data_5KT3 # _model_server_result.job_id YPrDcsfI5cHjsYxYOZHBZQ _model_server_result.datetime_utc '2024-10-12 10:16:05' _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 5kt3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":503}' # _entry.id 5KT3 # _exptl.entry_id 5KT3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 54.938 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MANGANESE (II) ION' _entity.pdbx_number_of_molecules 3 _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 5KT3 _cell.length_a 97.829 _cell.length_b 97.829 _cell.length_c 202.887 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KT3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 ? 5 E N N ? 5 F N N ? 5 G 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 OP1 DC 6 P DC 872 1_555 G MN MN . A MN 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.623 ? metalc ? metalc2 B O3' DC 7 P DC 873 1_555 F MN MN . A MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc3 C OD2 ASP 34 A ASP 59 1_555 E MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? metalc ? metalc4 C OD1 ASP 34 A ASP 59 1_555 F MN MN . A MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc5 C O LEU 35 A LEU 60 1_555 E MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc6 C OD2 ASP 126 A ASP 151 1_555 E MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? metalc ? metalc7 C OD1 ASP 126 A ASP 151 1_555 F MN MN . A MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? metalc ? metalc8 C OE2 GLU 127 A GLU 152 1_555 F MN MN . A MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc9 C O LYS 237 A LYS 262 1_555 G MN MN . A MN 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? metalc ? metalc10 C O ILE 242 A ILE 267 1_555 G MN MN . A MN 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.548 ? metalc ? metalc11 D O1G 0KX . A 0KX 501 1_555 E MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? metalc ? metalc12 D O2B 0KX . A 0KX 501 1_555 E MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.96 ? metalc ? metalc13 D O2A 0KX . A 0KX 501 1_555 E MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc14 D O2A 0KX . A 0KX 501 1_555 F MN MN . A MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? hydrog WATSON-CRICK hydrog1 A N1 DG 4 T DG 841 1_555 B N3 DC 7 P DC 873 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 4 T DG 841 1_555 B O2 DC 7 P DC 873 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 4 T DG 841 1_555 B N4 DC 7 P DC 873 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DG 5 T DG 842 1_555 B N3 DC 6 P DC 872 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N2 DG 5 T DG 842 1_555 B O2 DC 6 P DC 872 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O6 DG 5 T DG 842 1_555 B N4 DC 6 P DC 872 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N1 DG 6 T DG 843 1_555 B N3 DC 5 P DC 871 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N2 DG 6 T DG 843 1_555 B O2 DC 5 P DC 871 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O6 DG 6 T DG 843 1_555 B N4 DC 5 P DC 871 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N3 DT 7 T DT 844 1_555 B N1 DA 4 P DA 870 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A O4 DT 7 T DT 844 1_555 B N6 DA 4 P DA 870 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N3 DC 8 T DC 845 1_555 B N1 DG 3 P DG 869 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N4 DC 8 T DC 845 1_555 B O6 DG 3 P DG 869 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A O2 DC 8 T DC 845 1_555 B N2 DG 3 P DG 869 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N3 DC 9 T DC 846 1_555 B N1 DG 2 P DG 868 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N4 DC 9 T DC 846 1_555 B O6 DG 2 P DG 868 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A O2 DC 9 T DC 846 1_555 B N2 DG 2 P DG 868 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N3 DT 10 T DT 847 1_555 B N1 DA 1 P DA 867 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O4 DT 10 T DT 847 1_555 B N6 DA 1 P DA 867 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'Mn 2' _chem_comp.formula_weight 54.938 _chem_comp.id MN _chem_comp.mon_nstd_flag . _chem_comp.name 'MANGANESE (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5KT3 _atom_sites.fract_transf_matrix[1][1] 0.010222 _atom_sites.fract_transf_matrix[1][2] 0.005902 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011803 _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] 0.004929 _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 D 4 0KX A 1 501 501 0KX 0KX . E 5 MN A 1 502 502 MN MN . F 5 MN A 1 503 503 MN MN . G 5 MN A 1 504 504 MN MN . H 6 HOH T 1 901 655 HOH HOH . H 6 HOH T 2 902 656 HOH HOH . H 6 HOH T 3 903 605 HOH HOH . H 6 HOH T 4 904 632 HOH HOH . H 6 HOH T 5 905 654 HOH HOH . H 6 HOH T 6 906 659 HOH HOH . H 6 HOH T 7 907 650 HOH HOH . I 6 HOH P 1 901 611 HOH HOH . J 6 HOH A 1 601 620 HOH HOH . J 6 HOH A 2 602 663 HOH HOH . J 6 HOH A 3 603 608 HOH HOH . J 6 HOH A 4 604 614 HOH HOH . J 6 HOH A 5 605 619 HOH HOH . J 6 HOH A 6 606 640 HOH HOH . J 6 HOH A 7 607 642 HOH HOH . J 6 HOH A 8 608 601 HOH HOH . J 6 HOH A 9 609 604 HOH HOH . J 6 HOH A 10 610 609 HOH HOH . J 6 HOH A 11 611 603 HOH HOH . J 6 HOH A 12 612 628 HOH HOH . J 6 HOH A 13 613 610 HOH HOH . J 6 HOH A 14 614 602 HOH HOH . J 6 HOH A 15 615 648 HOH HOH . J 6 HOH A 16 616 623 HOH HOH . J 6 HOH A 17 617 624 HOH HOH . J 6 HOH A 18 618 665 HOH HOH . J 6 HOH A 19 619 630 HOH HOH . J 6 HOH A 20 620 645 HOH HOH . J 6 HOH A 21 621 612 HOH HOH . J 6 HOH A 22 622 606 HOH HOH . J 6 HOH A 23 623 621 HOH HOH . J 6 HOH A 24 624 615 HOH HOH . J 6 HOH A 25 625 636 HOH HOH . J 6 HOH A 26 626 635 HOH HOH . J 6 HOH A 27 627 622 HOH HOH . J 6 HOH A 28 628 660 HOH HOH . J 6 HOH A 29 629 662 HOH HOH . J 6 HOH A 30 630 637 HOH HOH . J 6 HOH A 31 631 629 HOH HOH . J 6 HOH A 32 632 644 HOH HOH . J 6 HOH A 33 633 627 HOH HOH . J 6 HOH A 34 634 618 HOH HOH . J 6 HOH A 35 635 639 HOH HOH . J 6 HOH A 36 636 647 HOH HOH . J 6 HOH A 37 637 625 HOH HOH . J 6 HOH A 38 638 633 HOH HOH . J 6 HOH A 39 639 638 HOH HOH . J 6 HOH A 40 640 657 HOH HOH . J 6 HOH A 41 641 616 HOH HOH . J 6 HOH A 42 642 649 HOH HOH . J 6 HOH A 43 643 658 HOH HOH . J 6 HOH A 44 644 651 HOH HOH . J 6 HOH A 45 645 607 HOH HOH . J 6 HOH A 46 646 617 HOH HOH . J 6 HOH A 47 647 643 HOH HOH . J 6 HOH A 48 648 664 HOH HOH . J 6 HOH A 49 649 626 HOH HOH . J 6 HOH A 50 650 631 HOH HOH . J 6 HOH A 51 651 652 HOH HOH . J 6 HOH A 52 652 661 HOH HOH . J 6 HOH A 53 653 646 HOH HOH . J 6 HOH A 54 654 634 HOH HOH . J 6 HOH A 55 655 641 HOH HOH . J 6 HOH A 56 656 613 HOH HOH . J 6 HOH A 57 657 653 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MN _atom_site.label_atom_id MN _atom_site.label_comp_id MN _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id F _atom_site.label_entity_id 5 _atom_site.Cartn_x 5.166 _atom_site.Cartn_y 22.601 _atom_site.Cartn_z 13.725 _atom_site.occupancy 0.63 _atom_site.B_iso_or_equiv 50.15 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MN _atom_site.auth_comp_id MN _atom_site.auth_seq_id 503 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 335 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #