . ? 2_545 ? 17 AC2 10 HOH F . ? HOH B 28 . ? 1_555 ? 18 AC2 10 HOH F . ? HOH B 28 . ? 3_655 ? 19 AC2 10 HOH F . ? HOH B 170 . ? 3_655 ? # 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 OP2 B G 15 ? A O B HOH 108 ? ? 2.14 2 1 OP2 A G 15 ? A O A HOH 112 ? ? 2.14 3 1 O B HOH 140 ? ? O B HOH 143 ? ? 2.15 4 1 O B HOH 139 ? ? O B HOH 163 ? ? 2.18 5 1 O B HOH 79 ? ? O B HOH 138 ? ? 2.19 # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 O _pdbx_validate_symm_contact.auth_asym_id_1 A _pdbx_validate_symm_contact.auth_comp_id_1 HOH _pdbx_validate_symm_contact.auth_seq_id_1 67 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 O _pdbx_validate_symm_contact.auth_asym_id_2 B _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 56 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 5_445 _pdbx_validate_symm_contact.dist 2.17 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A PO4 20 ? C PO4 . 2 1 B PO4 20 ? D PO4 . 3 1 A HOH 21 ? E HOH . 4 1 A HOH 27 ? E HOH . 5 1 A HOH 31 ? E HOH . 6 1 A HOH 32 ? E HOH . 7 1 B HOH 22 ? F HOH . 8 1 B HOH 23 ? F HOH . 9 1 B HOH 24 ? F HOH . 10 1 B HOH 40 ? F HOH . # 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 C OP3 O N N 1 C P P N N 2 C OP1 O N N 3 C OP2 O N N 4 C "O5'" O N N 5 C "C5'" C N N 6 C "C4'" C N R 7 C "O4'" O N N 8 C "C3'" C N S 9 C "O3'" O N N 10 C "C2'" C N R 11 C "O2'" O N N 12 C "C1'" C N R 13 C N1 N N N 14 C C2 C N N 15 C O2 O N N 16 C N3 N N N 17 C C4 C N N 18 C N4 N N N 19 C C5 C N N 20 C C6 C N N 21 C HOP3 H N N 22 C HOP2 H N N 23 C "H5'" H N N 24 C "H5''" H N N 25 C "H4'" H N N 26 C "H3'" H N N 27 C "HO3'" H N N 28 C "H2'" H N N 29 C "HO2'" H N N 30 C "H1'" H N N 31 C H41 H N N 32 C H42 H N N 33 C H5 H N N 34 C H6 H N N 35 G OP3 O N N 36 G P P N N 37 G OP1 O N N 38 G OP2 O N N 39 G "O5'" O N N 40 G "C5'" C N N 41 G "C4'" C N R 42 G "O4'" O N N 43 G "C3'" C N S 44 G "O3'" O N N 45 G "C2'" C N R 46 G "O2'" O N N 47 G "C1'" C N R 48 G N9 N Y N 49 G C8 C Y N 50 G N7 N Y N 51 G C5 C Y N 52 G C6 C N N 53 G O6 O N N 54 G N1 N N N 55 G C2 C N N 56 G N2 N N N 57 G N3 N N N 58 G C4 C Y N 59 G HOP3 H N N 60 G HOP2 H N N 61 G "H5'" H N N 62 G "H5''" H N N 63 G "H4'" H N N 64 G "H3'" H N N 65 G "HO3'" H N N 66 G "H2'" H N N 67 G "HO2'" H N N 68 G "H1'" H N N 69 G H8 H N N 70 G H1 H N N 71 G H21 H N N 72 G H22 H N N 73 HOH O O N N 74 HOH H1 H N N 75 HOH H2 H N N 76 PO4 P P N N 77 PO4 O1 O N N 78 PO4 O2 O N N 79 PO4 O3 O N N 80 PO4 O4 O N N 81 U OP3 O N N 82 U P P N N 83 U OP1 O N N 84 U OP2 O N N 85 U "O5'" O N N 86 U "C5'" C N N 87 U "C4'" C N R 88 U "O4'" O N N 89 U "C3'" C N S 90 U "O3'" O N N 91 U "C2'" C N R 92 U "O2'" O N N 93 U "C1'" C N R 94 U N1 N N N 95 U C2 C N N 96 U O2 O N N 97 U N3 N N N 98 U C4 C N N 99 U O4 O N N 100 U C5 C N N 101 U C6 C N N 102 U HOP3 H N N 103 U HOP2 H N N 104 U "H5'" H N N 105 U "H5''" H N N 106 U "H4'" H N N 107 U "H3'" H N N 108 U "HO3'" H N N 109 U "H2'" H N N 110 U "HO2'" H N N 111 U "H1'" H N N 112 U H3 H N N 113 U H5 H N N 114 U H6 H N N 115 # 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 C OP3 P sing N N 1 C OP3 HOP3 sing N N 2 C P OP1 doub N N 3 C P OP2 sing N N 4 C P "O5'" sing N N 5 C OP2 HOP2 sing N N 6 C "O5'" "C5'" sing N N 7 C "C5'" "C4'" sing N N 8 C "C5'" "H5'" sing N N 9 C "C5'" "H5''" sing N N 10 C "C4'" "O4'" sing N N 11 C "C4'" "C3'" sing N N 12 C "C4'" "H4'" sing N N 13 C "O4'" "C1'" sing N N 14 C "C3'" "O3'" sing N N 15 C "C3'" "C2'" sing N N 16 C "C3'" "H3'" sing N N 17 C "O3'" "HO3'" sing N N 18 C "C2'" "O2'" sing N N 19 C "C2'" "C1'" sing N N 20 C "C2'" "H2'" sing N N 21 C "O2'" "HO2'" sing N N 22 C "C1'" N1 sing N N 23 C "C1'" "H1'" sing N N 24 C N1 C2 sing N N 25 C N1 C6 sing N N 26 C C2 O2 doub N N 27 C C2 N3 sing N N 28 C N3 C4 doub N N 29 C C4 N4 sing N N 30 C C4 C5 sing N N 31 C N4 H41 sing N N 32 C N4 H42 sing N N 33 C C5 C6 doub N N 34 C C5 H5 sing N N 35 C C6 H6 sing N N 36 G OP3 P sing N N 37 G OP3 HOP3 sing N N 38 G P OP1 doub N N 39 G P OP2 sing N N 40 G P "O5'" sing N N 41 G OP2 HOP2 sing N N 42 G "O5'" "C5'" sing N N 43 G "C5'" "C4'" sing N N 44 G "C5'" "H5'" sing N N 45 G "C5'" "H5''" sing N N 46 G "C4'" "O4'" sing N N 47 G "C4'" "C3'" sing N N 48 G "C4'" "H4'" sing N N 49 G "O4'" "C1'" sing N N 50 G "C3'" "O3'" sing N N 51 G "C3'" "C2'" sing N N 52 G "C3'" "H3'" sing N N 53 G "O3'" "HO3'" sing N N 54 G "C2'" "O2'" sing N N 55 G "C2'" "C1'" sing N N 56 G "C2'" "H2'" sing N N 57 G "O2'" "HO2'" sing N N 58 G "C1'" N9 sing N N 59 G "C1'" "H1'" sing N N 60 G N9 C8 sing Y N 61 G N9 C4 sing Y N 62 G C8 N7 doub Y N 63 G C8 H8 sing N N 64 G N7 C5 sing Y N 65 G C5 C6 sing N N 66 G C5 C4 doub Y N 67 G C6 O6 doub N N 68 G C6 N1 sing N N 69 G N1 C2 sing N N 70 G N1 H1 sing N N 71 G C2 N2 sing N N 72 G C2 N3 doub N N 73 G N2 H21 sing N N 74 G N2 H22 sing N N 75 G N3 C4 sing N N 76 HOH O H1 sing N N 77 HOH O H2 sing N N 78 PO4 P O1 doub N N 79 PO4 P O2 sing N N 80 PO4 P O3 sing N N 81 PO4 P O4 sing N N 82 U OP3 P sing N N 83 U OP3 HOP3 sing N N 84 U P OP1 doub N N 85 U P OP2 sing N N 86 U P "O5'" sing N N 87 U OP2 HOP2 sing N N 88 U "O5'" "C5'" sing N N 89 U "C5'" "C4'" sing N N 90 U "C5'" "H5'" sing N N 91 U "C5'" "H5''" sing N N 92 U "C4'" "O4'" sing N N 93 U "C4'" "C3'" sing N N 94 U "C4'" "H4'" sing N N 95 U "O4'" "C1'" sing N N 96 U "C3'" "O3'" sing N N 97 U "C3'" "C2'" sing N N 98 U "C3'" "H3'" sing N N 99 U "O3'" "HO3'" sing N N 100 U "C2'" "O2'" sing N N 101 U "C2'" "C1'" sing N N 102 U "C2'" "H2'" sing N N 103 U "O2'" "HO2'" sing N N 104 U "C1'" N1 sing N N 105 U "C1'" "H1'" sing N N 106 U N1 C2 sing N N 107 U N1 C6 sing N N 108 U C2 O2 doub N N 109 U C2 N3 sing N N 110 U N3 C4 sing N N 111 U N3 H3 sing N N 112 U C4 O4 doub N N 113 U C4 C5 sing N N 114 U C5 C6 doub N N 115 U C5 H5 sing N N 116 U C6 H6 sing N N 117 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3SYW 'double helix' 3SYW 'a-form double helix' 3SYW 'mismatched base pair' # 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 G 3 1_555 B C 19 1_555 -0.202 -0.094 -0.107 -5.212 -0.259 -1.471 1 A_G3:C19_B A 3 ? B 19 ? 19 1 1 A G 4 1_555 B C 18 1_555 -0.026 -0.037 -0.175 -7.731 -14.214 2.790 2 A_G4:C18_B A 4 ? B 18 ? 19 1 1 A G 5 1_555 B U 17 1_555 -2.309 -0.546 -0.115 -2.543 -8.124 -0.827 3 A_G5:U17_B A 5 ? B 17 ? 28 1 1 A C 6 1_555 B G 16 1_555 0.257 -0.089 -0.035 2.536 -13.058 -3.144 4 A_C6:G16_B A 6 ? B 16 ? 19 1 1 A C 7 1_555 B G 15 1_555 0.283 -0.148 -0.107 -1.458 -9.067 3.432 5 A_C7:G15_B A 7 ? B 15 ? 19 1 1 A U 8 1_555 B U 14 1_555 -2.199 -1.696 0.212 0.274 -14.339 10.060 6 A_U8:U14_B A 8 ? B 14 ? 16 1 1 A G 9 1_555 B C 13 1_555 -0.289 -0.145 -0.103 -0.989 -11.377 1.876 7 A_G9:C13_B A 9 ? B 13 ? 19 1 1 A C 10 1_555 B G 12 1_555 0.287 0.208 0.050 0.914 -11.356 6.263 8 A_C10:G12_B A 10 ? B 12 ? 19 1 1 A G 12 1_555 B C 10 1_555 -0.273 0.211 0.043 -1.222 -11.590 6.260 9 A_G12:C10_B A 12 ? B 10 ? 19 1 1 A C 13 1_555 B G 9 1_555 0.301 -0.134 -0.107 1.277 -11.300 1.755 10 A_C13:G9_B A 13 ? B 9 ? 19 1 1 A U 14 1_555 B U 8 1_555 2.198 -1.707 0.206 -0.762 -14.308 10.005 11 A_U14:U8_B A 14 ? B 8 ? 16 1 1 A G 15 1_555 B C 7 1_555 -0.278 -0.155 -0.085 1.305 -9.799 3.295 12 A_G15:C7_B A 15 ? B 7 ? 19 1 1 A G 16 1_555 B C 6 1_555 -0.275 -0.109 -0.045 -2.490 -13.307 -3.197 13 A_G16:C6_B A 16 ? B 6 ? 19 1 1 A U 17 1_555 B G 5 1_555 2.305 -0.536 -0.105 2.953 -8.461 -0.611 14 A_U17:G5_B A 17 ? B 5 ? 28 1 1 A C 18 1_555 B G 4 1_555 0.038 -0.040 -0.158 7.805 -14.220 3.161 15 A_C18:G4_B A 18 ? B 4 ? 19 1 1 A C 19 1_555 B G 3 1_555 0.207 -0.086 -0.116 5.350 0.182 -1.443 16 A_C19:G3_B A 19 ? B 3 ? 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 G 3 1_555 B C 19 1_555 A G 4 1_555 B C 18 1_555 0.537 -1.895 3.382 1.653 5.443 31.231 -4.456 -0.682 3.041 10.006 -3.038 31.732 1 AA_G3G4:C18C19_BB A 3 ? B 19 ? A 4 ? B 18 ? 1 A G 4 1_555 B C 18 1_555 A G 5 1_555 B U 17 1_555 -0.577 -1.929 2.952 -5.534 8.613 23.725 -6.296 0.022 2.205 19.810 12.728 25.810 2 AA_G4G5:U17C18_BB A 4 ? B 18 ? A 5 ? B 17 ? 1 A G 5 1_555 B U 17 1_555 A C 6 1_555 B G 16 1_555 -0.006 -1.531 3.135 -0.590 5.384 39.365 -2.835 -0.056 2.909 7.946 0.872 39.721 3 AA_G5C6:G16U17_BB A 5 ? B 17 ? A 6 ? B 16 ? 1 A C 6 1_555 B G 16 1_555 A C 7 1_555 B G 15 1_555 1.090 -1.738 3.304 4.734 6.796 32.417 -4.124 -1.126 3.012 11.932 -8.312 33.431 4 AA_C6C7:G15G16_BB A 6 ? B 16 ? A 7 ? B 15 ? 1 A C 7 1_555 B G 15 1_555 A U 8 1_555 B U 14 1_555 0.313 -1.924 2.893 -2.603 14.946 18.164 -8.058 -1.350 0.990 39.557 6.889 23.625 5 AA_C7U8:U14G15_BB A 7 ? B 15 ? A 8 ? B 14 ? 1 A U 8 1_555 B U 14 1_555 A G 9 1_555 B C 13 1_555 -0.558 -1.221 3.383 -1.051 4.603 41.989 -2.175 0.665 3.250 6.400 1.461 42.242 6 AA_U8G9:C13U14_BB A 8 ? B 14 ? A 9 ? B 13 ? 1 A G 9 1_555 B C 13 1_555 A C 10 1_555 B G 12 1_555 -0.350 -2.228 3.178 -1.249 4.330 24.532 -6.346 0.469 2.763 10.082 2.908 24.936 7 AA_G9C10:G12C13_BB A 9 ? B 13 ? A 10 ? B 12 ? 1 A C 10 1_555 B G 12 1_555 A G 12 1_555 B C 10 1_555 -0.005 -2.536 6.049 0.092 20.162 60.400 -3.970 0.012 5.062 19.465 -0.089 63.373 8 AA_C10G12:C10G12_BB A 10 ? B 12 ? A 12 ? B 10 ? 1 A G 12 1_555 B C 10 1_555 A C 13 1_555 B G 9 1_555 0.336 -2.222 3.150 1.172 4.642 24.489 -6.398 -0.462 2.702 10.811 -2.730 24.946 9 AA_G12C13:G9C10_BB A 12 ? B 10 ? A 13 ? B 9 ? 1 A C 13 1_555 B G 9 1_555 A U 14 1_555 B U 8 1_555 0.550 -1.217 3.422 0.930 4.359 41.942 -2.153 -0.666 3.296 6.069 -1.295 42.168 10 AA_C13U14:U8G9_BB A 13 ? B 9 ? A 14 ? B 8 ? 1 A U 14 1_555 B U 8 1_555 A G 15 1_555 B C 7 1_555 -0.307 -1.924 2.895 2.564 14.827 18.244 -8.054 1.329 1.013 39.215 -6.780 23.608 11 AA_U14G15:C7U8_BB A 14 ? B 8 ? A 15 ? B 7 ? 1 A G 15 1_555 B C 7 1_555 A G 16 1_555 B C 6 1_555 -1.078 -1.742 3.284 -4.776 7.152 32.071 -4.218 1.108 2.963 12.663 8.456 33.175 12 AA_G15G16:C6C7_BB A 15 ? B 7 ? A 16 ? B 6 ? 1 A G 16 1_555 B C 6 1_555 A U 17 1_555 B G 5 1_555 0.007 -1.525 3.128 0.489 5.214 39.678 -2.783 0.042 2.912 7.641 -0.717 40.009 13 AA_G16U17:G5C6_BB A 16 ? B 6 ? A 17 ? B 5 ? 1 A U 17 1_555 B G 5 1_555 A C 18 1_555 B G 4 1_555 0.576 -1.935 2.959 5.340 8.685 23.819 -6.304 -0.066 2.204 19.915 -12.244 25.880 14 AA_U17C18:G4G5_BB A 17 ? B 5 ? A 18 ? B 4 ? 1 A C 18 1_555 B G 4 1_555 A C 19 1_555 B G 3 1_555 -0.561 -1.887 3.380 -1.448 5.255 31.180 -4.423 0.763 3.052 9.684 2.669 31.641 15 AA_C18C19:G3G4_BB A 18 ? B 4 ? A 19 ? B 3 ? # _atom_sites.entry_id 3SYW _atom_sites.fract_transf_matrix[1][1] 0.021489 _atom_sites.fract_transf_matrix[1][2] 0.012407 _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] 0.024814 _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] 0.007407 _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_