data_8SZR # _model_server_result.job_id tgRJPXRjFY_CKq2gZAVpmg _model_server_result.datetime_utc '2024-12-21 18:22:49' _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 8szr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1301}' # _entry.id 8SZR # _exptl.entry_id 8SZR _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 90 _cell.entry_id 8SZR _cell.length_a 85.29 _cell.length_b 85.29 _cell.length_c 352.1 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SZR _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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,E,F,G,H,I,J _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 metalc ? metalc1 A OG1 THR 270 A THR 419 1_555 C MG MG . A MG 1302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.986 ? metalc ? metalc2 A OE2 GLU 364 A GLU 513 1_555 C MG MG . A MG 1302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc3 B O1B ADP . A ADP 1301 1_555 C MG MG . A MG 1302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? metalc ? metalc4 C MG MG . A MG 1302 1_555 J O HOH . A HOH 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? metalc ? metalc5 C MG MG . A MG 1302 1_555 J O HOH . A HOH 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? metalc ? metalc6 C MG MG . A MG 1302 1_555 J O HOH . A HOH 1403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? # _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 8SZR _atom_sites.fract_transf_matrix[1][1] 0.011725 _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] 0.011725 _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] 0.00284 _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 1301 1301 ADP ADP . C 3 MG A 1 1302 1311 MG MG . D 4 SO4 A 1 1303 1401 SO4 SO4 . E 4 SO4 A 1 1304 1402 SO4 SO4 . F 4 SO4 A 1 1305 1403 SO4 SO4 . G 4 SO4 A 1 1306 1404 SO4 SO4 . H 4 SO4 A 1 1307 1405 SO4 SO4 . I 4 SO4 A 1 1308 1406 SO4 SO4 . J 5 HOH A 1 1401 1503 HOH HOH . J 5 HOH A 2 1402 1501 HOH HOH . J 5 HOH A 3 1403 1502 HOH HOH . J 5 HOH A 4 1404 1505 HOH HOH . J 5 HOH A 5 1405 1504 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 -34.776 -3.282 -20.472 1 99.84 0 PB ADP 1301 A 1 HETATM 2 O O1B ADP . . . B 2 -33.377 -2.688 -20.574 1 102.71 0 O1B ADP 1301 A 1 HETATM 3 O O2B ADP . . . B 2 -34.773 -4.793 -20.446 1 94.41 0 O2B ADP 1301 A 1 HETATM 4 O O3B ADP . . . B 2 -35.576 -2.674 -19.345 1 87.67 0 O3B ADP 1301 A 1 HETATM 5 P PA ADP . . . B 2 -35.157 -2.165 -23.179 1 100.8 0 PA ADP 1301 A 1 HETATM 6 O O1A ADP . . . B 2 -33.784 -2.617 -23.546 1 118.36 0 O1A ADP 1301 A 1 HETATM 7 O O2A ADP . . . B 2 -35.389 -0.704 -22.962 1 90.93 0 O2A ADP 1301 A 1 HETATM 8 O O3A ADP . . . B 2 -35.568 -2.947 -21.843 1 99.23 0 O3A ADP 1301 A 1 HETATM 9 O O5' ADP . . . B 2 -36.194 -2.728 -24.27 1 103.28 0 O5' ADP 1301 A 1 HETATM 10 C C5' ADP . . . B 2 -37.616 -2.751 -23.988 1 109.86 0 C5' ADP 1301 A 1 HETATM 11 C C4' ADP . . . B 2 -38.372 -3.246 -25.198 1 110.57 0 C4' ADP 1301 A 1 HETATM 12 O O4' ADP . . . B 2 -37.84 -2.59 -26.372 1 108.04 0 O4' ADP 1301 A 1 HETATM 13 C C3' ADP . . . B 2 -38.306 -4.759 -25.468 1 113.84 0 C3' ADP 1301 A 1 HETATM 14 O O3' ADP . . . B 2 -39.605 -5.34 -25.461 1 120.35 0 O3' ADP 1301 A 1 HETATM 15 C C2' ADP . . . B 2 -37.656 -4.895 -26.85 1 115.62 0 C2' ADP 1301 A 1 HETATM 16 O O2' ADP . . . B 2 -38.341 -5.824 -27.664 1 120.08 0 O2' ADP 1301 A 1 HETATM 17 C C1' ADP . . . B 2 -37.76 -3.495 -27.443 1 114.92 0 C1' ADP 1301 A 1 HETATM 18 N N9 ADP . . . B 2 -36.6 -3.122 -28.24 1 128.77 0 N9 ADP 1301 A 1 HETATM 19 C C8 ADP . . . B 2 -35.372 -2.745 -27.759 1 132.13 0 C8 ADP 1301 A 1 HETATM 20 N N7 ADP . . . B 2 -34.511 -2.456 -28.701 1 135.9 0 N7 ADP 1301 A 1 HETATM 21 C C5 ADP . . . B 2 -35.215 -2.655 -29.88 1 137.55 0 C5 ADP 1301 A 1 HETATM 22 C C6 ADP . . . B 2 -34.849 -2.517 -31.232 1 141.01 0 C6 ADP 1301 A 1 HETATM 23 N N6 ADP . . . B 2 -33.641 -2.133 -31.632 1 143.84 0 N6 ADP 1301 A 1 HETATM 24 N N1 ADP . . . B 2 -35.792 -2.793 -32.165 1 146.49 0 N1 ADP 1301 A 1 HETATM 25 C C2 ADP . . . B 2 -37.007 -3.179 -31.753 1 145.7 0 C2 ADP 1301 A 1 HETATM 26 N N3 ADP . . . B 2 -37.462 -3.345 -30.514 1 147.38 0 N3 ADP 1301 A 1 HETATM 27 C C4 ADP . . . B 2 -36.506 -3.065 -29.61 1 141.73 0 C4 ADP 1301 A 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 48 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 1131 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #