data_1G4Q # _entry.id 1G4Q # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.385 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 1G4Q pdb_00001g4q 10.2210/pdb1g4q/pdb NDB AH0012 ? ? RCSB RCSB012230 ? ? WWPDB D_1000012230 ? ? # 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 2003-07-08 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-04 5 'Structure model' 1 4 2024-02-07 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Refinement description' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' software 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 5 5 'Structure model' pdbx_struct_conn_angle 6 5 'Structure model' struct_conn 7 5 '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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' 3 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 4 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 5 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 15 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 16 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 17 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 18 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 19 5 'Structure model' '_pdbx_struct_conn_angle.value' 20 5 'Structure model' '_struct_conn.pdbx_dist_value' 21 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 22 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 23 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 24 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 25 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 26 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 27 5 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 28 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 29 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 30 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 31 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 32 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 33 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 34 5 'Structure model' '_struct_conn.ptnr2_symmetry' 35 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 36 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 37 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1G4Q _pdbx_database_status.recvd_initial_deposition_date 2000-10-27 _pdbx_database_status.deposit_site NDB _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_mr ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # _audit_author.name 'Han, G.W.' _audit_author.pdbx_ordinal 1 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary 'Direct-methods determination of an RNA/DNA hybrid decamer at 1.15 A resolution.' 'Acta Crystallogr.,Sect.D' 57 213 218 2001 ABCRE6 DK 0907-4449 0766 ? 11173466 10.1107/S0907444900017595 1 'An unusual sugar conformation in the structure of an RNA/DNA decamer of the polypurine tract may affect recognition by RNase H.' J.Mol.Biol. 334 653 665 2003 JMOBAK UK 0022-2836 0070 ? 14636594 10.1016/j.jmb.2003.09.057 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Han, G.W.' 1 ? 1 'Kopka, M.L.' 2 ? 1 'Lavelle, L.' 3 ? 1 'Han, G.W.' 4 ? 1 'Ng, H.L.' 5 ? 1 'Dickerson, R.E.' 6 ? # 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 "5'-R(*CP*AP*AP*AP*GP*AP*AP*AP*AP*G)-3'" 3255.076 1 ? ? 'POLYPURINE TRACT OF HIV-1' ? 2 polymer syn "5'-D(*CP*TP*TP*TP*TP*CP*TP*TP*TP*G)-3'" 2991.961 1 ? ? ? ? 3 non-polymer syn 'CALCIUM ION' 40.078 3 ? ? ? ? 4 non-polymer syn '(4S)-2-METHYL-2,4-PENTANEDIOL' 118.174 1 ? ? ? ? 5 water nat water 18.015 137 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no no CAAAGAAAAG CAAAGAAAAG A ? 2 polydeoxyribonucleotide no no '(DC)(DT)(DT)(DT)(DT)(DC)(DT)(DT)(DT)(DG)' CTTTTCTTTG B ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'CALCIUM ION' CA 4 '(4S)-2-METHYL-2,4-PENTANEDIOL' MPD 5 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 C n 1 2 A n 1 3 A n 1 4 A n 1 5 G n 1 6 A n 1 7 A n 1 8 A n 1 9 A n 1 10 G n 2 1 DC n 2 2 DT n 2 3 DT n 2 4 DT n 2 5 DT n 2 6 DC n 2 7 DT n 2 8 DT n 2 9 DT n 2 10 DG n # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight 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 CA non-polymer . 'CALCIUM ION' ? 'Ca 2' 40.078 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 MPD non-polymer . '(4S)-2-METHYL-2,4-PENTANEDIOL' ? 'C6 H14 O2' 118.174 # 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 C 1 1 1 C C A . n A 1 2 A 2 2 2 A A A . n A 1 3 A 3 3 3 A A A . n A 1 4 A 4 4 4 A A A . n A 1 5 G 5 5 5 G G A . n A 1 6 A 6 6 6 A A A . n A 1 7 A 7 7 7 A A A . n A 1 8 A 8 8 8 A A A . n A 1 9 A 9 9 9 A A A . n A 1 10 G 10 10 10 G G A . n B 2 1 DC 1 11 11 DC C B . n B 2 2 DT 2 12 12 DT T B . n B 2 3 DT 3 13 13 DT T B . n B 2 4 DT 4 14 14 DT T B . n B 2 5 DT 5 15 15 DT T B . n B 2 6 DC 6 16 16 DC C B . n B 2 7 DT 7 17 17 DT T B . n B 2 8 DT 8 18 18 DT T B . n B 2 9 DT 9 19 19 DT T B . n B 2 10 DG 10 20 20 DG G 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 3 CA 1 31 31 CA CA A . D 3 CA 1 33 33 CA CA A . E 3 CA 1 34 34 CA CA A . F 4 MPD 1 25 25 MPD MPD A . G 5 HOH 1 101 101 HOH HOH A . G 5 HOH 2 102 102 HOH HOH A . G 5 HOH 3 103 103 HOH HOH A . G 5 HOH 4 104 104 HOH HOH A . G 5 HOH 5 105 105 HOH HOH A . G 5 HOH 6 106 106 HOH HOH A . G 5 HOH 7 107 107 HOH HOH A . G 5 HOH 8 108 108 HOH HOH A . G 5 HOH 9 109 109 HOH HOH A . G 5 HOH 10 110 110 HOH HOH A . G 5 HOH 11 111 111 HOH HOH A . G 5 HOH 12 112 112 HOH HOH A . G 5 HOH 13 113 113 HOH HOH A . G 5 HOH 14 115 115 HOH HOH A . G 5 HOH 15 118 118 HOH HOH A . G 5 HOH 16 132 132 HOH HOH A . G 5 HOH 17 135 135 HOH HOH A . G 5 HOH 18 136 136 HOH HOH A . G 5 HOH 19 137 137 HOH HOH A . G 5 HOH 20 138 138 HOH HOH A . G 5 HOH 21 139 139 HOH HOH A . G 5 HOH 22 140 140 HOH HOH A . G 5 HOH 23 141 141 HOH HOH A . G 5 HOH 24 142 142 HOH HOH A . G 5 HOH 25 143 143 HOH HOH A . G 5 HOH 26 144 144 HOH HOH A . G 5 HOH 27 145 145 HOH HOH A . G 5 HOH 28 146 146 HOH HOH A . G 5 HOH 29 147 147 HOH HOH A . G 5 HOH 30 151 151 HOH HOH A . G 5 HOH 31 152 152 HOH HOH A . G 5 HOH 32 153 153 HOH HOH A . G 5 HOH 33 154 154 HOH HOH A . G 5 HOH 34 155 155 HOH HOH A . G 5 HOH 35 156 156 HOH HOH A . G 5 HOH 36 157 157 HOH HOH A . G 5 HOH 37 158 158 HOH HOH A . G 5 HOH 38 159 159 HOH HOH A . G 5 HOH 39 160 160 HOH HOH A . G 5 HOH 40 162 162 HOH HOH A . G 5 HOH 41 163 163 HOH HOH A . G 5 HOH 42 164 164 HOH HOH A . G 5 HOH 43 166 166 HOH HOH A . G 5 HOH 44 167 167 HOH HOH A . G 5 HOH 45 168 168 HOH HOH A . G 5 HOH 46 170 170 HOH HOH A . G 5 HOH 47 171 171 HOH HOH A . G 5 HOH 48 172 172 HOH HOH A . G 5 HOH 49 176 176 HOH HOH A . G 5 HOH 50 177 177 HOH HOH A . G 5 HOH 51 178 178 HOH HOH A . G 5 HOH 52 179 179 HOH HOH A . G 5 HOH 53 182 182 HOH HOH A . G 5 HOH 54 183 183 HOH HOH A . G 5 HOH 55 185 185 HOH HOH A . G 5 HOH 56 188 188 HOH HOH A . G 5 HOH 57 192 192 HOH HOH A . G 5 HOH 58 195 195 HOH HOH A . G 5 HOH 59 196 196 HOH HOH A . G 5 HOH 60 199 199 HOH HOH A . G 5 HOH 61 201 201 HOH HOH A . G 5 HOH 62 206 206 HOH HOH A . G 5 HOH 63 208 208 HOH HOH A . G 5 HOH 64 210 210 HOH HOH A . G 5 HOH 65 211 211 HOH HOH A . G 5 HOH 66 213 213 HOH HOH A . G 5 HOH 67 217 217 HOH HOH A . G 5 HOH 68 218 218 HOH HOH A . G 5 HOH 69 223 223 HOH HOH A . G 5 HOH 70 225 225 HOH HOH A . G 5 HOH 71 226 226 HOH HOH A . G 5 HOH 72 228 228 HOH HOH A . G 5 HOH 73 229 229 HOH HOH A . G 5 HOH 74 230 230 HOH HOH A . G 5 HOH 75 231 231 HOH HOH A . G 5 HOH 76 237 237 HOH HOH A . G 5 HOH 77 238 238 HOH HOH A . G 5 HOH 78 241 241 HOH HOH A . G 5 HOH 79 243 243 HOH HOH A . G 5 HOH 80 244 244 HOH HOH A . G 5 HOH 81 245 245 HOH HOH A . G 5 HOH 82 246 246 HOH HOH A . G 5 HOH 83 249 249 HOH HOH A . G 5 HOH 84 251 251 HOH HOH A . H 5 HOH 1 100 100 HOH HOH B . H 5 HOH 2 119 119 HOH HOH B . H 5 HOH 3 120 120 HOH HOH B . H 5 HOH 4 121 121 HOH HOH B . H 5 HOH 5 122 122 HOH HOH B . H 5 HOH 6 124 124 HOH HOH B . H 5 HOH 7 125 125 HOH HOH B . H 5 HOH 8 126 126 HOH HOH B . H 5 HOH 9 127 127 HOH HOH B . H 5 HOH 10 128 128 HOH HOH B . H 5 HOH 11 129 129 HOH HOH B . H 5 HOH 12 130 130 HOH HOH B . H 5 HOH 13 131 131 HOH HOH B . H 5 HOH 14 133 133 HOH HOH B . H 5 HOH 15 134 134 HOH HOH B . H 5 HOH 16 173 173 HOH HOH B . H 5 HOH 17 174 174 HOH HOH B . H 5 HOH 18 181 181 HOH HOH B . H 5 HOH 19 186 186 HOH HOH B . H 5 HOH 20 187 187 HOH HOH B . H 5 HOH 21 189 189 HOH HOH B . H 5 HOH 22 190 190 HOH HOH B . H 5 HOH 23 193 193 HOH HOH B . H 5 HOH 24 194 194 HOH HOH B . H 5 HOH 25 197 197 HOH HOH B . H 5 HOH 26 200 200 HOH HOH B . H 5 HOH 27 202 202 HOH HOH B . H 5 HOH 28 203 203 HOH HOH B . H 5 HOH 29 204 204 HOH HOH B . H 5 HOH 30 205 205 HOH HOH B . H 5 HOH 31 207 207 HOH HOH B . H 5 HOH 32 209 209 HOH HOH B . H 5 HOH 33 212 212 HOH HOH B . H 5 HOH 34 214 214 HOH HOH B . H 5 HOH 35 215 215 HOH HOH B . H 5 HOH 36 216 216 HOH HOH B . H 5 HOH 37 219 219 HOH HOH B . H 5 HOH 38 220 220 HOH HOH B . H 5 HOH 39 221 221 HOH HOH B . H 5 HOH 40 222 222 HOH HOH B . H 5 HOH 41 224 224 HOH HOH B . H 5 HOH 42 227 227 HOH HOH B . H 5 HOH 43 232 232 HOH HOH B . H 5 HOH 44 233 233 HOH HOH B . H 5 HOH 45 234 234 HOH HOH B . H 5 HOH 46 235 235 HOH HOH B . H 5 HOH 47 236 236 HOH HOH B . H 5 HOH 48 239 239 HOH HOH B . H 5 HOH 49 240 240 HOH HOH B . H 5 HOH 50 247 247 HOH HOH B . H 5 HOH 51 250 250 HOH HOH B . H 5 HOH 52 252 252 HOH HOH B . H 5 HOH 53 253 253 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal DENZO 'data reduction' . ? 