data_7QFN # _model_server_result.job_id AKv4t0BPvrK7SevCC_GH9g _model_server_result.datetime_utc '2025-06-30 17:44:15' _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 7qfn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 7QFN # _exptl.entry_id 7QFN _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 7QFN _cell.length_a 103.021 _cell.length_b 103.021 _cell.length_c 66.693 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7QFN _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 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 metalc ? metalc1 A OE2 GLU 62 A GLU 103 1_555 E MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.871 ? metalc ? metalc2 A OD1 ASN 66 A ASN 107 1_555 E MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc3 B O3B ADP . A ADP 501 1_555 E MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc4 B O2A ADP . A ADP 501 1_555 E MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.986 ? # _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 7QFN _atom_sites.fract_transf_matrix[1][1] 0.009707 _atom_sites.fract_transf_matrix[1][2] 0.005604 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011208 _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] 0.014994 _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 1 501 501 ADP ADP . C 3 SO4 A 1 502 1 SO4 SO4 . D 3 SO4 A 1 503 2 SO4 SO4 . E 4 MG A 1 504 1 MG MG . F 5 HOH A 1 601 14 HOH HOH . F 5 HOH A 2 602 3 HOH HOH . F 5 HOH A 3 603 5 HOH HOH . F 5 HOH A 4 604 1 HOH HOH . F 5 HOH A 5 605 11 HOH HOH . F 5 HOH A 6 606 4 HOH HOH . F 5 HOH A 7 607 7 HOH HOH . F 5 HOH A 8 608 8 HOH HOH . F 5 HOH A 9 609 2 HOH HOH . F 5 HOH A 10 610 9 HOH HOH . F 5 HOH A 11 611 13 HOH HOH . F 5 HOH A 12 612 10 HOH HOH . F 5 HOH A 13 613 6 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 14.53 22.325 13.506 1 48.94 0 PB ADP 501 A 1 HETATM 2 O O1B ADP . . . B 2 14.854 23.236 12.312 1 57.48 0 O1B ADP 501 A 1 HETATM 3 O O2B ADP . . . B 2 13.144 22.299 14.046 1 34.88 0 O2B ADP 501 A 1 HETATM 4 O O3B ADP . . . B 2 15.593 22.554 14.521 1 56.24 0 O3B ADP 501 A 1 HETATM 5 P PA ADP . . . B 2 16.141 20.123 13.093 1 47.95 0 PA ADP 501 A 1 HETATM 6 O O1A ADP . . . B 2 16.268 19.159 11.961 1 53.76 0 O1A ADP 501 A 1 HETATM 7 O O2A ADP . . . B 2 17.098 21.255 13.341 1 55.44 0 O2A ADP 501 A 1 HETATM 8 O O3A ADP . . . B 2 14.673 20.784 13.116 1 46.56 0 O3A ADP 501 A 1 HETATM 9 O O5' ADP . . . B 2 16.012 19.212 14.37 1 44.36 0 O5' ADP 501 A 1 HETATM 10 C C5' ADP . . . B 2 14.865 18.289 14.323 1 54.81 0 C5' ADP 501 A 1 HETATM 11 C C4' ADP . . . B 2 14.163 18.275 15.668 1 57.91 0 C4' ADP 501 A 1 HETATM 12 O O4' ADP . . . B 2 14.865 17.385 16.6 1 61.15 0 O4' ADP 501 A 1 HETATM 13 C C3' ADP . . . B 2 14.075 19.644 16.371 1 51.58 0 C3' ADP 501 A 1 HETATM 14 O O3' ADP . . . B 2 12.881 20.359 16.048 1 50.01 0 O3' ADP 501 A 1 HETATM 15 C C2' ADP . . . B 2 14.139 19.283 17.856 1 46.44 0 C2' ADP 501 A 1 HETATM 16 O O2' ADP . . . B 2 12.823 19.101 18.302 1 47.38 0 O2' ADP 501 A 1 HETATM 17 C C1' ADP . . . B 2 14.928 17.972 17.89 1 51.39 0 C1' ADP 501 A 1 HETATM 18 N N9 ADP . . . B 2 16.314 18.189 18.28 1 50.06 0 N9 ADP 501 A 1 HETATM 19 C C8 ADP . . . B 2 17.393 18.432 17.467 1 51.15 0 C8 ADP 501 A 1 HETATM 20 N N7 ADP . . . B 2 18.517 18.615 18.124 1 46.72 0 N7 ADP 501 A 1 HETATM 21 C C5 ADP . . . B 2 18.149 18.554 19.454 1 46.13 0 C5 ADP 501 A 1 HETATM 22 C C6 ADP . . . B 2 18.885 18.7 20.646 1 47.1 0 C6 ADP 501 A 1 HETATM 23 N N6 ADP . . . B 2 20.201 18.93 20.662 1 43.79 0 N6 ADP 501 A 1 HETATM 24 N N1 ADP . . . B 2 18.222 18.522 21.823 1 44.34 0 N1 ADP 501 A 1 HETATM 25 C C2 ADP . . . B 2 16.91 18.271 21.776 1 41.86 0 C2 ADP 501 A 1 HETATM 26 N N3 ADP . . . B 2 16.124 18.102 20.717 1 48.64 0 N3 ADP 501 A 1 HETATM 27 C C4 ADP . . . B 2 16.799 18.28 19.567 1 50.83 0 C4 ADP 501 A 1 HETATM 28 H "H5'1" ADP . . . B 2 15.182 17.378 14.109 1 52.8 0 "H5'1" ADP 501 A 1 HETATM 29 H "H5'2" ADP . . . B 2 14.228 18.569 13.621 1 53.08 0 "H5'2" ADP 501 A 1 HETATM 30 H H4' ADP . . . B 2 13.255 17.931 15.53 1 57.11 0 H4' ADP 501 A 1 HETATM 31 H H3' ADP . . . B 2 14.864 20.191 16.129 1 50.9 0 H3' ADP 501 A 1 HETATM 32 H H2' ADP . . . B 2 14.6 19.994 18.376 1 48.31 0 H2' ADP 501 A 1 HETATM 33 H H1' ADP . . . B 2 14.503 17.369 18.542 1 52.18 0 H1' ADP 501 A 1 HETATM 34 H H8 ADP . . . B 2 17.339 18.434 16.527 1 49.35 0 H8 ADP 501 A 1 HETATM 35 H HN61 ADP . . . B 2 20.547 19.431 21.293 1 44.75 0 HN61 ADP 501 A 1 HETATM 36 H HN62 ADP . . . B 2 20.712 18.577 20.042 1 44.53 0 HN62 ADP 501 A 1 HETATM 37 H H2 ADP . . . B 2 16.486 18.172 22.615 1 44.9 0 H2 ADP 501 A 1 # _model_server_stats.io_time_ms 37 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 37 #