data_2PZF # _model_server_result.job_id jKqoj-qToHCN86lXO3ionQ _model_server_result.datetime_utc '2024-11-29 04:36:16' _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 2pzf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1}' # _entry.id 2PZF # _exptl.entry_id 2PZF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 2PZF _cell.length_a 43.152 _cell.length_b 92.662 _cell.length_c 106.471 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2PZF _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 PISA,PQS dimeric 2 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 1 A,B,C,D,E,F,G,H 3 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 ? 3 D N N ? 3 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 covale ? covale1 A C GLY 19 A GLY 404 1_555 A N GLY 20 A GLY 437 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale2 B C GLY 19 B GLY 404 1_555 B N GLY 20 B GLY 437 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 2PZF _atom_sites.fract_transf_matrix[1][1] 0.023174 _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] 0.010792 _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] 0.009392 _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 MG A 1 3 3 MG MG . D 3 ATP A 1 1 1 ATP ATP . E 2 MG B 1 4 4 MG MG . F 3 ATP B 1 2 2 ATP ATP . G 4 HOH A 1 647 5 HOH HOH . G 4 HOH A 2 648 6 HOH HOH . G 4 HOH A 3 649 9 HOH HOH . G 4 HOH A 4 650 13 HOH HOH . G 4 HOH A 5 651 15 HOH HOH . G 4 HOH A 6 652 17 HOH HOH . G 4 HOH A 7 653 18 HOH HOH . G 4 HOH A 8 654 20 HOH HOH . G 4 HOH A 9 655 21 HOH HOH . G 4 HOH A 10 656 22 HOH HOH . G 4 HOH A 11 657 23 HOH HOH . G 4 HOH A 12 658 24 HOH HOH . G 4 HOH A 13 659 25 HOH HOH . G 4 HOH A 14 660 26 HOH HOH . G 4 HOH A 15 661 30 HOH HOH . G 4 HOH A 16 662 31 HOH HOH . G 4 HOH A 17 663 32 HOH HOH . G 4 HOH A 18 664 34 HOH HOH . G 4 HOH A 19 665 35 HOH HOH . G 4 HOH A 20 666 38 HOH HOH . G 4 HOH A 21 667 40 HOH HOH . G 4 HOH A 22 668 42 HOH HOH . G 4 HOH A 23 669 45 HOH HOH . G 4 HOH A 24 670 47 HOH HOH . G 4 HOH A 25 671 48 HOH HOH . G 4 HOH A 26 672 49 HOH HOH . G 4 HOH A 27 673 50 HOH HOH . G 4 HOH A 28 674 52 HOH HOH . G 4 HOH A 29 675 56 HOH HOH . G 4 HOH A 30 676 60 HOH HOH . G 4 HOH A 31 677 61 HOH HOH . G 4 HOH A 32 678 62 HOH HOH . G 4 HOH A 33 679 65 HOH HOH . G 4 HOH A 34 680 69 HOH HOH . G 4 HOH A 35 681 70 HOH HOH . G 4 HOH A 36 682 75 HOH HOH . G 4 HOH A 37 683 77 HOH HOH . G 4 HOH A 38 684 78 HOH HOH . G 4 HOH A 39 685 79 HOH HOH . G 4 HOH A 40 686 81 HOH HOH . G 4 HOH A 41 687 82 HOH HOH . G 4 HOH A 42 688 83 HOH HOH . G 4 HOH A 43 689 84 HOH HOH . G 4 HOH A 44 690 86 HOH HOH . G 4 HOH A 45 691 87 HOH HOH . G 4 HOH A 46 692 92 HOH HOH . G 4 HOH A 47 693 93 HOH HOH . G 4 HOH A 48 694 95 HOH HOH . G 4 HOH A 49 695 97 HOH HOH . G 4 HOH A 50 696 98 HOH HOH . G 4 HOH A 51 697 101 HOH HOH . G 4 HOH A 52 698 103 HOH HOH . G 4 HOH A 53 699 105 HOH HOH . G 4 HOH A 54 700 109 HOH HOH . G 4 HOH A 55 701 110 HOH HOH . G 4 HOH A 56 702 111 HOH HOH . G 4 HOH A 57 703 113 HOH HOH . G 4 HOH A 58 704 114 HOH HOH . G 4 HOH A 59 705 115 HOH HOH . G 4 HOH A 60 706 116 HOH HOH . G 4 HOH A 61 707 120 HOH HOH . G 4 HOH A 62 708 124 HOH HOH . G 4 HOH A 63 709 126 HOH HOH . G 4 HOH A 64 710 127 HOH HOH . G 4 HOH A 65 711 128 HOH HOH . G 4 HOH A 66 712 130 HOH HOH . G 4 HOH A 67 713 131 HOH HOH . G 4 HOH A 68 714 132 HOH HOH . G 4 HOH A 69 715 133 HOH HOH . H 4 HOH B 1 647 7 HOH HOH . H 4 HOH B 2 648 8 HOH HOH . H 4 HOH B 3 649 10 HOH HOH . H 4 HOH B 4 650 11 HOH HOH . H 4 HOH B 5 651 12 HOH HOH . H 4 HOH B 6 652 14 HOH HOH . H 4 HOH B 7 653 16 HOH HOH . H 4 HOH B 8 654 19 HOH HOH . H 4 HOH B 9 655 27 HOH HOH . H 4 HOH B 10 656 28 HOH HOH . H 4 HOH B 11 657 29 HOH HOH . H 4 HOH B 12 658 33 HOH HOH . H 4 HOH B 13 659 36 HOH HOH . H 4 HOH B 14 660 37 HOH HOH . H 4 HOH B 15 661 39 HOH HOH . H 4 HOH B 16 662 41 HOH HOH . H 4 HOH B 17 663 43 HOH HOH . H 4 HOH B 18 664 44 HOH HOH . H 4 HOH B 19 665 46 HOH HOH . H 4 HOH B 20 666 51 HOH HOH . H 4 HOH B 21 667 53 HOH HOH . H 4 HOH B 22 668 54 HOH HOH . H 4 HOH B 23 669 55 HOH HOH . H 4 HOH B 24 670 57 HOH HOH . H 4 HOH B 25 671 58 HOH HOH . H 4 HOH B 26 672 59 HOH HOH . H 4 HOH B 27 673 63 HOH HOH . H 4 HOH B 28 674 64 HOH HOH . H 4 HOH B 29 675 66 HOH HOH . H 4 HOH B 30 676 67 HOH HOH . H 4 HOH B 31 677 68 HOH HOH . H 4 HOH B 32 678 71 HOH HOH . H 4 HOH B 33 679 72 HOH HOH . H 4 HOH B 34 680 73 HOH HOH . H 4 HOH B 35 681 74 HOH HOH . H 4 HOH B 36 682 76 HOH HOH . H 4 HOH B 37 683 80 HOH HOH . H 4 HOH B 38 684 85 HOH HOH . H 4 HOH B 39 685 88 HOH HOH . H 4 HOH B 40 686 89 HOH HOH . H 4 HOH B 41 687 90 HOH HOH . H 4 HOH B 42 688 91 HOH HOH . H 4 HOH B 43 689 94 HOH HOH . H 4 HOH B 44 690 96 HOH HOH . H 4 HOH B 45 691 99 HOH HOH . H 4 HOH B 46 692 100 HOH HOH . H 4 HOH B 47 693 102 HOH HOH . H 4 HOH B 48 694 104 HOH HOH . H 4 HOH B 49 695 106 HOH HOH . H 4 HOH B 50 696 107 HOH HOH . H 4 HOH B 51 697 108 HOH HOH . H 4 HOH B 52 698 112 HOH HOH . H 4 HOH B 53 699 117 HOH HOH . H 4 HOH B 54 700 118 HOH HOH . H 4 HOH B 55 701 119 HOH HOH . H 4 HOH B 56 702 121 HOH HOH . H 4 HOH B 57 703 122 HOH HOH . H 4 HOH B 58 704 123 HOH HOH . H 4 HOH B 59 705 125 HOH HOH . H 4 HOH B 60 706 129 HOH HOH . H 4 HOH B 61 707 134 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 PG ATP . . . D 3 4.644 11.482 66.028 1 16.44 ? PG ATP 1 A 1 HETATM 2 O O1G ATP . . . D 3 3.188 11.541 66.423 1 16.93 ? O1G ATP 1 A 1 HETATM 3 O O2G ATP . . . D 3 5.392 10.262 66.558 1 17.01 ? O2G ATP 1 A 1 HETATM 4 O O3G ATP . . . D 3 4.901 11.77 64.571 1 20.3 ? O3G ATP 1 A 1 HETATM 5 P PB ATP . . . D 3 5.827 13.01 68.293 1 16.46 ? PB ATP 1 A 1 HETATM 6 O O1B ATP . . . D 3 4.845 14.011 68.862 1 16 ? O1B ATP 1 A 1 HETATM 7 O O2B ATP . . . D 3 6.084 11.716 68.98 1 16.92 ? O2B ATP 1 A 1 HETATM 8 O O3B ATP . . . D 3 5.375 12.756 66.733 1 16.31 ? O3B ATP 1 A 1 HETATM 9 P PA ATP . . . D 3 8.649 13.591 68.64 1 17.8 ? PA ATP 1 A 1 HETATM 10 O O1A ATP . . . D 3 9.164 12.274 68.18 1 18.77 ? O1A ATP 1 A 1 HETATM 11 O O2A ATP . . . D 3 8.641 13.973 70.088 1 15.84 ? O2A ATP 1 A 1 HETATM 12 O O3A ATP . . . D 3 7.173 13.844 68.05 1 15.84 ? O3A ATP 1 A 1 HETATM 13 O O5' ATP . . . D 3 9.368 14.737 67.819 1 18.69 ? O5' ATP 1 A 1 HETATM 14 C C5' ATP . . . D 3 9.266 16.118 68.23 1 20.94 ? C5' ATP 1 A 1 HETATM 15 C C4' ATP . . . D 3 10.319 16.886 67.434 1 24.33 ? C4' ATP 1 A 1 HETATM 16 O O4' ATP . . . D 3 11.609 16.615 67.979 1 23.25 ? O4' ATP 1 A 1 HETATM 17 C C3' ATP . . . D 3 10.364 16.415 65.977 1 26.32 ? C3' ATP 1 A 1 HETATM 18 O O3' ATP . . . D 3 10.576 17.515 65.107 1 28.57 ? O3' ATP 1 A 1 HETATM 19 C C2' ATP . . . D 3 11.576 15.525 65.871 1 28.14 ? C2' ATP 1 A 1 HETATM 20 O O2' ATP . . . D 3 12.238 15.67 64.618 1 31.89 ? O2' ATP 1 A 1 HETATM 21 C C1' ATP . . . D 3 12.456 15.972 67.018 1 29.83 ? C1' ATP 1 A 1 HETATM 22 N N9 ATP . . . D 3 13.111 14.8 67.643 1 29.94 ? N9 ATP 1 A 1 HETATM 23 C C8 ATP . . . D 3 12.522 13.701 68.142 1 29.74 ? C8 ATP 1 A 1 HETATM 24 N N7 ATP . . . D 3 13.449 12.848 68.639 1 30.87 ? N7 ATP 1 A 1 HETATM 25 C C5 ATP . . . D 3 14.66 13.409 68.459 1 31.39 ? C5 ATP 1 A 1 HETATM 26 C C6 ATP . . . D 3 16.071 13.057 68.756 1 33.28 ? C6 ATP 1 A 1 HETATM 27 N N6 ATP . . . D 3 16.394 11.886 69.364 1 31.95 ? N6 ATP 1 A 1 HETATM 28 N N1 ATP . . . D 3 17.021 13.947 68.386 1 32.29 ? N1 ATP 1 A 1 HETATM 29 C C2 ATP . . . D 3 16.742 15.119 67.775 1 32.09 ? C2 ATP 1 A 1 HETATM 30 N N3 ATP . . . D 3 15.484 15.496 67.484 1 32.23 ? N3 ATP 1 A 1 HETATM 31 C C4 ATP . . . D 3 14.431 14.694 67.793 1 30.79 ? C4 ATP 1 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 31 #