data_5OQU # _model_server_result.job_id G1qJ712DsRjurzI654Lz4g _model_server_result.datetime_utc '2024-11-24 10:49:10' _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 5oqu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 5OQU # _exptl.entry_id 5OQU _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 2 _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 5OQU _cell.length_a 64.668 _cell.length_b 67.922 _cell.length_c 332.804 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5OQU _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # _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,G,H,I,J,K,L,M,N,O,P _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 F N 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 B OD1 ASN 184 A ASN 161 1_555 H MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.599 ? metalc ? metalc2 B OD2 ASP 198 A ASP 175 1_555 H MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc3 F O1B ADP . A ADP 401 1_555 H MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.681 ? metalc ? metalc4 F O1A ADP . A ADP 401 1_555 H MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc5 F O2A ADP . A ADP 401 1_555 I MG MG . A MG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.581 ? # _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 39 n n PB O2B ADP sing 40 n n PB O3B ADP sing 41 n n PB O3A ADP sing 42 n n O2B HOB2 ADP sing 43 n n O3B HOB3 ADP sing 44 n n PA O1A ADP doub 45 n n PA O2A ADP sing 46 n n PA O3A ADP sing 47 n n PA O5' ADP sing 48 n n O2A HOA2 ADP sing 49 n n O5' C5' ADP sing 50 n n C5' C4' ADP sing 51 n n C5' "H5'1" ADP sing 52 n n C5' "H5'2" ADP sing 53 n n C4' O4' ADP sing 54 n n C4' C3' ADP sing 55 n n C4' H4' ADP sing 56 n n O4' C1' ADP sing 57 n n C3' O3' ADP sing 58 n n C3' C2' ADP sing 59 n n C3' H3' ADP sing 60 n n O3' HO3' ADP sing 61 n n C2' O2' ADP sing 62 n n C2' C1' ADP sing 63 n n C2' H2' ADP sing 64 n n O2' HO2' ADP sing 65 n n C1' N9 ADP sing 66 n n C1' H1' ADP sing 67 n n N9 C8 ADP sing 68 n y N9 C4 ADP sing 69 n y C8 N7 ADP doub 70 n y C8 H8 ADP sing 71 n n N7 C5 ADP sing 72 n y C5 C6 ADP sing 73 n y C5 C4 ADP doub 74 n y C6 N6 ADP sing 75 n n C6 N1 ADP doub 76 n y N6 HN61 ADP sing 77 n n N6 HN62 ADP sing 78 n n N1 C2 ADP sing 79 n y C2 N3 ADP doub 80 n y C2 H2 ADP sing 81 n n N3 C4 ADP sing 82 n y # _atom_sites.entry_id 5OQU _atom_sites.fract_transf_matrix[1][1] 0.015464 _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] 0.014723 _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] 0.003005 _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 C 2 ADP B 1 401 2 ADP ADP . D 3 ACT B 1 402 4 ACT ACT . E 3 ACT B 1 403 5 ACT ACT . F 2 ADP A 1 401 1 ADP ADP . G 4 A4B A 1 402 1 A4B LC5 . H 5 MG A 1 403 1 MG MG . I 5 MG A 1 404 2 MG MG . J 3 ACT A 1 405 1 ACT ACT . K 3 ACT A 1 406 2 ACT ACT . L 3 ACT A 1 407 3 ACT ACT . M 6 IHP A 1 408 1 IHP I6P . N 7 CL A 1 409 1 CL CL . O 8 HOH B 1 501 13 HOH HOH . O 8 HOH B 2 502 5 HOH HOH . P 8 HOH A 1 501 6 HOH HOH . P 8 HOH A 2 502 9 HOH HOH . P 8 HOH A 3 503 11 HOH HOH . P 8 HOH A 4 504 15 HOH HOH . P 8 HOH A 5 505 14 HOH HOH . P 8 HOH A 6 506 4 HOH HOH . P 8 HOH A 7 507 2 HOH HOH . P 8 HOH A 8 508 7 HOH HOH . P 8 HOH A 9 509 8 HOH HOH . P 8 HOH A 10 510 10 HOH HOH . P 8 HOH A 11 511 3 HOH HOH . P 8 HOH A 12 512 16 HOH HOH . P 8 HOH A 13 513 12 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 2 38.499 118.582 392.289 1 126.53 ? PB ADP 401 B 1 HETATM 2 O O1B ADP . . . C 2 37.605 117.499 391.794 1 126.93 ? O1B ADP 401 B 1 HETATM 3 O O2B ADP . . . C 2 39.916 118.154 392.472 1 126.26 ? O2B ADP 401 B 1 HETATM 4 O O3B ADP . . . C 2 37.963 119.339 393.457 1 128.18 ? O3B ADP 401 B 1 HETATM 5 P PA ADP . . . C 2 37.504 120.822 390.831 1 121.03 ? PA ADP 401 B 1 HETATM 6 O O1A ADP . . . C 2 36.933 120.735 389.46 1 120.26 ? O1A ADP 401 B 1 HETATM 7 O O2A ADP . . . C 2 36.61 120.953 392.013 1 122.72 ? O2A ADP 401 B 1 HETATM 8 O O3A ADP . . . C 2 38.525 119.62 391.074 1 124.08 ? O3A ADP 401 B 1 HETATM 9 O O5' ADP . . . C 2 38.484 122.067 390.889 1 117.05 ? O5' ADP 401 B 1 HETATM 10 C C5' ADP . . . C 2 39.27 122.185 392.058 1 113.68 ? C5' ADP 401 B 1 HETATM 11 C C4' ADP . . . C 2 39.574 123.638 392.318 1 110.59 ? C4' ADP 401 B 1 HETATM 12 O O4' ADP . . . C 2 40.12 124.173 391.142 1 108.32 ? O4' ADP 401 B 1 HETATM 13 C C3' ADP . . . C 2 38.357 124.479 392.582 1 110.72 ? C3' ADP 401 B 1 HETATM 14 O O3' ADP . . . C 2 38.095 124.563 393.978 1 112.03 ? O3' ADP 401 B 1 HETATM 15 C C2' ADP . . . C 2 38.759 125.829 392.05 1 108.58 ? C2' ADP 401 B 1 HETATM 16 O O2' ADP . . . C 2 39.526 126.552 393.003 1 107.64 ? O2' ADP 401 B 1 HETATM 17 C C1' ADP . . . C 2 39.683 125.494 390.925 1 106.13 ? C1' ADP 401 B 1 HETATM 18 N N9 ADP . . . C 2 38.884 125.504 389.701 1 101.9 ? N9 ADP 401 B 1 HETATM 19 C C8 ADP . . . C 2 38.327 124.455 389.103 1 98.99 ? C8 ADP 401 B 1 HETATM 20 N N7 ADP . . . C 2 37.655 124.842 387.999 1 97.34 ? N7 ADP 401 B 1 HETATM 21 C C5 ADP . . . C 2 37.788 126.159 387.887 1 98.15 ? C5 ADP 401 B 1 HETATM 22 C C6 ADP . . . C 2 37.349 127.209 386.962 1 97.66 ? C6 ADP 401 B 1 HETATM 23 N N6 ADP . . . C 2 36.599 126.965 385.881 1 96.92 ? N6 ADP 401 B 1 HETATM 24 N N1 ADP . . . C 2 37.714 128.457 387.235 1 99.27 ? N1 ADP 401 B 1 HETATM 25 C C2 ADP . . . C 2 38.46 128.776 388.293 1 99.53 ? C2 ADP 401 B 1 HETATM 26 N N3 ADP . . . C 2 38.901 127.882 389.166 1 99.91 ? N3 ADP 401 B 1 HETATM 27 C C4 ADP . . . C 2 38.597 126.584 389.016 1 100.26 ? C4 ADP 401 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 390 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #