data_1L8Q # _model_server_result.job_id 3FszMTjVKoxbTZUsZWfrfg _model_server_result.datetime_utc '2024-11-28 16:24:17' _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 1l8q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":400}' # _entry.id 1L8Q # _exptl.entry_id 1L8Q _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-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 90 _cell.entry_id 1L8Q _cell.length_a 155.752 _cell.length_b 155.752 _cell.length_c 155.752 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1L8Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 197 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 3' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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 3 _struct_asym.id C _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 covale ? covale1 A C ALA 79 A ALA 154 1_555 A N MSE 80 A MSE 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale2 A C MSE 80 A MSE 155 1_555 A N VAL 81 A VAL 156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale3 A C ASN 94 A ASN 169 1_555 A N MSE 95 A MSE 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale4 A C MSE 95 A MSE 170 1_555 A N TYR 96 A TYR 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale5 A C LEU 230 A LEU 305 1_555 A N MSE 231 A MSE 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? covale ? covale6 A C MSE 231 A MSE 306 1_555 A N GLN 232 A GLN 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale7 A C ALA 264 A ALA 339 1_555 A N MSE 265 A MSE 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale8 A C MSE 265 A MSE 340 1_555 A N TYR 266 A TYR 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? metalc ? metalc1 D O HOH . A HOH 9 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? metalc ? metalc2 D O HOH . A HOH 31 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc3 D O HOH . A HOH 38 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.818 ? metalc ? metalc4 D O HOH . A HOH 45 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc5 A OG1 THR 51 A THR 126 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? metalc ? metalc6 C O1B ADP . A ADP 400 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.853 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 1L8Q _atom_sites.fract_transf_matrix[1][1] 0.00642 _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] 0.00642 _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] 0.00642 _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 B 2 MG A 1 401 399 MG MG . C 3 ADP A 1 400 400 ADP ADP . D 4 HOH A 1 1 1 HOH HOH . D 4 HOH A 2 2 2 HOH HOH . D 4 HOH A 3 3 3 HOH HOH . D 4 HOH A 4 4 4 HOH HOH . D 4 HOH A 5 5 5 HOH HOH . D 4 HOH A 6 6 6 HOH HOH . D 4 HOH A 7 7 7 HOH HOH . D 4 HOH A 8 8 8 HOH HOH . D 4 HOH A 9 9 9 HOH HOH . D 4 HOH A 10 10 10 HOH HOH . D 4 HOH A 11 11 11 HOH HOH . D 4 HOH A 12 12 12 HOH HOH . D 4 HOH A 13 13 13 HOH HOH . D 4 HOH A 14 14 14 HOH HOH . D 4 HOH A 15 15 15 HOH HOH . D 4 HOH A 16 16 16 HOH HOH . D 4 HOH A 17 17 17 HOH HOH . D 4 HOH A 18 18 18 HOH HOH . D 4 HOH A 19 19 19 HOH HOH . D 4 HOH A 20 20 20 HOH HOH . D 4 HOH A 21 21 21 HOH HOH . D 4 HOH A 22 22 22 HOH HOH . D 4 HOH A 23 23 23 HOH HOH . D 4 HOH A 24 24 24 HOH HOH . D 4 HOH A 25 25 25 HOH HOH . D 4 HOH A 26 26 26 HOH HOH . D 4 HOH A 27 27 27 HOH HOH . D 4 HOH A 28 28 28 HOH HOH . D 4 HOH A 29 29 29 HOH HOH . D 4 HOH A 30 30 30 HOH HOH . D 4 HOH A 31 31 31 HOH HOH . D 4 HOH A 32 32 32 HOH HOH . D 4 HOH A 33 33 33 HOH HOH . D 4 HOH A 34 34 34 HOH HOH . D 4 HOH A 35 35 35 HOH HOH . D 4 HOH A 36 36 36 HOH HOH . D 4 HOH A 37 37 37 HOH HOH . D 4 HOH A 38 38 38 HOH HOH . D 4 HOH A 39 39 39 HOH HOH . D 4 HOH A 40 40 40 HOH HOH . D 4 HOH A 41 41 41 HOH HOH . D 4 HOH A 42 42 42 HOH HOH . D 4 HOH A 43 43 43 HOH HOH . D 4 HOH A 44 44 44 HOH HOH . D 4 HOH A 45 45 45 HOH HOH . D 4 HOH A 46 46 46 HOH HOH . D 4 HOH A 47 47 47 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 PB ADP . . . C 3 38.629 78.73 17.182 1 22.2 ? PB ADP 400 A 1 HETATM 2 O O1B ADP . . . C 3 39.365 77.423 16.849 1 19.51 ? O1B ADP 400 A 1 HETATM 3 O O2B ADP . . . C 3 37.63 78.612 18.296 1 21.62 ? O2B ADP 400 A 1 HETATM 4 O O3B ADP . . . C 3 38.132 79.46 15.974 1 20.55 ? O3B ADP 400 A 1 HETATM 5 P PA ADP . . . C 3 41.265 79.306 17.666 1 22.36 ? PA ADP 400 A 1 HETATM 6 O O1A ADP . . . C 3 41.649 78.174 18.601 1 23.39 ? O1A ADP 400 A 1 HETATM 7 O O2A ADP . . . C 3 41.532 78.986 16.205 1 20.72 ? O2A ADP 400 A 1 HETATM 8 O O3A ADP . . . C 3 39.724 79.678 17.814 1 20.41 ? O3A ADP 400 A 1 HETATM 9 O O5' ADP . . . C 3 41.996 80.646 18.118 1 21.5 ? O5' ADP 400 A 1 HETATM 10 C C5' ADP . . . C 3 41.87 81.831 17.353 1 21.08 ? C5' ADP 400 A 1 HETATM 11 C C4' ADP . . . C 3 43.084 82.663 17.683 1 20.95 ? C4' ADP 400 A 1 HETATM 12 O O4' ADP . . . C 3 42.933 83.272 18.981 1 20.73 ? O4' ADP 400 A 1 HETATM 13 C C3' ADP . . . C 3 44.296 81.763 17.781 1 20.11 ? C3' ADP 400 A 1 HETATM 14 O O3' ADP . . . C 3 45.39 82.556 17.343 1 24.08 ? O3' ADP 400 A 1 HETATM 15 C C2' ADP . . . C 3 44.401 81.491 19.265 1 19.34 ? C2' ADP 400 A 1 HETATM 16 O O2' ADP . . . C 3 45.688 81.137 19.743 1 14.03 ? O2' ADP 400 A 1 HETATM 17 C C1' ADP . . . C 3 43.931 82.781 19.879 1 20.09 ? C1' ADP 400 A 1 HETATM 18 N N9 ADP . . . C 3 43.337 82.447 21.18 1 23.14 ? N9 ADP 400 A 1 HETATM 19 C C8 ADP . . . C 3 42.111 81.914 21.391 1 23.98 ? C8 ADP 400 A 1 HETATM 20 N N7 ADP . . . C 3 41.9 81.734 22.73 1 25.13 ? N7 ADP 400 A 1 HETATM 21 C C5 ADP . . . C 3 43.003 82.134 23.372 1 24.21 ? C5 ADP 400 A 1 HETATM 22 C C6 ADP . . . C 3 43.444 82.21 24.772 1 23.56 ? C6 ADP 400 A 1 HETATM 23 N N6 ADP . . . C 3 42.65 81.81 25.778 1 23.63 ? N6 ADP 400 A 1 HETATM 24 N N1 ADP . . . C 3 44.667 82.692 25.021 1 25.5 ? N1 ADP 400 A 1 HETATM 25 C C2 ADP . . . C 3 45.485 83.109 24.033 1 24.49 ? C2 ADP 400 A 1 HETATM 26 N N3 ADP . . . C 3 45.136 83.068 22.734 1 24.82 ? N3 ADP 400 A 1 HETATM 27 C C4 ADP . . . C 3 43.943 82.6 22.355 1 24.18 ? C4 ADP 400 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #