data_4JAH # _entry.id 4JAH # _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 4JAH pdb_00004jah 10.2210/pdb4jah/pdb NDB NA2261 ? ? RCSB RCSB077800 ? ? WWPDB D_1000077800 ? ? # 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 2014-01-29 2 'Structure model' 1 1 2024-02-28 # _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 2 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' chem_comp_atom 2 2 'Structure model' chem_comp_bond 3 2 'Structure model' database_2 4 2 'Structure model' software 5 2 'Structure model' struct_conn 6 2 'Structure model' struct_site # 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' '_software.name' 4 2 'Structure model' '_struct_conn.conn_type_id' 5 2 'Structure model' '_struct_conn.id' 6 2 'Structure model' '_struct_conn.pdbx_dist_value' 7 2 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 8 2 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 9 2 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 10 2 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 11 2 'Structure model' '_struct_conn.ptnr1_label_asym_id' 12 2 'Structure model' '_struct_conn.ptnr1_label_atom_id' 13 2 'Structure model' '_struct_conn.ptnr1_label_comp_id' 14 2 'Structure model' '_struct_conn.ptnr1_label_seq_id' 15 2 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 16 2 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 17 2 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 18 2 'Structure model' '_struct_conn.ptnr2_label_asym_id' 19 2 'Structure model' '_struct_conn.ptnr2_label_atom_id' 20 2 'Structure model' '_struct_conn.ptnr2_label_comp_id' 21 2 'Structure model' '_struct_conn.ptnr2_label_seq_id' 22 2 'Structure model' '_struct_site.pdbx_auth_asym_id' 23 2 'Structure model' '_struct_site.pdbx_auth_comp_id' 24 2 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4JAH _pdbx_database_status.recvd_initial_deposition_date 2013-02-18 _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 ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 3S49 . unspecified PDB 4JAB . unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Jiang, S.' 1 'Gan, J.' 2 'Sun, H.' 3 'Huang, Z.' 4 # _citation.id primary _citation.title 'Crystal structure of 2-Selenouridine containing RNA' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Jiang, S.' 1 ? primary 'Gan, J.' 2 ? primary 'Sun, H.' 3 ? primary 'Huang, Z.' 4 ? # 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(*GP*UP*GP*UP*AP*(RUS)P*AP*C)-3') ; 2590.506 6 ? ? ? ? 2 non-polymer syn 'POTASSIUM ION' 39.098 2 ? ? ? ? 3 water nat water 18.015 143 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'GUGUA(RUS)AC' _entity_poly.pdbx_seq_one_letter_code_can GUGUAXAC _entity_poly.pdbx_strand_id A,B,D,E,C,F _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'POTASSIUM ION' K 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 U n 1 3 G n 1 4 U n 1 5 A n 1 6 RUS n 1 7 A n 1 8 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 'synthetic construct' _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # 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 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 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 K non-polymer . 'POTASSIUM ION' ? 'K 1' 39.098 RUS 'RNA linking' n '1-(5-O-phosphono-beta-D-ribofuranosyl)-2-selanylpyrimidin-4(1H)-one' ? 'C9 H13 N2 O8 P Se' 387.142 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 G 1 1 1 G G 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 U 4 4 4 U U A . n A 1 5 A 5 5 5 A A A . n A 1 6 RUS 6 6 6 RUS RUS A . n A 1 7 A 7 7 7 A A A . n A 1 8 C 8 8 8 C C A . n B 1 1 G 1 9 9 G G B . n B 1 2 U 2 10 10 U U B . n B 1 3 G 3 11 11 G G B . n B 1 4 U 4 12 12 U U B . n B 1 5 A 5 13 13 A A B . n B 1 6 RUS 6 14 14 RUS RUS B . n B 1 7 A 7 15 15 A A B . n B 1 8 C 8 16 16 C C B . n C 1 1 G 1 9 9 G G D . n C 1 2 U 2 10 10 U U D . n C 1 3 G 3 11 11 G G D . n C 1 4 U 4 12 12 U U D . n C 1 5 A 5 13 13 A A D . n C 1 6 RUS 6 14 14 RUS RUS D . n C 1 7 A 7 15 15 A A D . n C 1 8 C 8 16 16 C C D . n D 1 1 G 1 1 1 G G E . n D 1 2 U 2 2 2 U U E . n D 1 3 G 3 3 3 G G E . n D 1 4 U 4 4 4 U U E . n D 1 5 A 5 5 5 A A E . n D 1 6 RUS 6 6 6 RUS RUS E . n D 1 7 A 7 7 7 A A E . n D 1 8 C 8 8 8 C C E . n E 1 1 G 1 1 1 G G C . n E 1 2 U 2 2 2 U U C . n E 1 3 G 3 3 3 G G C . n E 1 4 U 4 4 4 U U C . n E 1 5 A 5 5 5 A A C . n E 1 6 RUS 6 6 6 RUS RUS C . n E 1 7 A 7 7 7 A A C . n E 1 8 C 8 8 8 C C C . n F 1 1 G 1 9 9 G G F . n F 1 2 U 2 10 10 U U F . n F 1 3 G 3 11 11 G G F . n F 1 4 U 4 12 12 U U F . n F 1 5 A 5 13 13 A A F . n F 1 6 RUS 6 14 14 RUS RUS F . n F 1 7 A 7 15 15 A A F . n F 1 8 C 8 16 16 C 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 K 1 101 2 K K A . H 2 K 1 101 3 K K C . I 3 HOH 1 201 4 HOH HOH A . I 3 HOH 2 202 5 HOH HOH A . I 3 HOH 3 203 19 HOH HOH A . I 3 HOH 4 204 24 HOH HOH A . I 3 HOH 5 205 27 HOH HOH A . I 3 HOH 6 206 36 HOH HOH A . I 3 HOH 7 207 38 HOH HOH A . I 3 HOH 8 208 40 HOH HOH A . I 3 HOH 9 209 41 HOH HOH A . I 3 HOH 10 210 48 HOH HOH A . I 3 HOH 11 211 55 HOH HOH A . I 3 HOH 12 212 60 HOH HOH A . I 3 HOH 13 213 63 HOH HOH A . I 3 HOH 14 214 66 HOH HOH A . I 3 HOH 15 215 70 HOH HOH A . I 3 HOH 16 216 84 HOH HOH A . I 3 HOH 17 217 90 HOH HOH A . I 3 HOH 18 218 91 HOH HOH A . I 3 HOH 19 219 97 HOH HOH A . I 3 HOH 20 220 117 HOH HOH A . I 3 HOH 21 221 118 HOH HOH A . I 3 HOH 22 222 124 HOH HOH A . I 3 HOH 23 223 135 HOH HOH A . I 3 HOH 24 224 136 HOH HOH A . I 3 HOH 25 225 144 HOH HOH A . I 3 HOH 26 226 33 HOH HOH A . I 3 HOH 27 227 31 HOH HOH A . J 3 HOH 1 101 10 HOH HOH B . J 3 HOH 2 102 13 HOH HOH B . J 3 HOH 3 103 14 HOH HOH B . J 3 HOH 4 104 17 HOH HOH B . J 3 HOH 5 105 22 HOH HOH B . J 3 HOH 6 106 25 HOH HOH B . J 3 HOH 7 107 32 HOH HOH B . J 3 HOH 8 108 37 HOH HOH B . J 3 HOH 9 109 47 HOH HOH B . J 3 HOH 10 110 61 HOH HOH B . J 3 HOH 11 111 68 HOH HOH B . J 3 HOH 12 112 74 HOH HOH B . J 3 HOH 13 113 78 HOH HOH B . J 3 HOH 14 114 82 HOH HOH B . J 3 HOH 15 115 83 HOH HOH B . J 3 HOH 16 116 87 HOH HOH B . J 3 HOH 17 117 88 HOH HOH B . J 3 HOH 18 118 95 HOH HOH B . J 3 HOH 19 119 98 HOH HOH B . J 3 HOH 20 120 100 HOH HOH B . J 3 HOH 21 121 107 HOH HOH B . J 3 HOH 22 122 108 HOH HOH B . J 3 HOH 23 123 112 HOH HOH B . J 3 HOH 24 124 140 HOH HOH B . J 3 HOH 25 125 142 HOH HOH B . J 3 HOH 26 126 146 HOH HOH B . J 3 HOH 27 127 147 HOH HOH B . J 3 HOH 28 128 20 HOH HOH B . K 3 HOH 1 101 62 HOH HOH D . K 3 HOH 2 102 3 HOH HOH D . K 3 HOH 3 103 6 HOH HOH D . K 3 HOH 4 104 23 HOH HOH D . K 3 HOH 5 105 26 HOH HOH D . K 3 HOH 6 106 49 HOH HOH D . K 3 HOH 7 107 51 HOH HOH D . K 3 HOH 8 108 56 HOH HOH D . K 3 HOH 9 109 69 HOH HOH D . K 3 HOH 10 110 77 HOH HOH D . K 3 HOH 11 111 79 HOH HOH D . K 3 HOH 12 112 93 HOH HOH D . K 3 HOH 13 113 94 HOH HOH D . K 3 HOH 14 114 96 HOH HOH D . K 3 HOH 15 115 99 HOH HOH D . K 3 HOH 16 116 103 HOH HOH D . K 3 HOH 17 117 116 HOH HOH D . K 3 HOH 18 118 119 HOH HOH D . K 3 HOH 19 119 127 HOH HOH D . K 3 HOH 20 120 132 HOH HOH D . K 3 HOH 21 121 134 HOH HOH D . K 3 HOH 22 122 137 HOH HOH D . K 3 HOH 23 123 139 HOH HOH D . L 3 HOH 1 101 11 HOH HOH E . L 3 HOH 2 102 15 HOH HOH E . L 3 HOH 3 103 18 HOH HOH E . L 3 HOH 4 104 35 HOH HOH E . L 3 HOH 5 105 43 HOH HOH E . L 3 HOH 6 106 45 HOH HOH E . L 3 HOH 7 107 46 HOH HOH E . L 3 HOH 8 108 50 HOH HOH E . L 3 HOH 9 109 52 HOH HOH E . L 3 HOH 10 110 57 HOH HOH E . L 3 HOH 11 111 58 HOH HOH E . L 3 HOH 12 112 109 HOH HOH E . L 3 HOH 13 113 111 HOH HOH E . L 3 HOH 14 114 114 HOH HOH E . L 3 HOH 15 115 115 HOH HOH E . L 3 HOH 16 116 120 HOH HOH E . L 3 HOH 17 117 121 HOH HOH E . L 3 HOH 18 118 130 HOH HOH E . L 3 HOH 19 119 141 HOH HOH E . L 3 HOH 20 120 153 HOH HOH E . L 3 HOH 21 121 155 HOH HOH E . M 3 HOH 1 201 21 HOH HOH C . M 3 HOH 2 202 16 HOH HOH C . M 3 HOH 3 203 34 HOH HOH C . M 3 HOH 4 204 39 HOH HOH C . M 3 HOH 5 205 53 HOH HOH C . M 3 HOH 6 206 54 HOH HOH C . M 3 HOH 7 207 64 HOH HOH C . M 3 HOH 8 208 67 HOH HOH C . M 3 HOH 9 209 71 HOH HOH C . M 3 HOH 10 210 80 HOH HOH C . M 3 HOH 11 211 85 HOH HOH C . M 3 HOH 12 212 86 HOH HOH C . M 3 HOH 13 213 89 HOH HOH C . M 3 HOH 14 214 92 HOH HOH C . M 3 HOH 15 215 101 HOH HOH C . M 3 HOH 16 216 104 HOH HOH C . M 3 HOH 17 217 110 HOH HOH C . M 3 HOH 18 218 113 HOH HOH C . M 3 HOH 19 219 138 HOH HOH C . M 3 HOH 20 220 150 HOH HOH C . M 3 HOH 21 221 151 HOH HOH C . M 3 HOH 22 222 44 HOH HOH C . N 3 HOH 1 101 30 HOH HOH F . N 3 HOH 2 102 8 HOH HOH F . N 3 HOH 3 103 9 HOH HOH F . N 3 HOH 4 104 12 HOH HOH F . N 3 HOH 5 105 28 HOH HOH F . N 3 HOH 6 106 29 HOH HOH F . N 3 HOH 7 107 42 HOH HOH F . N 3 HOH 8 108 65 HOH HOH F . N 3 HOH 9 109 72 HOH HOH F . N 3 HOH 10 110 73 HOH HOH F . N 3 HOH 11 111 75 HOH HOH F . N 3 HOH 12 112 76 HOH HOH F . N 3 HOH 13 113 102 HOH HOH F . N 3 HOH 14 114 106 HOH HOH F . N 3 HOH 15 115 123 HOH HOH F . N 3 HOH 16 116 125 HOH HOH F . N 3 HOH 17 117 128 HOH HOH F . N 3 HOH 18 118 129 HOH HOH F . N 3 HOH 19 119 131 HOH HOH F . N 3 HOH 20 120 133 HOH HOH F . N 3 HOH 21 121 145 HOH HOH F . N 3 HOH 22 122 152 HOH HOH F . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal Web-Ice 'data collection' . ? 1 PHASER phasing . ? 2 REFMAC refinement 5.6.0117 ? 3 HKL-2000 'data reduction' . ? 4 HKL-2000 'data scaling' . ? 5 # _cell.entry_id 4JAH _cell.length_a 46.444 _cell.length_b 46.444 _cell.length_c 120.612 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 36 _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 4JAH _symmetry.space_group_name_H-M 'P 31 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? # _exptl.entry_id 4JAH _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.42 _exptl_crystal.density_percent_sol 49.09 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details ;10% v/v MPD, 40 mM NaCacodylate pH 7.0, 12 mM Spermine tetra-HCl, 80 mM Sodium Chloride, 12mM Potassium Chloride, 20 mM Magnesium Chloride , VAPOR DIFFUSION, HANGING DROP, temperature 298K ; _exptl_crystal_grow.pdbx_pH_range ? # _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 'ADSC QUANTUM 315r' _diffrn_detector.pdbx_collection_date 2012-07-29 _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 'Double crystal, Si(111)' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9795 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ALS BEAMLINE 8.2.2' _diffrn_source.pdbx_synchrotron_site ALS _diffrn_source.pdbx_synchrotron_beamline 8.2.2 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9795 # _reflns.entry_id 4JAH _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F . _reflns.d_resolution_low 40.222 _reflns.d_resolution_high 1.50 _reflns.number_obs 24253 _reflns.number_all 24918 _reflns.percent_possible_obs 97.33 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.08 _reflns.pdbx_netI_over_sigmaI 20.5 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 4.1 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.50 _reflns_shell.d_res_low 1.55 _reflns_shell.percent_possible_all 64.6 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.35 _reflns_shell.meanI_over_sigI_obs 2.4 _reflns_shell.pdbx_redundancy 2.1 _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 ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 4JAH _refine.ls_number_reflns_obs 22895 _refine.ls_number_reflns_all 23662 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 40.22 _refine.ls_d_res_high 1.50 _refine.ls_percent_reflns_obs 96.76 _refine.ls_R_factor_obs 0.20975 _refine.ls_R_factor_all 0.2248 _refine.ls_R_factor_R_work 0.20826 _refine.ls_R_factor_R_free 0.23807 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.1 _refine.ls_number_reflns_R_free 1228 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.961 _refine.correlation_coeff_Fo_to_Fc_free 0.950 _refine.B_iso_mean 22.552 _refine.aniso_B[1][1] 0.93 _refine.aniso_B[2][2] 0.93 _refine.aniso_B[3][3] -1.39 _refine.aniso_B[1][2] 0.46 _refine.aniso_B[1][3] -0.00 _refine.aniso_B[2][3] -0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 246D _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.080 _refine.pdbx_overall_ESU_R_Free 0.082 _refine.overall_SU_ML 0.056 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 1.512 _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _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_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag ? _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 1002 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 143 _refine_hist.number_atoms_total 1147 _refine_hist.d_res_high 1.50 _refine_hist.d_res_low 40.22 # 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_restraint_function _refine_ls_restr.pdbx_refine_id r_bond_refined_d 0.014 0.011 ? 1116 ? 'X-RAY DIFFRACTION' r_bond_other_d ? ? ? ? ? 'X-RAY DIFFRACTION' r_angle_refined_deg 2.305 1.452 ? 1728 ? 'X-RAY DIFFRACTION' r_angle_other_deg ? ? ? ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg ? ? ? ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg ? ? ? ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg ? ? ? ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_4_deg ? ? ? ? ? 'X-RAY DIFFRACTION' r_chiral_restr 0.115 0.200 ? 192 ? 'X-RAY DIFFRACTION' r_gen_planes_refined 0.025 0.020 ? 492 ? 'X-RAY DIFFRACTION' r_gen_planes_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_nbd_refined ? ? ? ? ? 'X-RAY DIFFRACTION' r_nbd_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_nbtor_refined ? ? ? ? ? 'X-RAY DIFFRACTION' r_nbtor_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_xyhbond_nbd_refined ? ? ? ? ? 'X-RAY DIFFRACTION' r_xyhbond_nbd_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_metal_ion_refined ? ? ? ? ? 'X-RAY DIFFRACTION' r_metal_ion_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_symmetry_vdw_refined ? ? ? ? ? 'X-RAY DIFFRACTION' r_symmetry_vdw_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_symmetry_hbond_refined ? ? ? ? ? 'X-RAY DIFFRACTION' r_symmetry_hbond_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_symmetry_metal_ion_refined ? ? ? ? ? 'X-RAY DIFFRACTION' r_symmetry_metal_ion_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_mcbond_it ? ? ? ? ? 'X-RAY DIFFRACTION' r_mcbond_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_mcangle_it ? ? ? ? ? 'X-RAY DIFFRACTION' r_scbond_it ? ? ? ? ? 'X-RAY DIFFRACTION' r_scangle_it ? ? ? ? ? 'X-RAY DIFFRACTION' r_rigid_bond_restr ? ? ? ? ? 'X-RAY DIFFRACTION' r_sphericity_free ? ? ? ? ? 'X-RAY DIFFRACTION' r_sphericity_bonded ? ? ? ? ? 'X-RAY DIFFRACTION' # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.501 _refine_ls_shell.d_res_low 1.540 _refine_ls_shell.number_reflns_R_work 1186 _refine_ls_shell.R_factor_R_work 0.311 _refine_ls_shell.percent_reflns_obs 73.62 _refine_ls_shell.R_factor_R_free 0.282 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 64 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 4JAH _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 4JAH _struct.title 'Crystal structure of 2-Selenouridine containing RNA' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4JAH _struct_keywords.pdbx_keywords RNA _struct_keywords.text '2-selenouridine, high fidelity base pairing, 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 1 ? D N N 1 ? E N N 1 ? F N N 1 ? G N N 2 ? H N N 2 ? I N N 3 ? J N N 3 ? K N N 3 ? L N N 3 ? M N N 3 ? N N N 3 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 4JAH _struct_ref.pdbx_db_accession 4JAH _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 4JAH A 1 ? 8 ? 4JAH 1 ? 8 ? 1 8 2 1 4JAH B 1 ? 8 ? 4JAH 9 ? 16 ? 9 16 3 1 4JAH D 1 ? 8 ? 4JAH 9 ? 16 ? 9 16 4 1 4JAH E 1 ? 8 ? 4JAH 1 ? 8 ? 1 8 5 1 4JAH C 1 ? 8 ? 4JAH 1 ? 8 ? 1 8 6 1 4JAH F 1 ? 8 ? 4JAH 9 ? 16 ? 9 16 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 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)' 7970 ? 1 MORE -146 ? 1 'SSA (A^2)' 7970 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N # _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 # _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 covale1 covale both ? A A 5 "O3'" ? ? ? 1_555 A RUS 6 P ? ? A A 5 A RUS 6 1_555 ? ? ? ? ? ? ? 1.565 ? ? covale2 covale one ? A RUS 6 "O3'" ? ? ? 1_555 A A 7 P ? ? A RUS 6 A A 7 1_555 ? ? ? ? ? ? ? 1.549 ? ? covale3 covale both ? B A 5 "O3'" ? ? ? 1_555 B RUS 6 P ? ? B A 13 B RUS 14 1_555 ? ? ? ? ? ? ? 1.590 ? ? covale4 covale one ? B RUS 6 "O3'" ? ? ? 1_555 B A 7 P ? ? B RUS 14 B A 15 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale5 covale both ? C A 5 "O3'" ? ? ? 1_555 C RUS 6 P ? ? D A 13 D RUS 14 1_555 ? ? ? ? ? ? ? 1.596 ? ? covale6 covale one ? C RUS 6 "O3'" ? ? ? 1_555 C A 7 P ? ? D RUS 14 D A 15 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale7 covale both ? D A 5 "O3'" ? ? ? 1_555 D RUS 6 P ? ? E A 5 E RUS 6 1_555 ? ? ? ? ? ? ? 1.513 ? ? covale8 covale one ? D RUS 6 "O3'" ? ? ? 1_555 D A 7 P ? ? E RUS 6 E A 7 1_555 ? ? ? ? ? ? ? 1.581 ? ? covale9 covale both ? E A 5 "O3'" ? ? ? 1_555 E RUS 6 P ? ? C A 5 C RUS 6 1_555 ? ? ? ? ? ? ? 1.591 ? ? covale10 covale one ? E RUS 6 "O3'" ? ? ? 1_555 E A 7 P ? ? C RUS 6 C A 7 1_555 ? ? ? ? ? ? ? 1.613 ? ? covale11 covale both ? F A 5 "O3'" ? ? ? 1_555 F RUS 6 P ? ? F A 13 F RUS 14 1_555 ? ? ? ? ? ? ? 1.579 ? ? covale12 covale one ? F RUS 6 "O3'" ? ? ? 1_555 F A 7 P ? ? F RUS 14 F A 15 1_555 ? ? ? ? ? ? ? 1.564 ? ? metalc1 metalc ? ? A C 8 "O3'" ? ? ? 1_555 G K . K ? ? A C 8 A K 101 1_555 ? ? ? ? ? ? ? 2.727 ? ? metalc2 metalc ? ? A C 8 "O2'" ? ? ? 1_555 G K . K ? ? A C 8 A K 101 1_555 ? ? ? ? ? ? ? 2.876 ? ? metalc3 metalc ? ? G K . K ? ? ? 1_555 D A 7 OP1 ? ? A K 101 E A 7 1_555 ? ? ? ? ? ? ? 2.944 ? ? metalc4 metalc ? ? G K . K ? ? ? 1_555 L HOH . O ? ? A K 101 E HOH 106 1_555 ? ? ? ? ? ? ? 2.762 ? ? metalc5 metalc ? ? E G 1 O6 ? ? ? 1_555 H K . K ? ? C G 1 C K 101 1_555 ? ? ? ? ? ? ? 3.209 ? ? metalc6 metalc ? ? E U 2 O4 ? ? ? 1_555 H K . K ? ? C U 2 C K 101 1_555 ? ? ? ? ? ? ? 3.375 ? ? metalc7 metalc ? ? H K . K ? ? ? 1_555 M HOH . O ? ? C K 101 C HOH 206 1_555 ? ? ? ? ? ? ? 2.362 ? ? hydrog1 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 8 N3 ? ? A G 3 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 8 O2 ? ? A G 3 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 8 N4 ? ? A G 3 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A U 4 N3 ? ? ? 1_555 B A 7 N1 ? ? A U 4 B A 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A U 4 O4 ? ? ? 1_555 B A 7 N6 ? ? A U 4 B A 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A A 7 N1 ? ? ? 1_555 B U 4 N3 ? ? A A 7 B U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 7 N6 ? ? ? 1_555 B U 4 O4 ? ? A A 7 B U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 8 N3 ? ? ? 1_555 B G 3 N1 ? ? A C 8 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 8 N4 ? ? ? 1_555 B G 3 O6 ? ? A C 8 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 8 O2 ? ? ? 1_555 B G 3 N2 ? ? A C 8 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? C G 3 N1 ? ? ? 1_555 E C 8 N3 ? ? D G 11 C C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? C G 3 N2 ? ? ? 1_555 E C 8 O2 ? ? D G 11 C C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? C G 3 O6 ? ? ? 1_555 E C 8 N4 ? ? D G 11 C C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? C U 4 N3 ? ? ? 1_555 E A 7 N1 ? ? D U 12 C A 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? C U 4 O4 ? ? ? 1_555 E A 7 N6 ? ? D U 12 C A 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? C A 7 N1 ? ? ? 1_555 E U 4 N3 ? ? D A 15 C U 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? C A 7 N6 ? ? ? 1_555 E U 4 O4 ? ? D A 15 C U 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? C C 8 N3 ? ? ? 1_555 E G 3 N1 ? ? D C 16 C G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? C C 8 N4 ? ? ? 1_555 E G 3 O6 ? ? D C 16 C G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? C C 8 O2 ? ? ? 1_555 E G 3 N2 ? ? D C 16 C G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? D G 3 N1 ? ? ? 1_555 F C 8 N3 ? ? E G 3 F C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? D G 3 N2 ? ? ? 1_555 F C 8 O2 ? ? E G 3 F C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? D G 3 O6 ? ? ? 1_555 F C 8 N4 ? ? E G 3 F C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? D U 4 N3 ? ? ? 1_555 F A 7 N1 ? ? E U 4 F A 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? D U 4 O4 ? ? ? 1_555 F A 7 N6 ? ? E U 4 F A 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? D A 7 N1 ? ? ? 1_555 F U 4 N3 ? ? E A 7 F U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? D A 7 N6 ? ? ? 1_555 F U 4 O4 ? ? E A 7 F U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? D C 8 N3 ? ? ? 1_555 F G 3 N1 ? ? E C 8 F G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? D C 8 N4 ? ? ? 1_555 F G 3 O6 ? ? E C 8 F G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? D C 8 O2 ? ? ? 1_555 F G 3 N2 ? ? E C 8 F G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 "O3'" ? A C 8 ? A C 8 ? 1_555 K ? G K . ? A K 101 ? 1_555 "O2'" ? A C 8 ? A C 8 ? 1_555 56.9 ? 2 "O3'" ? A C 8 ? A C 8 ? 1_555 K ? G K . ? A K 101 ? 1_555 OP1 ? D A 7 ? E A 7 ? 1_555 73.3 ? 3 "O2'" ? A C 8 ? A C 8 ? 1_555 K ? G K . ? A K 101 ? 1_555 OP1 ? D A 7 ? E A 7 ? 1_555 81.8 ? 4 "O3'" ? A C 8 ? A C 8 ? 1_555 K ? G K . ? A K 101 ? 1_555 O ? L HOH . ? E HOH 106 ? 1_555 121.8 ? 5 "O2'" ? A C 8 ? A C 8 ? 1_555 K ? G K . ? A K 101 ? 1_555 O ? L HOH . ? E HOH 106 ? 1_555 70.1 ? 6 OP1 ? D A 7 ? E A 7 ? 1_555 K ? G K . ? A K 101 ? 1_555 O ? L HOH . ? E HOH 106 ? 1_555 77.5 ? 7 O6 ? E G 1 ? C G 1 ? 1_555 K ? H K . ? C K 101 ? 1_555 O4 ? E U 2 ? C U 2 ? 1_555 66.6 ? 8 O6 ? E G 1 ? C G 1 ? 1_555 K ? H K . ? C K 101 ? 1_555 O ? M HOH . ? C HOH 206 ? 1_555 81.2 ? 9 O4 ? E U 2 ? C U 2 ? 1_555 K ? H K . ? C K 101 ? 1_555 O ? M HOH . ? C HOH 206 ? 1_555 62.9 ? # 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 K 101 ? 4 'BINDING SITE FOR RESIDUE K A 101' AC2 Software C K 101 ? 7 'BINDING SITE FOR RESIDUE K C 101' # 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 4 C A 8 ? C A 8 . ? 1_555 ? 2 AC1 4 HOH K . ? HOH D 115 . ? 4_455 ? 3 AC1 4 A D 7 ? A E 7 . ? 1_555 ? 4 AC1 4 HOH L . ? HOH E 106 . ? 1_555 ? 5 AC2 7 G A 1 ? G A 1 . ? 5_664 ? 6 AC2 7 U A 2 ? U A 2 . ? 5_664 ? 7 AC2 7 HOH I . ? HOH A 201 . ? 5_664 ? 8 AC2 7 HOH I . ? HOH A 218 . ? 5_664 ? 9 AC2 7 G E 1 ? G C 1 . ? 1_555 ? 10 AC2 7 U E 2 ? U C 2 . ? 1_555 ? 11 AC2 7 HOH M . ? HOH C 206 . ? 1_555 ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "O3'" B U 12 ? ? P B A 13 ? ? 1.508 1.607 -0.099 0.012 Y 2 1 "O3'" E A 5 ? ? P E RUS 6 ? ? 1.513 1.607 -0.094 0.012 Y 3 1 "O3'" C U 4 ? ? P C A 5 ? ? 1.524 1.607 -0.083 0.012 Y # 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 "O3'" A G 3 ? ? P A U 4 ? ? OP2 A U 4 ? ? 121.03 110.50 10.53 1.10 Y 2 1 "C3'" D U 12 ? ? "O3'" D U 12 ? ? P D A 13 ? ? 111.73 119.70 -7.97 1.20 Y 3 1 "O3'" D U 12 ? ? P D A 13 ? ? OP2 D A 13 ? ? 121.59 110.50 11.09 1.10 Y 4 1 "O5'" D A 13 ? ? P D A 13 ? ? OP2 D A 13 ? ? 96.97 105.70 -8.73 0.90 N 5 1 "O5'" E U 2 ? ? P E U 2 ? ? OP1 E U 2 ? ? 97.42 105.70 -8.28 0.90 N 6 1 "O3'" C G 3 ? ? P C U 4 ? ? OP2 C U 4 ? ? 118.34 110.50 7.84 1.10 Y 7 1 "O3'" C U 4 ? ? P C A 5 ? ? OP2 C A 5 ? ? 124.72 110.50 14.22 1.10 Y 8 1 "O5'" C A 5 ? ? P C A 5 ? ? OP2 C A 5 ? ? 96.44 105.70 -9.26 0.90 N # 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 RUS 6 A RUS 6 ? U ? 2 B RUS 6 B RUS 14 ? U ? 3 C RUS 6 D RUS 14 ? U ? 4 D RUS 6 E RUS 6 ? U ? 5 E RUS 6 C RUS 6 ? U ? 6 F RUS 6 F RUS 14 ? U ? # 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 A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 HOH O O N N 111 HOH H1 H N N 112 HOH H2 H N N 113 K K K N N 114 RUS P P N N 115 RUS N1 N N N 116 RUS C2 C N N 117 RUS SE2 SE N N 118 RUS N3 N N N 119 RUS C4 C N N 120 RUS O4 O N N 121 RUS C5 C N N 122 RUS C6 C N N 123 RUS "C1'" C N R 124 RUS O1P O N N 125 RUS "C2'" C N R 126 RUS "O2'" O N N 127 RUS O2P O N N 128 RUS "C3'" C N S 129 RUS "O3'" O N N 130 RUS O3P O N N 131 RUS "C4'" C N R 132 RUS "O4'" O N N 133 RUS "C5'" C N N 134 RUS "O5'" O N N 135 RUS H5 H N N 136 RUS H6 H N N 137 RUS "H1'" H N N 138 RUS "H2'" H N N 139 RUS "HO2'" H N N 140 RUS HO2P H N N 141 RUS "H3'" H N N 142 RUS "HO3'" H N N 143 RUS HO3P H N N 144 RUS "H4'" H N N 145 RUS "H5'" H N N 146 RUS "H5'A" H N N 147 RUS HSE2 H N N 148 U OP3 O N N 149 U P P N N 150 U OP1 O N N 151 U OP2 O N N 152 U "O5'" O N N 153 U "C5'" C N N 154 U "C4'" C N R 155 U "O4'" O N N 156 U "C3'" C N S 157 U "O3'" O N N 158 U "C2'" C N R 159 U "O2'" O N N 160 U "C1'" C N R 161 U N1 N N N 162 U C2 C N N 163 U O2 O N N 164 U N3 N N N 165 U C4 C N N 166 U O4 O N N 167 U C5 C N N 168 U C6 C N N 169 U HOP3 H N N 170 U HOP2 H N N 171 U "H5'" H N N 172 U "H5''" H N N 173 U "H4'" H N N 174 U "H3'" H N N 175 U "HO3'" H N N 176 U "H2'" H N N 177 U "HO2'" H N N 178 U "H1'" H N N 179 U H3 H N N 180 U H5 H N N 181 U H6 H N N 182 # 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 A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 HOH O H1 sing N N 116 HOH O H2 sing N N 117 RUS O1P P doub N N 118 RUS O2P P sing N N 119 RUS P "O5'" sing N N 120 RUS P O3P sing N N 121 RUS C6 N1 sing N N 122 RUS "C1'" N1 sing N N 123 RUS N1 C2 sing N N 124 RUS C2 N3 doub N N 125 RUS C2 SE2 sing N N 126 RUS C4 N3 sing N N 127 RUS C5 C4 sing N N 128 RUS C4 O4 doub N N 129 RUS C6 C5 doub N N 130 RUS C5 H5 sing N N 131 RUS C6 H6 sing N N 132 RUS "C2'" "C1'" sing N N 133 RUS "C1'" "O4'" sing N N 134 RUS "C1'" "H1'" sing N N 135 RUS "C3'" "C2'" sing N N 136 RUS "C2'" "O2'" sing N N 137 RUS "C2'" "H2'" sing N N 138 RUS "O2'" "HO2'" sing N N 139 RUS O2P HO2P sing N N 140 RUS "O3'" "C3'" sing N N 141 RUS "C3'" "C4'" sing N N 142 RUS "C3'" "H3'" sing N N 143 RUS "O3'" "HO3'" sing N N 144 RUS O3P HO3P sing N N 145 RUS "C5'" "C4'" sing N N 146 RUS "C4'" "O4'" sing N N 147 RUS "C4'" "H4'" sing N N 148 RUS "C5'" "O5'" sing N N 149 RUS "C5'" "H5'" sing N N 150 RUS "C5'" "H5'A" sing N N 151 RUS SE2 HSE2 sing N N 152 U OP3 P sing N N 153 U OP3 HOP3 sing N N 154 U P OP1 doub N N 155 U P OP2 sing N N 156 U P "O5'" sing N N 157 U OP2 HOP2 sing N N 158 U "O5'" "C5'" sing N N 159 U "C5'" "C4'" sing N N 160 U "C5'" "H5'" sing N N 161 U "C5'" "H5''" sing N N 162 U "C4'" "O4'" sing N N 163 U "C4'" "C3'" sing N N 164 U "C4'" "H4'" sing N N 165 U "O4'" "C1'" sing N N 166 U "C3'" "O3'" sing N N 167 U "C3'" "C2'" sing N N 168 U "C3'" "H3'" sing N N 169 U "O3'" "HO3'" sing N N 170 U "C2'" "O2'" sing N N 171 U "C2'" "C1'" sing N N 172 U "C2'" "H2'" sing N N 173 U "O2'" "HO2'" sing N N 174 U "C1'" N1 sing N N 175 U "C1'" "H1'" sing N N 176 U N1 C2 sing N N 177 U N1 C6 sing N N 178 U C2 O2 doub N N 179 U C2 N3 sing N N 180 U N3 C4 sing N N 181 U N3 H3 sing N N 182 U C4 O4 doub N N 183 U C4 C5 sing N N 184 U C5 C6 doub N N 185 U C5 H5 sing N N 186 U C6 H6 sing N N 187 # _ndb_struct_conf_na.entry_id 4JAH _ndb_struct_conf_na.feature 'internal loop' # 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 8 1_555 -0.262 -0.213 -0.011 -7.551 -13.443 -1.033 1 A_G3:C16_B A 3 ? B 16 ? 19 1 1 A U 4 1_555 B A 7 1_555 -0.048 -0.129 0.106 1.907 -11.950 1.631 2 A_U4:A15_B A 4 ? B 15 ? 20 1 1 A A 7 1_555 B U 4 1_555 0.037 -0.094 0.275 7.608 -7.769 1.188 3 A_A7:U12_B A 7 ? B 12 ? 20 1 1 A C 8 1_555 B G 3 1_555 0.357 -0.135 0.054 9.455 -9.359 0.992 4 A_C8:G11_B A 8 ? B 11 ? 19 1 1 C G 3 1_555 E C 8 1_555 -0.158 -0.137 -0.092 -10.389 -10.367 0.040 5 D_G11:C8_C D 11 ? C 8 ? 19 1 1 C U 4 1_555 E A 7 1_555 -0.052 -0.070 0.043 -6.352 -12.262 2.681 6 D_U12:A7_C D 12 ? C 7 ? 20 1 1 C A 7 1_555 E U 4 1_555 0.089 -0.088 0.168 -2.488 -11.970 0.260 7 D_A15:U4_C D 15 ? C 4 ? 20 1 1 C C 8 1_555 E G 3 1_555 0.280 -0.154 0.028 4.616 -15.551 -0.295 8 D_C16:G3_C D 16 ? C 3 ? 19 1 1 D G 3 1_555 F C 8 1_555 -0.272 -0.098 0.032 -6.584 -9.546 1.986 9 E_G3:C16_F E 3 ? F 16 ? 19 1 1 D U 4 1_555 F A 7 1_555 -0.075 -0.104 0.290 0.852 -7.207 0.600 10 E_U4:A15_F E 4 ? F 15 ? 20 1 1 D A 7 1_555 F U 4 1_555 0.145 -0.069 0.098 3.165 -11.399 1.323 11 E_A7:U12_F E 7 ? F 12 ? 20 1 1 D C 8 1_555 F G 3 1_555 0.283 -0.136 0.013 8.035 -10.405 -0.196 12 E_C8:G11_F E 8 ? F 11 ? 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 8 1_555 A U 4 1_555 B A 7 1_555 0.540 -1.026 3.042 -0.540 4.781 32.064 -2.601 -1.053 2.853 8.595 0.971 32.414 1 AA_G3U4:A15C16_BB A 3 ? B 16 ? A 4 ? B 15 ? 1 A A 7 1_555 B U 4 1_555 A C 8 1_555 B G 3 1_555 0.019 -1.507 3.256 0.212 4.743 33.082 -3.378 0.000 3.017 8.276 -0.371 33.412 2 AA_A7C8:G11U12_BB A 7 ? B 12 ? A 8 ? B 11 ? 1 C G 3 1_555 E C 8 1_555 C U 4 1_555 E A 7 1_555 -0.032 -1.055 3.246 -0.735 7.803 32.096 -3.121 -0.062 2.916 13.857 1.306 33.014 3 DD_G11U12:A7C8_CC D 11 ? C 8 ? D 12 ? C 7 ? 1 C A 7 1_555 E U 4 1_555 C C 8 1_555 E G 3 1_555 -0.368 -1.104 3.091 1.383 4.793 34.673 -2.498 0.804 2.901 7.992 -2.306 35.019 4 DD_A15C16:G3U4_CC D 15 ? C 4 ? D 16 ? C 3 ? 1 D G 3 1_555 F C 8 1_555 D U 4 1_555 F A 7 1_555 -0.335 -1.233 3.126 -3.891 3.560 33.048 -2.696 -0.023 2.999 6.209 6.786 33.454 5 EE_G3U4:A15C16_FF E 3 ? F 16 ? E 4 ? F 15 ? 1 D A 7 1_555 F U 4 1_555 D C 8 1_555 F G 3 1_555 -0.076 -1.340 3.174 0.918 5.752 32.374 -3.286 0.282 2.897 10.213 -1.631 32.880 6 EE_A7C8:G11U12_FF E 7 ? F 12 ? E 8 ? F 11 ? # _atom_sites.entry_id 4JAH _atom_sites.fract_transf_matrix[1][1] 0.021531 _atom_sites.fract_transf_matrix[1][2] 0.012431 _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] 0.024862 _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] 0.008291 _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 K N O P SE # loop_