data_3BQ1 # _model_server_result.job_id DS1yS8k-R5CgBVkoux1H9w _model_server_result.datetime_utc '2025-07-05 00:09:13' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 3bq1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":11}' # _entry.id 3BQ1 # _exptl.entry_id 3BQ1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 491.182 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 3BQ1 _cell.length_a 124.96 _cell.length_b 124.96 _cell.length_c 70.21 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3BQ1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _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 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_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_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 D O2B DG3 . P DG3 11 1_555 E CA CA . A CA 4001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc2 D O2G DG3 . P DG3 11 1_555 E CA CA . A CA 4001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc3 C OD2 ASP 7 A ASP 7 1_555 E CA CA . A CA 4001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? metalc ? metalc4 C O PHE 8 A PHE 8 1_555 E CA CA . A CA 4001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc5 C OD2 ASP 105 A ASP 105 1_555 E CA CA . A CA 4001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc6 E CA CA . A CA 4001 1_555 H O HOH . A HOH 4018 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.98 ? hydrog WATSON-CRICK hydrog1 A N1 DG 1 P DG 1 1_555 B N3 DC 14 T DC 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 1 P DG 1 1_555 B O2 DC 14 T DC 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 1 P DG 1 1_555 B N4 DC 14 T DC 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DA 2 P DA 2 1_555 B N3 DT 13 T DT 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N6 DA 2 P DA 2 1_555 B O4 DT 13 T DT 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N1 DA 3 P DA 3 1_555 B N3 DT 12 T DT 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N6 DA 3 P DA 3 1_555 B O4 DT 12 T DT 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N1 DG 4 P DG 4 1_555 B N3 DC 11 T DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N2 DG 4 P DG 4 1_555 B O2 DC 11 T DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A O6 DG 4 P DG 4 1_555 B N4 DC 11 T DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N3 DC 5 P DC 5 1_555 B N1 DG 10 T DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N4 DC 5 P DC 5 1_555 B O6 DG 10 T DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A O2 DC 5 P DC 5 1_555 B N2 DG 10 T DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N3 DC 6 P DC 6 1_555 B N1 DG 9 T DG 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N4 DC 6 P DC 6 1_555 B O6 DG 9 T DG 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A O2 DC 6 P DC 6 1_555 B N2 DG 9 T DG 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N1 DG 7 P DG 7 1_555 B N3 DC 8 T DC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N2 DG 7 P DG 7 1_555 B O2 DC 8 T DC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O6 DG 7 P DG 7 1_555 B N4 DC 8 T DC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N1 DG 8 P DG 8 1_555 B N3 DC 7 T DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N2 DG 8 P DG 8 1_555 B O2 DC 7 T DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A O6 DG 8 P DG 8 1_555 B N4 DC 7 T DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N3 DC 9 P DC 9 1_555 B N1 DG 5 T DG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A N4 DC 9 P DC 9 1_555 B O6 DG 5 T DG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A O2 DC 9 P DC 9 1_555 B N2 DG 5 T DG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A N1 DG 10 P DG 10 1_555 B N3 DC 4 T DC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A N2 DG 10 P DG 10 1_555 B O2 DC 4 T DC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A O6 DG 10 P DG 10 1_555 B N4 DC 4 T DC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C10 H16 N5 O12 P3' _chem_comp.formula_weight 491.182 _chem_comp.id DG3 _chem_comp.mon_nstd_flag . _chem_comp.name "2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag PG O1G DG3 doub 195 n n PG O2G DG3 sing 196 n n PG O3G DG3 sing 197 n n PG O3B DG3 sing 198 n n O2G HOG2 DG3 sing 199 n n O3G HOG3 DG3 sing 200 n n O3B PB DG3 sing 201 n n PB O1B DG3 doub 202 n n PB O2B DG3 sing 203 n n PB O3A DG3 sing 204 n n O2B HOB2 DG3 sing 205 n n O3A PA DG3 sing 206 n n PA O1A DG3 doub 207 n n PA O2A DG3 sing 208 n n PA O5' DG3 sing 209 n n O2A HOA2 DG3 sing 210 n n O5' C5' DG3 sing 211 n n C5' C4' DG3 sing 212 n n C5' "H5'1" DG3 sing 213 n n C5' "H5'2" DG3 sing 214 n n C4' O4' DG3 sing 215 n n C4' C3' DG3 sing 216 n n C4' H4' DG3 sing 217 n n O4' C1' DG3 sing 218 n n C3' C2' DG3 sing 219 n n C3' "H3'1" DG3 sing 220 n n C3' "H3'2" DG3 sing 221 n n C2' C1' DG3 sing 222 n n C2' "H2'1" DG3 sing 223 n n C2' "H2'2" DG3 sing 224 n n C1' N9 DG3 sing 225 n n C1' H1' DG3 sing 226 n n N9 C8 DG3 sing 227 n y N9 C4 DG3 sing 228 n y C8 N7 DG3 doub 229 n y C8 H8 DG3 sing 230 n n N7 C5 DG3 sing 231 n y C5 C6 DG3 sing 232 n n C5 C4 DG3 doub 233 n y C6 O6 DG3 doub 234 n n C6 N1 DG3 sing 235 n n N1 C2 DG3 sing 236 n n N1 HN1 DG3 sing 237 n n C2 N2 DG3 sing 238 n n C2 N3 DG3 doub 239 n n N2 HN21 DG3 sing 240 n n N2 HN22 DG3 sing 241 n n N3 C4 DG3 sing 242 n n # _atom_sites.entry_id 3BQ1 _atom_sites.fract_transf_matrix[1][1] 0.008003 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008003 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.014243 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_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_ins_code D 4 DG3 P 1 11 1 DG3 DG3 . E 5 CA A 1 4001 4001 CA CA . F 6 HOH P 1 27 27 HOH HOH . F 6 HOH P 2 29 29 HOH HOH . F 6 HOH P 3 36 36 HOH HOH . G 6 HOH T 1 16 1 HOH HOH . G 6 HOH T 2 17 26 HOH HOH . G 6 HOH T 3 18 38 HOH HOH . H 6 HOH A 1 4002 2 HOH HOH . H 6 HOH A 2 4003 3 HOH HOH . H 6 HOH A 3 4004 4 HOH HOH . H 6 HOH A 4 4005 5 HOH HOH . H 6 HOH A 5 4006 6 HOH HOH . H 6 HOH A 6 4007 7 HOH HOH . H 6 HOH A 7 4008 8 HOH HOH . H 6 HOH A 8 4009 9 HOH HOH . H 6 HOH A 9 4010 10 HOH HOH . H 6 HOH A 10 4011 11 HOH HOH . H 6 HOH A 11 4012 12 HOH HOH . H 6 HOH A 12 4013 13 HOH HOH . H 6 HOH A 13 4014 14 HOH HOH . H 6 HOH A 14 4015 15 HOH HOH . H 6 HOH A 15 4016 16 HOH HOH . H 6 HOH A 16 4017 17 HOH HOH . H 6 HOH A 17 4018 18 HOH HOH . H 6 HOH A 18 4019 19 HOH HOH . H 6 HOH A 19 4020 20 HOH HOH . H 6 HOH A 20 4021 21 HOH HOH . H 6 HOH A 21 4022 22 HOH HOH . H 6 HOH A 22 4023 23 HOH HOH . H 6 HOH A 23 4024 24 HOH HOH . H 6 HOH A 24 4025 25 HOH HOH . H 6 HOH A 25 4026 28 HOH HOH . H 6 HOH A 26 4027 30 HOH HOH . H 6 HOH A 27 4028 31 HOH HOH . H 6 HOH A 28 4029 32 HOH HOH . H 6 HOH A 29 4030 33 HOH HOH . H 6 HOH A 30 4031 34 HOH HOH . H 6 HOH A 31 4032 35 HOH HOH . H 6 HOH A 32 4033 37 HOH HOH . H 6 HOH A 33 4034 39 HOH HOH . H 6 HOH A 34 4035 40 HOH HOH . H 6 HOH A 35 4036 41 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 P PG DG3 . . . D 4 30.881 21.094 -15.705 1 46.33 ? PG DG3 11 P 1 HETATM 2 O O1G DG3 . . . D 4 31.203 19.662 -15.273 1 43.57 ? O1G DG3 11 P 1 HETATM 3 O O2G DG3 . . . D 4 31.925 22.175 -15.44 1 42.54 ? O2G DG3 11 P 1 HETATM 4 O O3G DG3 . . . D 4 29.498 21.531 -15.266 1 46.21 ? O3G DG3 11 P 1 HETATM 5 O O3B DG3 . . . D 4 30.774 21.027 -17.318 1 43.03 ? O3B DG3 11 P 1 HETATM 6 P PB DG3 . . . D 4 31.969 20.534 -18.27 1 40.43 ? PB DG3 11 P 1 HETATM 7 O O1B DG3 . . . D 4 31.436 20.375 -19.671 1 41.92 ? O1B DG3 11 P 1 HETATM 8 O O2B DG3 . . . D 4 33.109 21.5 -18.071 1 41.83 ? O2B DG3 11 P 1 HETATM 9 O O3A DG3 . . . D 4 32.472 19.091 -17.719 1 41.46 ? O3A DG3 11 P 1 HETATM 10 P PA DG3 . . . D 4 31.779 17.612 -17.759 1 42.11 ? PA DG3 11 P 1 HETATM 11 O O1A DG3 . . . D 4 30.454 17.698 -17.011 1 41.11 ? O1A DG3 11 P 1 HETATM 12 O O2A DG3 . . . D 4 32.866 16.68 -17.24 1 43.38 ? O2A DG3 11 P 1 HETATM 13 O O5' DG3 . . . D 4 31.556 17.141 -19.297 1 40.2 ? O5' DG3 11 P 1 HETATM 14 C C5' DG3 . . . D 4 32.69 16.983 -20.153 1 39.39 ? C5' DG3 11 P 1 HETATM 15 C C4' DG3 . . . D 4 32.487 16.117 -21.414 1 38.84 ? C4' DG3 11 P 1 HETATM 16 O O4' DG3 . . . D 4 31.967 14.802 -21.167 1 38.68 ? O4' DG3 11 P 1 HETATM 17 C C3' DG3 . . . D 4 31.563 16.763 -22.429 1 38.32 ? C3' DG3 11 P 1 HETATM 18 C C2' DG3 . . . D 4 30.77 15.614 -23.025 1 38 ? C2' DG3 11 P 1 HETATM 19 C C1' DG3 . . . D 4 30.865 14.5 -22.006 1 36.5 ? C1' DG3 11 P 1 HETATM 20 N N9 DG3 . . . D 4 29.66 14.456 -21.145 1 36.26 ? N9 DG3 11 P 1 HETATM 21 C C8 DG3 . . . D 4 29.495 15.006 -19.918 1 36.37 ? C8 DG3 11 P 1 HETATM 22 N N7 DG3 . . . D 4 28.253 14.745 -19.41 1 36.08 ? N7 DG3 11 P 1 HETATM 23 C C5 DG3 . . . D 4 27.601 14.014 -20.333 1 35.63 ? C5 DG3 11 P 1 HETATM 24 C C6 DG3 . . . D 4 26.261 13.4 -20.46 1 35.95 ? C6 DG3 11 P 1 HETATM 25 O O6 DG3 . . . D 4 25.401 13.501 -19.545 1 36.25 ? O6 DG3 11 P 1 HETATM 26 N N1 DG3 . . . D 4 26.007 12.722 -21.591 1 35.96 ? N1 DG3 11 P 1 HETATM 27 C C2 DG3 . . . D 4 26.906 12.59 -22.59 1 35.85 ? C2 DG3 11 P 1 HETATM 28 N N2 DG3 . . . D 4 26.581 11.899 -23.701 1 36.06 ? N2 DG3 11 P 1 HETATM 29 N N3 DG3 . . . D 4 28.142 13.132 -22.548 1 35.9 ? N3 DG3 11 P 1 HETATM 30 C C4 DG3 . . . D 4 28.533 13.831 -21.463 1 35.76 ? C4 DG3 11 P 1 # _model_server_stats.io_time_ms 48 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 30 #