1 SHELXL-97 refinement . ? 2 # _cell.entry_id 1G4Q _cell.length_a 25.699 _cell.length_b 41.067 _cell.length_c 46.113 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _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 1G4Q _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? # _exptl.entry_id 1G4Q _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.93 _exptl_crystal.density_percent_sol 36.36 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.8 _exptl_crystal_grow.pdbx_details 'calcium acetate, spermidine, beta-octaglucoside, MPD, sodium cacodylate, pH 6.8, VAPOR DIFFUSION, SITTING DROP, temperature 298K' _exptl_crystal_grow.pdbx_pH_range . # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 'calcium acetate' ? ? ? 1 2 1 spermidine ? ? ? 1 3 1 beta-octaglucoside ? ? ? 1 4 1 MPD ? ? ? 1 5 1 'sodium cacodylate' ? ? ? 1 6 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 123 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 4' _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details mirrors # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.07200 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'NSLS BEAMLINE X8C' _diffrn_source.pdbx_synchrotron_site NSLS _diffrn_source.pdbx_synchrotron_beamline X8C _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.07200 # _reflns.entry_id 1G4Q _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 9.59 _reflns.d_resolution_high 1.10 _reflns.number_obs 19181 _reflns.number_all ? _reflns.percent_possible_obs 93.5 _reflns.pdbx_Rmerge_I_obs 0.081 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.10 _reflns_shell.d_res_low 1.13 _reflns_shell.percent_possible_all 65.7 _reflns_shell.Rmerge_I_obs 0.081 _reflns_shell.pdbx_Rsym_value 0.424 _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 19181 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1G4Q _refine.ls_number_reflns_obs 16408 _refine.ls_number_reflns_all 16408 _refine.pdbx_ls_sigma_I 0.0 _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_d_res_low 9.59 _refine.ls_d_res_high 1.15 _refine.ls_percent_reflns_obs 96.1 _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.143 _refine.ls_R_factor_R_free 0.186 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free 864 _refine.ls_number_parameters 4330 _refine.ls_number_restraints 11665 _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method ? _refine.details 'Konnert-Hendrickson conjugate-gradient algorithm' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'AB INITIO PHASING' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_ML ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.correlation_coeff_Fo_to_Fc ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_phase_error ? _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_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 414 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.number_atoms_solvent 145 _refine_hist.number_atoms_total 562 _refine_hist.d_res_high 1.15 _refine_hist.d_res_low 9.59 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function s_bond_d 0.017 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.019 ? ? ? 'X-RAY DIFFRACTION' ? # _pdbx_refine.entry_id 1G4Q _pdbx_refine.R_factor_all_no_cutoff ? _pdbx_refine.R_factor_obs_no_cutoff 0.143 _pdbx_refine.free_R_factor_no_cutoff ? _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 5 _pdbx_refine.free_R_val_test_set_ct_no_cutoff ? _pdbx_refine.R_factor_all_4sig_cutoff ? _pdbx_refine.R_factor_obs_4sig_cutoff 0.14 _pdbx_refine.free_R_factor_4sig_cutoff 0.182 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 5 _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 805 _pdbx_refine.number_reflns_obs_4sig_cutoff 15321 _pdbx_refine.number_reflns_obs_no_cutoff ? _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.free_R_error_no_cutoff ? # _database_PDB_matrix.entry_id 1G4Q _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 1G4Q _struct.title 'RNA/DNA HYBRID DECAMER OF CAAAGAAAAG/CTTTTCTTTG' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1G4Q _struct_keywords.pdbx_keywords 'DNA-RNA HYBRID' _struct_keywords.text 'RNA/DNA HYBRID, POLYPURINE TRACT OF HIV-1, DIRECT METHODS, DNA-RNA COMPLEX, DNA-RNA HYBRID' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 3 ? E N N 3 ? F N N 4 ? G N N 5 ? H N N 5 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 1 PDB 1G4Q 1G4Q ? ? ? 2 2 PDB 1G4Q 1G4Q ? ? ? # 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 1G4Q A 1 ? 10 ? 1G4Q 1 ? 10 ? 1 10 2 2 1G4Q B 1 ? 10 ? 1G4Q 11 ? 20 ? 11 20 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _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 # _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.pdbx_parent_biol_id ? _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 metalc1 metalc ? ? A A 9 OP1 ? ? ? 1_555 C CA . CA ? ? A A 9 A CA 31 1_555 ? ? ? ? ? ? ? 2.198 ? ? metalc2 metalc ? ? A A 9 OP2 ? ? ? 1_555 D CA . CA ? ? A A 9 A CA 33 1_555 ? ? ? ? ? ? ? 2.023 ? ? metalc3 metalc ? ? A G 10 OP1 ? ? ? 1_555 E CA . CA ? ? A G 10 A CA 34 1_555 ? ? ? ? ? ? ? 2.184 ? ? metalc4 metalc ? ? C CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 31 A HOH 111 1_555 ? ? ? ? ? ? ? 2.280 ? ? metalc5 metalc ? ? C CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 31 A HOH 113 1_555 ? ? ? ? ? ? ? 2.260 ? ? metalc6 metalc ? ? C CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 31 A HOH 115 1_555 ? ? ? ? ? ? ? 2.293 ? ? metalc7 metalc ? ? C CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 31 A HOH 118 1_555 ? ? ? ? ? ? ? 2.321 ? ? metalc8 metalc ? ? C CA . CA ? ? ? 1_555 B DT 8 OP2 ? ? A CA 31 B DT 18 3_646 ? ? ? ? ? ? ? 2.245 ? ? metalc9 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 33 A HOH 163 1_555 ? ? ? ? ? ? ? 2.038 ? ? metalc10 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 33 A HOH 164 1_555 ? ? ? ? ? ? ? 2.128 ? ? metalc11 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 33 A HOH 166 1_555 ? ? ? ? ? ? ? 1.993 ? ? metalc12 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 33 A HOH 167 1_555 ? ? ? ? ? ? ? 2.158 ? ? metalc13 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 33 A HOH 168 1_555 ? ? ? ? ? ? ? 2.071 ? ? metalc14 metalc ? ? E CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 34 A HOH 105 2_555 ? ? ? ? ? ? ? 2.425 ? ? metalc15 metalc ? ? E CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 34 A HOH 112 1_555 ? ? ? ? ? ? ? 2.457 ? ? metalc16 metalc ? ? E CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 34 A HOH 176 1_555 ? ? ? ? ? ? ? 2.310 ? ? metalc17 metalc ? ? E CA . CA ? ? ? 1_555 B DT 8 OP1 ? ? A CA 34 B DT 18 3_646 ? ? ? ? ? ? ? 2.225 ? ? metalc18 metalc ? ? E CA . CA ? ? ? 1_555 B DG 10 OP1 ? ? A CA 34 B DG 20 2_555 ? ? ? ? ? ? ? 2.898 ? ? hydrog1 hydrog ? ? A C 1 N3 ? ? ? 1_555 B DG 10 N1 ? ? A C 1 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 1 N4 ? ? ? 1_555 B DG 10 O6 ? ? A C 1 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 1 O2 ? ? ? 1_555 B DG 10 N2 ? ? A C 1 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A A 2 N1 ? ? ? 1_555 B DT 9 N3 ? ? A A 2 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A A 2 N6 ? ? ? 1_555 B DT 9 O4 ? ? A A 2 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A A 3 N1 ? ? ? 1_555 B DT 8 N3 ? ? A A 3 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 3 N6 ? ? ? 1_555 B DT 8 O4 ? ? A A 3 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 4 N1 ? ? ? 1_555 B DT 7 N3 ? ? A A 4 B DT 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A A 4 N6 ? ? ? 1_555 B DT 7 O4 ? ? A A 4 B DT 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 5 N1 ? ? ? 1_555 B DC 6 N3 ? ? A G 5 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 5 N2 ? ? ? 1_555 B DC 6 O2 ? ? A G 5 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 5 O6 ? ? ? 1_555 B DC 6 N4 ? ? A G 5 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 6 N1 ? ? ? 1_555 B DT 5 N3 ? ? A A 6 B DT 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A 6 N6 ? ? ? 1_555 B DT 5 O4 ? ? A A 6 B DT 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A A 7 N1 ? ? ? 1_555 B DT 4 N3 ? ? A A 7 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A A 7 N6 ? ? ? 1_555 B DT 4 O4 ? ? A A 7 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A A 8 N1 ? ? ? 1_555 B DT 3 N3 ? ? A A 8 B DT 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A A 8 N6 ? ? ? 1_555 B DT 3 O4 ? ? A A 8 B DT 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A A 9 N1 ? ? ? 1_555 B DT 2 N3 ? ? A A 9 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 9 N6 ? ? ? 1_555 B DT 2 O4 ? ? A A 9 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 10 N1 ? ? ? 1_555 B DC 1 N3 ? ? A G 10 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A G 10 N2 ? ? ? 1_555 B DC 1 O2 ? ? A G 10 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 10 O6 ? ? ? 1_555 B DC 1 N4 ? ? A G 10 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference 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 OP1 ? A A 9 ? A A 9 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 O ? G HOH . ? A HOH 111 ? 1_555 84.1 ? 2 OP1 ? A A 9 ? A A 9 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 O ? G HOH . ? A HOH 113 ? 1_555 99.0 ? 3 O ? G HOH . ? A HOH 111 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 O ? G HOH . ? A HOH 113 ? 1_555 83.0 ? 4 OP1 ? A A 9 ? A A 9 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 O ? G HOH . ? A HOH 115 ? 1_555 83.9 ? 5 O ? G HOH . ? A HOH 111 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 O ? G HOH . ? A HOH 115 ? 1_555 93.1 ? 6 O ? G HOH . ? A HOH 113 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 O ? G HOH . ? A HOH 115 ? 1_555 174.8 ? 7 OP1 ? A A 9 ? A A 9 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 O ? G HOH . ? A HOH 118 ? 1_555 171.2 ? 8 O ? G HOH . ? A HOH 111 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 O ? G HOH . ? A HOH 118 ? 1_555 87.7 ? 9 O ? G HOH . ? A HOH 113 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 O ? G HOH . ? A HOH 118 ? 1_555 83.1 ? 10 O ? G HOH . ? A HOH 115 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 O ? G HOH . ? A HOH 118 ? 1_555 93.3 ? 11 OP1 ? A A 9 ? A A 9 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 OP2 ? B DT 8 ? B DT 18 ? 3_646 90.9 ? 12 O ? G HOH . ? A HOH 111 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 OP2 ? B DT 8 ? B DT 18 ? 3_646 172.3 ? 13 O ? G HOH . ? A HOH 113 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 OP2 ? B DT 8 ? B DT 18 ? 3_646 91.9 ? 14 O ? G HOH . ? A HOH 115 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 OP2 ? B DT 8 ? B DT 18 ? 3_646 92.4 ? 15 O ? G HOH . ? A HOH 118 ? 1_555 CA ? C CA . ? A CA 31 ? 1_555 OP2 ? B DT 8 ? B DT 18 ? 3_646 97.5 ? 16 OP2 ? A A 9 ? A A 9 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 163 ? 1_555 87.3 ? 17 OP2 ? A A 9 ? A A 9 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 164 ? 1_555 85.3 ? 18 O ? G HOH . ? A HOH 163 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 164 ? 1_555 93.1 ? 19 OP2 ? A A 9 ? A A 9 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 166 ? 1_555 172.3 ? 20 O ? G HOH . ? A HOH 163 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 166 ? 1_555 94.7 ? 21 O ? G HOH . ? A HOH 164 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 166 ? 1_555 87.2 ? 22 OP2 ? A A 9 ? A A 9 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 167 ? 1_555 89.3 ? 23 O ? G HOH . ? A HOH 163 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 167 ? 1_555 176.6 ? 24 O ? G HOH . ? A HOH 164 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 167 ? 1_555 87.0 ? 25 O ? G HOH . ? A HOH 166 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 167 ? 1_555 88.7 ? 26 OP2 ? A A 9 ? A A 9 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 168 ? 1_555 93.9 ? 27 O ? G HOH . ? A HOH 163 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 168 ? 1_555 90.4 ? 28 O ? G HOH . ? A HOH 164 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 168 ? 1_555 176.3 ? 29 O ? G HOH . ? A HOH 166 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 168 ? 1_555 93.5 ? 30 O ? G HOH . ? A HOH 167 ? 1_555 CA ? D CA . ? A CA 33 ? 1_555 O ? G HOH . ? A HOH 168 ? 1_555 89.4 ? 31 OP1 ? A G 10 ? A G 10 ? 1_555 CA ? E CA . ? A CA 34 ? 1_555 O ? G HOH . ? A HOH 105 ? 2_555 88.4 ? 32 OP1 ? A G 10 ? A G 10 ? 1_555 CA ? E CA . ? A CA 34 ? 1_555 O ? G HOH . ? A HOH 112 ? 1_555 81.1 ? 33 O ? G HOH . ? A HOH 105 ? 2_555 CA ? E CA . ? A CA 34 ? 1_555 O ? G HOH . ? A HOH 112 ? 1_555 109.6 ? 34 OP1 ? A G 10 ? A G 10 ? 1_555 CA ? E CA . ? A CA 34 ? 1_555 O ? G HOH . ? A HOH 176 ? 1_555 159.9 ? 35 O ? G HOH . ? A HOH 105 ? 2_555 CA ? E CA . ? A CA 34 ? 1_555 O ? G HOH . ? A HOH 176 ? 1_555 93.2 ? 36 O ? G HOH . ? A HOH 112 ? 1_555 CA ? E CA . ? A CA 34 ? 1_555 O ? G HOH . ? A HOH 176 ? 1_555 79.5 ? 37 OP1 ? A G 10 ? A G 10 ? 1_555 CA ? E CA . ? A CA 34 ? 1_555 OP1 ? B DT 8 ? B DT 18 ? 3_646 91.4 ? 38 O ? G HOH . ? A HOH 105 ? 2_555 CA ? E CA . ? A CA 34 ? 1_555 OP1 ? B DT 8 ? B DT 18 ? 3_646 161.5 ? 39 O ? G HOH . ? A HOH 112 ? 1_555 CA ? E CA . ? A CA 34 ? 1_555 OP1 ? B DT 8 ? B DT 18 ? 3_646 88.6 ? 40 O ? G HOH . ? A HOH 176 ? 1_555 CA ? E CA . ? A CA 34 ? 1_555 OP1 ? B DT 8 ? B DT 18 ? 3_646 93.4 ? 41 OP1 ? A G 10 ? A G 10 ? 1_555 CA ? E CA . ? A CA 34 ? 1_555 OP1 ? B DG 10 ? B DG 20 ? 2_555 72.0 ? 42 O ? G HOH . ? A HOH 105 ? 2_555 CA ? E CA . ? A CA 34 ? 1_555 OP1 ? B DG 10 ? B DG 20 ? 2_555 87.5 ? 43 O ? G HOH . ? A HOH 112 ? 1_555 CA ? E CA . ? A CA 34 ? 1_555 OP1 ? B DG 10 ? B DG 20 ? 2_555 147.7 ? 44 O ? G HOH . ? A HOH 176 ? 1_555 CA ? E CA . ? A CA 34 ? 1_555 OP1 ? B DG 10 ? B DG 20 ? 2_555 128.1 ? 45 OP1 ? B DT 8 ? B DT 18 ? 3_646 CA ? E CA . ? A CA 34 ? 1_555 OP1 ? B DG 10 ? B DG 20 ? 2_555 74.9 ? # 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 CA 31 ? 6 'BINDING SITE FOR RESIDUE CA A 31' AC2 Software A CA 33 ? 6 'BINDING SITE FOR RESIDUE CA A 33' AC3 Software A CA 34 ? 6 'BINDING SITE FOR RESIDUE CA A 34' AC4 Software A MPD 25 ? 8 'BINDING SITE FOR RESIDUE MPD A 25' # 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 6 A A 9 ? A A 9 . ? 1_555 ? 2 AC1 6 HOH G . ? HOH A 111 . ? 1_555 ? 3 AC1 6 HOH G . ? HOH A 113 . ? 1_555 ? 4 AC1 6 HOH G . ? HOH A 115 . ? 1_555 ? 5 AC1 6 HOH G . ? HOH A 118 . ? 1_555 ? 6 AC1 6 DT B 8 ? DT B 18 . ? 3_646 ? 7 AC2 6 A A 9 ? A A 9 . ? 1_555 ? 8 AC2 6 HOH G . ? HOH A 163 . ? 1_555 ? 9 AC2 6 HOH G . ? HOH A 164 . ? 1_555 ? 10 AC2 6 HOH G . ? HOH A 166 . ? 1_555 ? 11 AC2 6 HOH G . ? HOH A 167 . ? 1_555 ? 12 AC2 6 HOH G . ? HOH A 168 . ? 1_555 ? 13 AC3 6 G A 10 ? G A 10 . ? 1_555 ? 14 AC3 6 HOH G . ? HOH A 105 . ? 2_555 ? 15 AC3 6 HOH G . ? HOH A 112 . ? 1_555 ? 16 AC3 6 HOH G . ? HOH A 176 . ? 1_555 ? 17 AC3 6 DT B 8 ? DT B 18 . ? 3_646 ? 18 AC3 6 DG B 10 ? DG B 20 . ? 2_555 ? 19 AC4 8 A A 4 ? A A 4 . ? 1_555 ? 20 AC4 8 G A 5 ? G A 5 . ? 1_555 ? 21 AC4 8 A A 6 ? A A 6 . ? 1_555 ? 22 AC4 8 HOH G . ? HOH A 107 . ? 1_555 ? 23 AC4 8 HOH G . ? HOH A 208 . ? 1_555 ? 24 AC4 8 HOH G . ? HOH A 211 . ? 1_555 ? 25 AC4 8 HOH G . ? HOH A 238 . ? 1_555 ? 26 AC4 8 HOH H . ? HOH B 133 . ? 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 "C2'" A A 2 ? ? "C1'" A A 2 ? ? 1.599 1.529 0.070 0.011 N 2 1 "C2'" A G 10 ? ? "C1'" A G 10 ? ? 1.598 1.529 0.069 0.011 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 N1 A C 1 ? ? "C1'" A C 1 ? ? "C2'" A C 1 ? ? 124.22 114.00 10.22 1.30 N 2 1 C4 A C 1 ? ? C5 A C 1 ? ? C6 A C 1 ? ? 114.27 117.40 -3.13 0.50 N 3 1 C5 A C 1 ? ? C4 A C 1 ? ? N4 A C 1 ? ? 115.87 120.20 -4.33 0.70 N 4 1 "C3'" A A 2 ? ? "C2'" A A 2 ? ? "C1'" A A 2 ? ? 95.86 101.30 -5.44 0.70 N 5 1 "O4'" A A 2 ? ? "C1'" A A 2 ? ? N9 A A 2 ? ? 114.45 108.50 5.95 0.70 N 6 1 "C3'" A A 2 ? ? "O3'" A A 2 ? ? P A A 3 ? ? 129.95 119.70 10.25 1.20 Y 7 1 "O4'" A A 6 ? ? "C1'" A A 6 ? ? N9 A A 6 ? ? 113.67 108.50 5.17 0.70 N 8 1 C6 A A 8 ? ? N1 A A 8 ? ? C2 A A 8 ? ? 122.23 118.60 3.63 0.60 N 9 1 C5 A A 8 ? ? C6 A A 8 ? ? N1 A A 8 ? ? 114.60 117.70 -3.10 0.50 N 10 1 N9 A G 10 ? ? "C1'" A G 10 ? ? "C2'" A G 10 ? ? 102.91 112.00 -9.09 1.10 N 11 1 "O4'" A G 10 ? ? "C1'" A G 10 ? ? N9 A G 10 ? ? 113.71 108.50 5.21 0.70 N 12 1 "O4'" B DT 12 ? ? "C1'" B DT 12 ? ? N1 B DT 12 ? ? 110.33 108.30 2.03 0.30 N 13 1 "O4'" B DT 13 ? ? "C1'" B DT 13 ? ? N1 B DT 13 ? ? 111.40 108.30 3.10 0.30 N 14 1 "O4'" B DT 14 ? ? "C1'" B DT 14 ? ? N1 B DT 14 ? ? 110.79 108.30 2.49 0.30 N 15 1 "O4'" B DT 17 ? ? "C1'" B DT 17 ? ? N1 B DT 17 ? ? 111.31 108.30 3.01 0.30 N # 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 CA CA CA N N 73 DC OP3 O N N 74 DC P P N N 75 DC OP1 O N N 76 DC OP2 O N N 77 DC "O5'" O N N 78 DC "C5'" C N N 79 DC "C4'" C N R 80 DC "O4'" O N N 81 DC "C3'" C N S 82 DC "O3'" O N N 83 DC "C2'" C N N 84 DC "C1'" C N R 85 DC N1 N N N 86 DC C2 C N N 87 DC O2 O N N 88 DC N3 N N N 89 DC C4 C N N 90 DC N4 N N N 91 DC C5 C N N 92 DC C6 C N N 93 DC HOP3 H N N 94 DC HOP2 H N N 95 DC "H5'" H N N 96 DC "H5''" H N N 97 DC "H4'" H N N 98 DC "H3'" H N N 99 DC "HO3'" H N N 100 DC "H2'" H N N 101 DC "H2''" H N N 102 DC "H1'" H N N 103 DC H41 H N N 104 DC H42 H N N 105 DC H5 H N N 106 DC H6 H N N 107 DG OP3 O N N 108 DG P P N N 109 DG OP1 O N N 110 DG OP2 O N N 111 DG "O5'" O N N 112 DG "C5'" C N N 113 DG "C4'" C N R 114 DG "O4'" O N N 115 DG "C3'" C N S 116 DG "O3'" O N N 117 DG "C2'" C N N 118 DG "C1'" C N R 119 DG N9 N Y N 120 DG C8 C Y N 121 DG N7 N Y N 122 DG C5 C Y N 123 DG C6 C N N 124 DG O6 O N N 125 DG N1 N N N 126 DG C2 C N N 127 DG N2 N N N 128 DG N3 N N N 129 DG C4 C Y N 130 DG HOP3 H N N 131 DG HOP2 H N N 132 DG "H5'" H N N 133 DG "H5''" H N N 134 DG "H4'" H N N 135 DG "H3'" H N N 136 DG "HO3'" H N N 137 DG "H2'" H N N 138 DG "H2''" H N N 139 DG "H1'" H N N 140 DG H8 H N N 141 DG H1 H N N 142 DG H21 H N N 143 DG H22 H N N 144 DT OP3 O N N 145 DT P P N N 146 DT OP1 O N N 147 DT OP2 O N N 148 DT "O5'" O N N 149 DT "C5'" C N N 150 DT "C4'" C N R 151 DT "O4'" O N N 152 DT "C3'" C N S 153 DT "O3'" O N N 154 DT "C2'" C N N 155 DT "C1'" C N R 156 DT N1 N N N 157 DT C2 C N N 158 DT O2 O N N 159 DT N3 N N N 160 DT C4 C N N 161 DT O4 O N N 162 DT C5 C N N 163 DT C7 C N N 164 DT C6 C N N 165 DT HOP3 H N N 166 DT HOP2 H N N 167 DT "H5'" H N N 168 DT "H5''" H N N 169 DT "H4'" H N N 170 DT "H3'" H N N 171 DT "HO3'" H N N 172 DT "H2'" H N N 173 DT "H2''" H N N 174 DT "H1'" H N N 175 DT H3 H N N 176 DT H71 H N N 177 DT H72 H N N 178 DT H73 H N N 179 DT H6 H N N 180 G OP3 O N N 181 G P P N N 182 G OP1 O N N 183 G OP2 O N N 184 G "O5'" O N N 185 G "C5'" C N N 186 G "C4'" C N R 187 G "O4'" O N N 188 G "C3'" C N S 189 G "O3'" O N N 190 G "C2'" C N R 191 G "O2'" O N N 192 G "C1'" C N R 193 G N9 N Y N 194 G C8 C Y N 195 G N7 N Y N 196 G C5 C Y N 197 G C6 C N N 198 G O6 O N N 199 G N1 N N N 200 G C2 C N N 201 G N2 N N N 202 G N3 N N N 203 G C4 C Y N 204 G HOP3 H N N 205 G HOP2 H N N 206 G "H5'" H N N 207 G "H5''" H N N 208 G "H4'" H N N 209 G "H3'" H N N 210 G "HO3'" H N N 211 G "H2'" H N N 212 G "HO2'" H N N 213 G "H1'" H N N 214 G H8 H N N 215 G H1 H N N 216 G H21 H N N 217 G H22 H N N 218 HOH O O N N 219 HOH H1 H N N 220 HOH H2 H N N 221 MPD C1 C N N 222 MPD C2 C N N 223 MPD O2 O N N 224 MPD CM C N N 225 MPD C3 C N N 226 MPD C4 C N S 227 MPD O4 O N N 228 MPD C5 C N N 229 MPD H11 H N N 230 MPD H12 H N N 231 MPD H13 H N N 232 MPD HO2 H N N 233 MPD HM1 H N N 234 MPD HM2 H N N 235 MPD HM3 H N N 236 MPD H31 H N N 237 MPD H32 H N N 238 MPD H4 H N N 239 MPD HO4 H N N 240 MPD H51 H N N 241 MPD H52 H N N 242 MPD H53 H N N 243 # 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 DC OP3 P sing N N 76 DC OP3 HOP3 sing N N 77 DC P OP1 doub N N 78 DC P OP2 sing N N 79 DC P "O5'" sing N N 80 DC OP2 HOP2 sing N N 81 DC "O5'" "C5'" sing N N 82 DC "C5'" "C4'" sing N N 83 DC "C5'" "H5'" sing N N 84 DC "C5'" "H5''" sing N N 85 DC "C4'" "O4'" sing N N 86 DC "C4'" "C3'" sing N N 87 DC "C4'" "H4'" sing N N 88 DC "O4'" "C1'" sing N N 89 DC "C3'" "O3'" sing N N 90 DC "C3'" "C2'" sing N N 91 DC "C3'" "H3'" sing N N 92 DC "O3'" "HO3'" sing N N 93 DC "C2'" "C1'" sing N N 94 DC "C2'" "H2'" sing N N 95 DC "C2'" "H2''" sing N N 96 DC "C1'" N1 sing N N 97 DC "C1'" "H1'" sing N N 98 DC N1 C2 sing N N 99 DC N1 C6 sing N N 100 DC C2 O2 doub N N 101 DC C2 N3 sing N N 102 DC N3 C4 doub N N 103 DC C4 N4 sing N N 104 DC C4 C5 sing N N 105 DC N4 H41 sing N N 106 DC N4 H42 sing N N 107 DC C5 C6 doub N N 108 DC C5 H5 sing N N 109 DC C6 H6 sing N N 110 DG OP3 P sing N N 111 DG OP3 HOP3 sing N N 112 DG P OP1 doub N N 113 DG P OP2 sing N N 114 DG P "O5'" sing N N 115 DG OP2 HOP2 sing N N 116 DG "O5'" "C5'" sing N N 117 DG "C5'" "C4'" sing N N 118 DG "C5'" "H5'" sing N N 119 DG "C5'" "H5''" sing N N 120 DG "C4'" "O4'" sing N N 121 DG "C4'" "C3'" sing N N 122 DG "C4'" "H4'" sing N N 123 DG "O4'" "C1'" sing N N 124 DG "C3'" "O3'" sing N N 125 DG "C3'" "C2'" sing N N 126 DG "C3'" "H3'" sing N N 127 DG "O3'" "HO3'" sing N N 128 DG "C2'" "C1'" sing N N 129 DG "C2'" "H2'" sing N N 130 DG "C2'" "H2''" sing N N 131 DG "C1'" N9 sing N N 132 DG "C1'" "H1'" sing N N 133 DG N9 C8 sing Y N 134 DG N9 C4 sing Y N 135 DG C8 N7 doub Y N 136 DG C8 H8 sing N N 137 DG N7 C5 sing Y N 138 DG C5 C6 sing N N 139 DG C5 C4 doub Y N 140 DG C6 O6 doub N N 141 DG C6 N1 sing N N 142 DG N1 C2 sing N N 143 DG N1 H1 sing N N 144 DG C2 N2 sing N N 145 DG C2 N3 doub N N 146 DG N2 H21 sing N N 147 DG N2 H22 sing N N 148 DG N3 C4 sing N N 149 DT OP3 P sing N N 150 DT OP3 HOP3 sing N N 151 DT P OP1 doub N N 152 DT P OP2 sing N N 153 DT P "O5'" sing N N 154 DT OP2 HOP2 sing N N 155 DT "O5'" "C5'" sing N N 156 DT "C5'" "C4'" sing N N 157 DT "C5'" "H5'" sing N N 158 DT "C5'" "H5''" sing N N 159 DT "C4'" "O4'" sing N N 160 DT "C4'" "C3'" sing N N 161 DT "C4'" "H4'" sing N N 162 DT "O4'" "C1'" sing N N 163 DT "C3'" "O3'" sing N N 164 DT "C3'" "C2'" sing N N 165 DT "C3'" "H3'" sing N N 166 DT "O3'" "HO3'" sing N N 167 DT "C2'" "C1'" sing N N 168 DT "C2'" "H2'" sing N N 169 DT "C2'" "H2''" sing N N 170 DT "C1'" N1 sing N N 171 DT "C1'" "H1'" sing N N 172 DT N1 C2 sing N N 173 DT N1 C6 sing N N 174 DT C2 O2 doub N N 175 DT C2 N3 sing N N 176 DT N3 C4 sing N N 177 DT N3 H3 sing N N 178 DT C4 O4 doub N N 179 DT C4 C5 sing N N 180 DT C5 C7 sing N N 181 DT C5 C6 doub N N 182 DT C7 H71 sing N N 183 DT C7 H72 sing N N 184 DT C7 H73 sing N N 185 DT C6 H6 sing N N 186 G OP3 P sing N N 187 G OP3 HOP3 sing N N 188 G P OP1 doub N N 189 G P OP2 sing N N 190 G P "O5'" sing N N 191 G OP2 HOP2 sing N N 192 G "O5'" "C5'" sing N N 193 G "C5'" "C4'" sing N N 194 G "C5'" "H5'" sing N N 195 G "C5'" "H5''" sing N N 196 G "C4'" "O4'" sing N N 197 G "C4'" "C3'" sing N N 198 G "C4'" "H4'" sing N N 199 G "O4'" "C1'" sing N N 200 G "C3'" "O3'" sing N N 201 G "C3'" "C2'" sing N N 202 G "C3'" "H3'" sing N N 203 G "O3'" "HO3'" sing N N 204 G "C2'" "O2'" sing N N 205 G "C2'" "C1'" sing N N 206 G "C2'" "H2'" sing N N 207 G "O2'" "HO2'" sing N N 208 G "C1'" N9 sing N N 209 G "C1'" "H1'" sing N N 210 G N9 C8 sing Y N 211 G N9 C4 sing Y N 212 G C8 N7 doub Y N 213 G C8 H8 sing N N 214 G N7 C5 sing Y N 215 G C5 C6 sing N N 216 G C5 C4 doub Y N 217 G C6 O6 doub N N 218 G C6 N1 sing N N 219 G N1 C2 sing N N 220 G N1 H1 sing N N 221 G C2 N2 sing N N 222 G C2 N3 doub N N 223 G N2 H21 sing N N 224 G N2 H22 sing N N 225 G N3 C4 sing N N 226 HOH O H1 sing N N 227 HOH O H2 sing N N 228 MPD C1 C2 sing N N 229 MPD C1 H11 sing N N 230 MPD C1 H12 sing N N 231 MPD C1 H13 sing N N 232 MPD C2 O2 sing N N 233 MPD C2 CM sing N N 234 MPD C2 C3 sing N N 235 MPD O2 HO2 sing N N 236 MPD CM HM1 sing N N 237 MPD CM HM2 sing N N 238 MPD CM HM3 sing N N 239 MPD C3 C4 sing N N 240 MPD C3 H31 sing N N 241 MPD C3 H32 sing N N 242 MPD C4 O4 sing N N 243 MPD C4 C5 sing N N 244 MPD C4 H4 sing N N 245 MPD O4 HO4 sing N N 246 MPD C5 H51 sing N N 247 MPD C5 H52 sing N N 248 MPD C5 H53 sing N N 249 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1G4Q 'double helix' 1G4Q 'a-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A C 1 1_555 B DG 10 1_555 0.112 -0.086 0.591 -28.092 -11.024 -1.574 1 A_C1:DG20_B A 1 ? B 20 ? 19 1 1 A A 2 1_555 B DT 9 1_555 0.102 -0.080 -0.049 2.486 -8.284 -4.172 2 A_A2:DT19_B A 2 ? B 19 ? 20 1 1 A A 3 1_555 B DT 8 1_555 -0.003 -0.135 0.233 7.174 -20.833 0.062 3 A_A3:DT18_B A 3 ? B 18 ? 20 1 1 A A 4 1_555 B DT 7 1_555 0.044 -0.065 0.079 0.853 -24.298 11.748 4 A_A4:DT17_B A 4 ? B 17 ? 20 1 1 A G 5 1_555 B DC 6 1_555 -0.271 -0.146 -0.194 -18.043 -4.301 -1.525 5 A_G5:DC16_B A 5 ? B 16 ? 19 1 1 A A 6 1_555 B DT 5 1_555 0.079 -0.129 -0.316 -15.926 -4.856 -2.910 6 A_A6:DT15_B A 6 ? B 15 ? 20 1 1 A A 7 1_555 B DT 4 1_555 0.058 -0.074 -0.134 -5.355 -6.343 0.398 7 A_A7:DT14_B A 7 ? B 14 ? 20 1 1 A A 8 1_555 B DT 3 1_555 -0.021 -0.169 -0.130 -1.749 -12.382 2.956 8 A_A8:DT13_B A 8 ? B 13 ? 20 1 1 A A 9 1_555 B DT 2 1_555 -0.071 -0.174 -0.124 -5.219 -3.683 1.368 9 A_A9:DT12_B A 9 ? B 12 ? 20 1 1 A G 10 1_555 B DC 1 1_555 -0.090 -0.032 0.159 7.344 -6.757 3.362 10 A_G10:DC11_B A 10 ? B 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 C 1 1_555 B DG 10 1_555 A A 2 1_555 B DT 9 1_555 -0.268 0.433 2.782 2.575 7.886 27.573 -0.659 1.039 2.762 16.090 -5.254 28.770 1 AA_C1A2:DT19DG20_BB A 1 ? B 20 ? A 2 ? B 19 ? 1 A A 2 1_555 B DT 9 1_555 A A 3 1_555 B DT 8 1_555 0.348 -0.947 3.190 -4.875 -0.286 33.565 -1.579 -1.355 3.118 -0.491 8.386 33.908 2 AA_A2A3:DT18DT19_BB A 2 ? B 19 ? A 3 ? B 18 ? 1 A A 3 1_555 B DT 8 1_555 A A 4 1_555 B DT 7 1_555 0.589 -1.020 3.495 -1.020 7.038 32.772 -2.967 -1.195 3.194 12.294 1.781 33.514 3 AA_A3A4:DT17DT18_BB A 3 ? B 18 ? A 4 ? B 17 ? 1 A A 4 1_555 B DT 7 1_555 A G 5 1_555 B DC 6 1_555 -1.817 -1.207 3.551 -8.031 18.234 37.670 -3.646 1.638 2.998 26.126 11.507 42.445 4 AA_A4G5:DC16DT17_BB A 4 ? B 17 ? A 5 ? B 16 ? 1 A G 5 1_555 B DC 6 1_555 A A 6 1_555 B DT 5 1_555 0.214 -1.687 3.387 4.103 10.576 31.798 -4.562 0.272 2.710 18.579 -7.209 33.712 5 AA_G5A6:DT15DC16_BB A 5 ? B 16 ? A 6 ? B 15 ? 1 A A 6 1_555 B DT 5 1_555 A A 7 1_555 B DT 4 1_555 0.734 -1.579 3.200 1.782 7.928 26.867 -4.975 -1.129 2.676 16.588 -3.729 28.048 6 AA_A6A7:DT14DT15_BB A 6 ? B 15 ? A 7 ? B 14 ? 1 A A 7 1_555 B DT 4 1_555 A A 8 1_555 B DT 3 1_555 0.960 -2.103 3.251 0.974 5.547 25.655 -6.024 -1.868 2.776 12.303 -2.160 26.256 7 AA_A7A8:DT13DT14_BB A 7 ? B 14 ? A 8 ? B 13 ? 1 A A 8 1_555 B DT 3 1_555 A A 9 1_555 B DT 2 1_555 -1.253 -1.613 3.260 -4.253 5.749 36.792 -3.252 1.403 3.102 9.003 6.661 37.457 8 AA_A8A9:DT12DT13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A A 9 1_555 B DT 2 1_555 A G 10 1_555 B DC 1 1_555 0.753 -1.763 2.991 0.045 2.672 28.008 -4.184 -1.540 2.815 5.506 -0.093 28.132 9 AA_A9G10:DC11DT12_BB A 9 ? B 12 ? A 10 ? B 11 ? # _atom_sites.entry_id 1G4Q _atom_sites.fract_transf_matrix[1][1] 0.038912 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.024350 _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] 0.021686 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C CA N O P # loop_