data_3KOA # _model_server_result.job_id XoygUCIWDJQUA5oxZFB-Cg _model_server_result.datetime_utc '2024-11-12 21:06:08' _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 3koa # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":665}' # _entry.id 3KOA # _exptl.entry_id 3KOA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 173.943 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description DIPHOSPHATE _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 120 _cell.entry_id 3KOA _cell.length_a 95.371 _cell.length_b 95.371 _cell.length_c 100.878 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3KOA _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _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 5 _struct_asym.id F _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 A OD2 ASP 238 A ASP 238 1_555 D MG MG . A MG 1030 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? metalc ? metalc2 G O HOH . A HOH 484 1_555 D MG MG . A MG 1030 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.765 ? hydrog 'U-G MISPAIR' hydrog1 B O2 U 2 B U 904 1_555 C N2 G 4 C G 921 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N1 G 3 B G 905 1_555 C N3 C 3 C C 920 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B N2 G 3 B G 905 1_555 C O2 C 3 C C 920 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B O6 G 3 B G 905 1_555 C N4 C 3 C C 920 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N1 G 4 B G 906 1_555 C N3 C 2 C C 919 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B N2 G 4 B G 906 1_555 C O2 C 2 C C 919 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B O6 G 4 B G 906 1_555 C N4 C 2 C C 919 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-C PAIR' hydrog8 B N1 G 5 B G 907 1_555 C N3 C 1 C C 918 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'O7 P2 -4' _chem_comp.formula_weight 173.943 _chem_comp.id DPO _chem_comp.mon_nstd_flag . _chem_comp.name DIPHOSPHATE _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 P1 O1 DPO doub 158 n n P1 O2 DPO sing 159 n n P1 O3 DPO sing 160 n n P1 O4 DPO sing 161 n n O4 P2 DPO sing 162 n n P2 O5 DPO doub 163 n n P2 O6 DPO sing 164 n n P2 O7 DPO sing 165 n n # _atom_sites.entry_id 3KOA _atom_sites.fract_transf_matrix[1][1] 0.010485 _atom_sites.fract_transf_matrix[1][2] 0.006054 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012107 _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] 0.009913 _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 MG A 1 1030 1030 MG MG . E 4 MG A 1 1031 1031 MG MG . F 5 DPO A 1 665 665 DPO DDP . G 6 HOH A 1 477 1 HOH HOH . G 6 HOH A 2 478 2 HOH HOH . G 6 HOH A 3 479 3 HOH HOH . G 6 HOH A 4 480 4 HOH HOH . G 6 HOH A 5 481 5 HOH HOH . G 6 HOH A 6 482 6 HOH HOH . G 6 HOH A 7 483 8 HOH HOH . G 6 HOH A 8 484 9 HOH HOH . G 6 HOH A 9 485 10 HOH HOH . G 6 HOH A 10 486 11 HOH HOH . G 6 HOH A 11 487 12 HOH HOH . G 6 HOH A 12 488 13 HOH HOH . G 6 HOH A 13 489 14 HOH HOH . G 6 HOH A 14 490 15 HOH HOH . G 6 HOH A 15 491 16 HOH HOH . G 6 HOH A 16 492 19 HOH HOH . G 6 HOH A 17 493 20 HOH HOH . G 6 HOH A 18 494 22 HOH HOH . G 6 HOH A 19 495 23 HOH HOH . G 6 HOH A 20 496 25 HOH HOH . G 6 HOH A 21 497 28 HOH HOH . G 6 HOH A 22 498 29 HOH HOH . G 6 HOH A 23 499 30 HOH HOH . G 6 HOH A 24 500 34 HOH HOH . G 6 HOH A 25 501 39 HOH HOH . G 6 HOH A 26 502 40 HOH HOH . G 6 HOH A 27 503 41 HOH HOH . G 6 HOH A 28 504 42 HOH HOH . G 6 HOH A 29 505 44 HOH HOH . H 6 HOH B 1 7 7 HOH HOH . H 6 HOH B 2 35 35 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 P1 DPO . . . F 5 17.389 32.857 15.005 0.3 62.12 ? P1 DPO 665 A 1 HETATM 2 O O1 DPO . . . F 5 18.518 32.087 15.657 0.3 61.33 ? O1 DPO 665 A 1 HETATM 3 O O2 DPO . . . F 5 17.198 32.567 13.531 0.3 60.87 ? O2 DPO 665 A 1 HETATM 4 O O3 DPO . . . F 5 16.099 32.839 15.799 0.3 61.76 ? O3 DPO 665 A 1 HETATM 5 O O4 DPO . . . F 5 17.878 34.404 15.062 0.3 61.22 ? O4 DPO 665 A 1 HETATM 6 P P2 DPO . . . F 5 16.862 35.64 14.814 0.3 60.85 ? P2 DPO 665 A 1 HETATM 7 O O5 DPO . . . F 5 15.672 35.323 15.691 0.3 60.61 ? O5 DPO 665 A 1 HETATM 8 O O6 DPO . . . F 5 17.606 36.885 15.241 0.3 60.17 ? O6 DPO 665 A 1 HETATM 9 O O7 DPO . . . F 5 16.589 35.561 13.329 0.3 60.82 ? O7 DPO 665 A 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 9 #