data_2F1J # _model_server_result.job_id V7_wvDALiuoOtHehL6gxXw _model_server_result.datetime_utc '2024-10-18 16:24:07' _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 2f1j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 2F1J # _exptl.entry_id 2F1J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _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 2F1J _cell.length_a 82.974 _cell.length_b 82.974 _cell.length_c 105.89 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2F1J _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _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 _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 3 _struct_asym.id D _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 O GLN 98 A GLN 98 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc2 A OG1 THR 112 A THR 112 1_555 B MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc3 A OD1 ASP 246 A ASP 246 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? metalc ? metalc4 D O1B ADP . A ADP 401 1_555 B MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? metalc ? metalc5 B MG MG . A MG 501 1_555 E O HOH . A HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? metalc ? metalc6 B MG MG . A MG 501 1_555 E O HOH . A HOH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc7 B MG MG . A MG 501 1_555 E O HOH . A HOH 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc8 B MG MG . A MG 501 1_555 E O HOH . A HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.922 ? metalc ? metalc9 C MG MG . A MG 502 1_555 E O HOH . A HOH 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc10 C MG MG . A MG 502 1_555 E O HOH . A HOH 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? metalc ? metalc11 C MG MG . A MG 502 1_555 E O HOH . A HOH 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.821 ? metalc ? metalc12 C MG MG . A MG 502 1_555 E O HOH . A HOH 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? # _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 2F1J _atom_sites.fract_transf_matrix[1][1] 0.012052 _atom_sites.fract_transf_matrix[1][2] 0.006958 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013916 _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] 0.009444 _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 MG A 1 501 501 MG MG . C 2 MG A 1 502 502 MG MG . D 3 ADP A 1 401 401 ADP ADP . E 4 HOH A 1 601 601 HOH TIP . E 4 HOH A 2 602 602 HOH TIP . E 4 HOH A 3 603 603 HOH TIP . E 4 HOH A 4 604 604 HOH TIP . E 4 HOH A 5 605 605 HOH TIP . E 4 HOH A 6 606 606 HOH TIP . E 4 HOH A 7 607 607 HOH TIP . E 4 HOH A 8 608 608 HOH TIP . E 4 HOH A 9 611 611 HOH TIP . E 4 HOH A 10 612 612 HOH TIP . E 4 HOH A 11 613 613 HOH TIP . E 4 HOH A 12 614 614 HOH TIP . E 4 HOH A 13 615 615 HOH TIP . E 4 HOH A 14 616 616 HOH TIP . E 4 HOH A 15 617 617 HOH TIP . E 4 HOH A 16 618 618 HOH TIP . E 4 HOH A 17 619 619 HOH TIP . E 4 HOH A 18 620 620 HOH TIP . E 4 HOH A 19 621 621 HOH TIP . E 4 HOH A 20 622 622 HOH TIP . E 4 HOH A 21 623 623 HOH TIP . E 4 HOH A 22 624 624 HOH TIP . E 4 HOH A 23 625 625 HOH TIP . E 4 HOH A 24 626 626 HOH TIP . E 4 HOH A 25 627 627 HOH TIP . E 4 HOH A 26 628 628 HOH TIP . E 4 HOH A 27 629 629 HOH TIP . E 4 HOH A 28 630 630 HOH TIP . E 4 HOH A 29 631 631 HOH TIP . E 4 HOH A 30 632 632 HOH TIP . E 4 HOH A 31 633 633 HOH TIP . E 4 HOH A 32 634 634 HOH TIP . E 4 HOH A 33 635 635 HOH TIP . E 4 HOH A 34 636 636 HOH TIP . E 4 HOH A 35 637 637 HOH TIP . E 4 HOH A 36 638 638 HOH TIP . E 4 HOH A 37 639 639 HOH TIP . E 4 HOH A 38 640 640 HOH TIP . E 4 HOH A 39 641 641 HOH TIP . E 4 HOH A 40 642 642 HOH TIP . E 4 HOH A 41 643 643 HOH TIP . E 4 HOH A 42 644 644 HOH TIP . E 4 HOH A 43 645 645 HOH TIP . E 4 HOH A 44 646 646 HOH TIP . E 4 HOH A 45 647 647 HOH TIP . E 4 HOH A 46 648 648 HOH TIP . E 4 HOH A 47 649 649 HOH TIP . E 4 HOH A 48 650 650 HOH TIP . E 4 HOH A 49 651 651 HOH TIP . E 4 HOH A 50 652 652 HOH TIP . E 4 HOH A 51 653 653 HOH TIP . E 4 HOH A 52 654 654 HOH TIP . E 4 HOH A 53 655 655 HOH TIP . E 4 HOH A 54 656 656 HOH TIP . E 4 HOH A 55 657 657 HOH TIP . E 4 HOH A 56 658 658 HOH TIP . E 4 HOH A 57 659 659 HOH TIP . E 4 HOH A 58 660 660 HOH TIP . E 4 HOH A 59 661 661 HOH TIP . E 4 HOH A 60 662 662 HOH TIP . E 4 HOH A 61 663 663 HOH TIP . E 4 HOH A 62 664 664 HOH TIP . E 4 HOH A 63 665 665 HOH TIP . E 4 HOH A 64 666 666 HOH TIP . E 4 HOH A 65 667 667 HOH TIP . E 4 HOH A 66 668 668 HOH TIP . E 4 HOH A 67 669 669 HOH TIP . # 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 . . . D 3 28.213 56.475 -10.59 1 30.82 ? PB ADP 401 A 1 HETATM 2 O O1B ADP . . . D 3 27.361 56.017 -9.466 1 27.09 ? O1B ADP 401 A 1 HETATM 3 O O2B ADP . . . D 3 29.581 56.018 -10.379 1 26.79 ? O2B ADP 401 A 1 HETATM 4 O O3B ADP . . . D 3 28.171 58.085 -10.662 1 30.21 ? O3B ADP 401 A 1 HETATM 5 P PA ADP . . . D 3 26.546 54.778 -12.122 1 31.35 ? PA ADP 401 A 1 HETATM 6 O O1A ADP . . . D 3 26.751 53.684 -11.071 1 29.31 ? O1A ADP 401 A 1 HETATM 7 O O2A ADP . . . D 3 25.221 55.406 -11.951 1 33.66 ? O2A ADP 401 A 1 HETATM 8 O O3A ADP . . . D 3 27.699 55.899 -11.999 1 32.64 ? O3A ADP 401 A 1 HETATM 9 O O5' ADP . . . D 3 26.665 54.088 -13.617 1 35.47 ? O5' ADP 401 A 1 HETATM 10 C C5' ADP . . . D 3 26.353 54.838 -14.893 1 38.38 ? C5' ADP 401 A 1 HETATM 11 C C4' ADP . . . D 3 26.58 54.019 -15.927 1 41.69 ? C4' ADP 401 A 1 HETATM 12 O O4' ADP . . . D 3 25.921 52.728 -15.673 1 40.61 ? O4' ADP 401 A 1 HETATM 13 C C3' ADP . . . D 3 25.819 54.533 -17.185 1 41.1 ? C3' ADP 401 A 1 HETATM 14 O O3' ADP . . . D 3 26.297 55.71 -17.709 1 48.5 ? O3' ADP 401 A 1 HETATM 15 C C2' ADP . . . D 3 25.529 53.254 -18.003 1 41.22 ? C2' ADP 401 A 1 HETATM 16 O O2' ADP . . . D 3 26.691 53.067 -18.998 1 48.66 ? O2' ADP 401 A 1 HETATM 17 C C1' ADP . . . D 3 25.585 52.138 -16.949 1 39.05 ? C1' ADP 401 A 1 HETATM 18 N N9 ADP . . . D 3 24.367 51.578 -16.893 1 37.34 ? N9 ADP 401 A 1 HETATM 19 C C8 ADP . . . D 3 23.321 51.889 -15.994 1 36.16 ? C8 ADP 401 A 1 HETATM 20 N N7 ADP . . . D 3 22.296 51.15 -16.256 1 32.26 ? N7 ADP 401 A 1 HETATM 21 C C5 ADP . . . D 3 22.594 50.34 -17.304 1 33.79 ? C5 ADP 401 A 1 HETATM 22 C C6 ADP . . . D 3 21.89 49.376 -17.994 1 32.68 ? C6 ADP 401 A 1 HETATM 23 N N6 ADP . . . D 3 20.611 49.087 -17.645 1 32.45 ? N6 ADP 401 A 1 HETATM 24 N N1 ADP . . . D 3 22.517 48.697 -19.069 1 34.28 ? N1 ADP 401 A 1 HETATM 25 C C2 ADP . . . D 3 23.862 48.998 -19.445 1 35.88 ? C2 ADP 401 A 1 HETATM 26 N N3 ADP . . . D 3 24.582 49.949 -18.784 1 36.73 ? N3 ADP 401 A 1 HETATM 27 C C4 ADP . . . D 3 23.896 50.599 -17.708 1 35.93 ? C4 ADP 401 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #