data_6F3F # _model_server_result.job_id csW1TtuY3_1Mbk2h6k7e2w _model_server_result.datetime_utc '2025-02-05 15:54:30' _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 6f3f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 6F3F # _exptl.entry_id 6F3F _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 6F3F _cell.length_a 51.011 _cell.length_b 82.974 _cell.length_c 105.051 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6F3F _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _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 _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 GLN 448 A GLN 526 1_555 A N PTR 449 A PTR 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C PTR 449 A PTR 527 1_555 A N GLN 450 A GLN 528 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? metalc ? metalc1 A OD1 ASN 313 A ASN 391 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.533 ? metalc ? metalc2 A OD2 ASP 326 A ASP 404 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc3 B O3B ADP . A ADP 601 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc4 B O2A ADP . A ADP 601 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? # _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 6F3F _atom_sites.fract_transf_matrix[1][1] 0.019604 _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] 0.012052 _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] 0.009519 _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 1 601 1 ADP ADP . C 3 MG A 1 602 1 MG MG . D 4 HOH A 1 701 57 HOH HOH . D 4 HOH A 2 702 56 HOH HOH . D 4 HOH A 3 703 54 HOH HOH . D 4 HOH A 4 704 5 HOH HOH . D 4 HOH A 5 705 19 HOH HOH . D 4 HOH A 6 706 79 HOH HOH . D 4 HOH A 7 707 34 HOH HOH . D 4 HOH A 8 708 52 HOH HOH . D 4 HOH A 9 709 15 HOH HOH . D 4 HOH A 10 710 8 HOH HOH . D 4 HOH A 11 711 28 HOH HOH . D 4 HOH A 12 712 20 HOH HOH . D 4 HOH A 13 713 75 HOH HOH . D 4 HOH A 14 714 11 HOH HOH . D 4 HOH A 15 715 87 HOH HOH . D 4 HOH A 16 716 35 HOH HOH . D 4 HOH A 17 717 3 HOH HOH . D 4 HOH A 18 718 6 HOH HOH . D 4 HOH A 19 719 51 HOH HOH . D 4 HOH A 20 720 71 HOH HOH . D 4 HOH A 21 721 69 HOH HOH . D 4 HOH A 22 722 30 HOH HOH . D 4 HOH A 23 723 74 HOH HOH . D 4 HOH A 24 724 7 HOH HOH . D 4 HOH A 25 725 2 HOH HOH . D 4 HOH A 26 726 25 HOH HOH . D 4 HOH A 27 727 26 HOH HOH . D 4 HOH A 28 728 58 HOH HOH . D 4 HOH A 29 729 23 HOH HOH . D 4 HOH A 30 730 13 HOH HOH . D 4 HOH A 31 731 17 HOH HOH . D 4 HOH A 32 732 38 HOH HOH . D 4 HOH A 33 733 55 HOH HOH . D 4 HOH A 34 734 14 HOH HOH . D 4 HOH A 35 735 36 HOH HOH . D 4 HOH A 36 736 46 HOH HOH . D 4 HOH A 37 737 72 HOH HOH . D 4 HOH A 38 738 40 HOH HOH . D 4 HOH A 39 739 48 HOH HOH . D 4 HOH A 40 740 27 HOH HOH . D 4 HOH A 41 741 83 HOH HOH . D 4 HOH A 42 742 1 HOH HOH . D 4 HOH A 43 743 37 HOH HOH . D 4 HOH A 44 744 45 HOH HOH . D 4 HOH A 45 745 10 HOH HOH . D 4 HOH A 46 746 86 HOH HOH . D 4 HOH A 47 747 41 HOH HOH . D 4 HOH A 48 748 31 HOH HOH . D 4 HOH A 49 749 76 HOH HOH . D 4 HOH A 50 750 32 HOH HOH . D 4 HOH A 51 751 4 HOH HOH . D 4 HOH A 52 752 9 HOH HOH . D 4 HOH A 53 753 60 HOH HOH . D 4 HOH A 54 754 77 HOH HOH . D 4 HOH A 55 755 12 HOH HOH . D 4 HOH A 56 756 78 HOH HOH . D 4 HOH A 57 757 50 HOH HOH . D 4 HOH A 58 758 64 HOH HOH . D 4 HOH A 59 759 22 HOH HOH . D 4 HOH A 60 760 82 HOH HOH . D 4 HOH A 61 761 18 HOH HOH . D 4 HOH A 62 762 53 HOH HOH . D 4 HOH A 63 763 73 HOH HOH . D 4 HOH A 64 764 67 HOH HOH . D 4 HOH A 65 765 16 HOH HOH . D 4 HOH A 66 766 66 HOH HOH . D 4 HOH A 67 767 81 HOH HOH . D 4 HOH A 68 768 24 HOH HOH . D 4 HOH A 69 769 33 HOH HOH . D 4 HOH A 70 770 42 HOH HOH . D 4 HOH A 71 771 29 HOH HOH . D 4 HOH A 72 772 65 HOH HOH . D 4 HOH A 73 773 44 HOH HOH . D 4 HOH A 74 774 59 HOH HOH . D 4 HOH A 75 775 49 HOH HOH . D 4 HOH A 76 776 47 HOH HOH . D 4 HOH A 77 777 21 HOH HOH . D 4 HOH A 78 778 43 HOH HOH . D 4 HOH A 79 779 85 HOH HOH . D 4 HOH A 80 780 62 HOH HOH . D 4 HOH A 81 781 70 HOH HOH . D 4 HOH A 82 782 61 HOH HOH . D 4 HOH A 83 783 63 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 29.181 78.038 103.922 1 76.34 ? PB ADP 601 A 1 HETATM 2 O O1B ADP . . . B 2 30.245 77.951 102.854 1 84.91 ? O1B ADP 601 A 1 HETATM 3 O O2B ADP . . . B 2 28.076 79.032 103.654 1 74.01 ? O2B ADP 601 A 1 HETATM 4 O O3B ADP . . . B 2 29.74 78.1 105.321 1 71.14 ? O3B ADP 601 A 1 HETATM 5 P PA ADP . . . B 2 28.247 75.57 105.02 1 77.97 ? PA ADP 601 A 1 HETATM 6 O O1A ADP . . . B 2 28.707 74.214 104.538 1 82.29 ? O1A ADP 601 A 1 HETATM 7 O O2A ADP . . . B 2 28.76 76.117 106.33 1 84.92 ? O2A ADP 601 A 1 HETATM 8 O O3A ADP . . . B 2 28.397 76.635 103.82 1 77.89 ? O3A ADP 601 A 1 HETATM 9 O O5' ADP . . . B 2 26.641 75.547 105.12 1 79.88 ? O5' ADP 601 A 1 HETATM 10 C C5' ADP . . . B 2 25.88 75.041 104.028 1 86.37 ? C5' ADP 601 A 1 HETATM 11 C C4' ADP . . . B 2 24.404 75.394 104.178 1 92.98 ? C4' ADP 601 A 1 HETATM 12 O O4' ADP . . . B 2 23.808 74.568 105.179 1 91.91 ? O4' ADP 601 A 1 HETATM 13 C C3' ADP . . . B 2 24.145 76.844 104.565 1 102.69 ? C3' ADP 601 A 1 HETATM 14 O O3' ADP . . . B 2 23.734 77.608 103.427 1 108.15 ? O3' ADP 601 A 1 HETATM 15 C C2' ADP . . . B 2 23.052 76.788 105.614 1 101.89 ? C2' ADP 601 A 1 HETATM 16 O O2' ADP . . . B 2 21.81 77.275 105.099 1 107.63 ? O2' ADP 601 A 1 HETATM 17 C C1' ADP . . . B 2 22.918 75.326 105.997 1 90.48 ? C1' ADP 601 A 1 HETATM 18 N N9 ADP . . . B 2 23.309 75.171 107.411 1 79.55 ? N9 ADP 601 A 1 HETATM 19 C C8 ADP . . . B 2 24.578 75.175 107.863 1 76.84 ? C8 ADP 601 A 1 HETATM 20 N N7 ADP . . . B 2 24.603 75.016 109.206 1 73.95 ? N7 ADP 601 A 1 HETATM 21 C C5 ADP . . . B 2 23.328 74.913 109.622 1 74.3 ? C5 ADP 601 A 1 HETATM 22 C C6 ADP . . . B 2 22.657 74.729 110.919 1 67.71 ? C6 ADP 601 A 1 HETATM 23 N N6 ADP . . . B 2 23.404 74.63 112.036 1 67.28 ? N6 ADP 601 A 1 HETATM 24 N N1 ADP . . . B 2 21.305 74.673 110.94 1 60.88 ? N1 ADP 601 A 1 HETATM 25 C C2 ADP . . . B 2 20.573 74.776 109.813 1 59.72 ? C2 ADP 601 A 1 HETATM 26 N N3 ADP . . . B 2 21.128 74.942 108.599 1 61.44 ? N3 ADP 601 A 1 HETATM 27 C C4 ADP . . . B 2 22.472 75.018 108.437 1 72.99 ? C4 ADP 601 A 1 HETATM 28 H "H5'1" ADP . . . B 2 26.261 75.46 103.094 1 103.68 ? "H5'1" ADP 601 A 1 HETATM 29 H "H5'2" ADP . . . B 2 25.991 73.956 103.978 1 103.68 ? "H5'2" ADP 601 A 1 HETATM 30 H H4' ADP . . . B 2 23.909 75.206 103.214 1 111.62 ? H4' ADP 601 A 1 HETATM 31 H H3' ADP . . . B 2 25.055 77.271 105.009 1 123.28 ? H3' ADP 601 A 1 HETATM 32 H HO3' ADP . . . B 2 23.575 78.524 103.693 1 129.82 ? HO3' ADP 601 A 1 HETATM 33 H H2' ADP . . . B 2 23.36 77.369 106.495 1 122.31 ? H2' ADP 601 A 1 HETATM 34 H HO2' ADP . . . B 2 21.91 78.2 104.837 1 129.2 ? HO2' ADP 601 A 1 HETATM 35 H H1' ADP . . . B 2 21.88 75 105.844 1 108.63 ? H1' ADP 601 A 1 HETATM 36 H H8 ADP . . . B 2 25.456 75.284 107.237 1 92.25 ? H8 ADP 601 A 1 HETATM 37 H HN61 ADP . . . B 2 22.957 74.505 112.933 1 80.78 ? HN61 ADP 601 A 1 HETATM 38 H HN62 ADP . . . B 2 24.411 74.679 111.976 1 80.78 ? HN62 ADP 601 A 1 HETATM 39 H H2 ADP . . . B 2 19.494 74.721 109.888 1 71.7 ? H2 ADP 601 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 346 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 39 #