data_1OL7 # _model_server_result.job_id M8FmFAATvl0cEz5xuDodCw _model_server_result.datetime_utc '2024-11-07 09:54:32' _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 1ol7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":531}' # _entry.id 1OL7 # _exptl.entry_id 1OL7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _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 120 _cell.entry_id 1OL7 _cell.length_a 81.18 _cell.length_b 81.18 _cell.length_c 169.62 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1OL7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details PQS _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 2 _struct_asym.id B _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 ARG 165 A ARG 286 1_555 A N TPO 166 A TPO 287 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.371 ? covale ? covale2 A C TPO 166 A TPO 287 1_555 A N TPO 167 A TPO 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale3 A C TPO 167 A TPO 288 1_555 A N LEU 168 A LEU 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? metalc ? metalc1 A OD1 ASN 140 A ASN 261 1_555 C MG MG . A MG 1392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? metalc ? metalc2 A OD2 ASP 153 A ASP 274 1_555 C MG MG . A MG 1392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.884 ? metalc ? metalc3 A OD2 ASP 153 A ASP 274 1_555 D MG MG . A MG 1393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? metalc ? metalc4 A OD1 ASP 153 A ASP 274 1_555 D MG MG . A MG 1393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? metalc ? metalc5 B O3B ADP . A ADP 531 1_555 C MG MG . A MG 1392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.086 ? metalc ? metalc6 B O2A ADP . A ADP 531 1_555 C MG MG . A MG 1392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.029 ? metalc ? metalc7 B O3A ADP . A ADP 531 1_555 C MG MG . A MG 1392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? metalc ? metalc8 B O2B ADP . A ADP 531 1_555 D MG MG . A MG 1393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? # _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 1OL7 _atom_sites.fract_transf_matrix[1][1] 0.012318 _atom_sites.fract_transf_matrix[1][2] 0.007112 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014224 _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] 0.005895 _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 ADP A 1 531 531 ADP ADP . C 3 MG A 1 1392 1392 MG MG . D 3 MG A 1 1393 1393 MG MG . E 4 HOH A 1 2001 2001 HOH HOH . E 4 HOH A 2 2002 2002 HOH HOH . E 4 HOH A 3 2003 2003 HOH HOH . E 4 HOH A 4 2004 2004 HOH HOH . E 4 HOH A 5 2005 2005 HOH HOH . E 4 HOH A 6 2006 2006 HOH HOH . E 4 HOH A 7 2007 2007 HOH HOH . E 4 HOH A 8 2008 2008 HOH HOH . E 4 HOH A 9 2009 2009 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 . . . B 2 257.416 -68.553 107.649 1 34.84 ? PB ADP 531 A 1 HETATM 2 O O1B ADP . . . B 2 258.545 -67.776 107.191 1 50.81 ? O1B ADP 531 A 1 HETATM 3 O O2B ADP . . . B 2 257.209 -69.88 106.879 1 48.35 ? O2B ADP 531 A 1 HETATM 4 O O3B ADP . . . B 2 257.422 -68.756 109.226 1 53.79 ? O3B ADP 531 A 1 HETATM 5 P PA ADP . . . B 2 256.077 -66.204 106.616 1 35.25 ? PA ADP 531 A 1 HETATM 6 O O1A ADP . . . B 2 256.842 -66.123 105.373 1 33.66 ? O1A ADP 531 A 1 HETATM 7 O O2A ADP . . . B 2 254.551 -65.86 106.461 1 54.13 ? O2A ADP 531 A 1 HETATM 8 O O3A ADP . . . B 2 256.162 -67.643 107.261 1 62.78 ? O3A ADP 531 A 1 HETATM 9 O O5' ADP . . . B 2 256.892 -65.243 107.657 1 48.32 ? O5' ADP 531 A 1 HETATM 10 C C5' ADP . . . B 2 256.442 -65.218 109.085 1 61.7 ? C5' ADP 531 A 1 HETATM 11 C C4' ADP . . . B 2 255.856 -63.898 109.556 1 46.54 ? C4' ADP 531 A 1 HETATM 12 O O4' ADP . . . B 2 256.542 -62.868 108.818 1 44.98 ? O4' ADP 531 A 1 HETATM 13 C C3' ADP . . . B 2 254.372 -63.62 109.292 1 37.55 ? C3' ADP 531 A 1 HETATM 14 O O3' ADP . . . B 2 253.658 -64.161 110.347 1 46.23 ? O3' ADP 531 A 1 HETATM 15 C C2' ADP . . . B 2 254.337 -62.08 109.181 1 46.36 ? C2' ADP 531 A 1 HETATM 16 O O2' ADP . . . B 2 254.148 -61.399 110.423 1 42.59 ? O2' ADP 531 A 1 HETATM 17 C C1' ADP . . . B 2 255.71 -61.716 108.597 1 43.16 ? C1' ADP 531 A 1 HETATM 18 N N9 ADP . . . B 2 255.666 -61.436 107.162 1 48.23 ? N9 ADP 531 A 1 HETATM 19 C C8 ADP . . . B 2 255.946 -62.302 106.136 1 47.43 ? C8 ADP 531 A 1 HETATM 20 N N7 ADP . . . B 2 255.811 -61.734 104.897 1 42.83 ? N7 ADP 531 A 1 HETATM 21 C C5 ADP . . . B 2 255.418 -60.464 105.177 1 40.36 ? C5 ADP 531 A 1 HETATM 22 C C6 ADP . . . B 2 255.122 -59.337 104.279 1 44.75 ? C6 ADP 531 A 1 HETATM 23 N N6 ADP . . . B 2 255.151 -59.4 102.949 1 22.67 ? N6 ADP 531 A 1 HETATM 24 N N1 ADP . . . B 2 254.762 -58.153 104.964 1 40.38 ? N1 ADP 531 A 1 HETATM 25 C C2 ADP . . . B 2 254.725 -58.057 106.364 1 50.55 ? C2 ADP 531 A 1 HETATM 26 N N3 ADP . . . B 2 254.992 -59.07 107.188 1 51.07 ? N3 ADP 531 A 1 HETATM 27 C C4 ADP . . . B 2 255.351 -60.245 106.574 1 46.49 ? C4 ADP 531 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #