data_3K5L # _model_server_result.job_id ccANmB3S3DYmyKChNF8IFg _model_server_result.datetime_utc '2025-04-25 01:42:20' _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 3k5l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1002}' # _entry.id 3K5L # _exptl.entry_id 3K5L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MAGNESIUM ION' _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 3K5L _cell.length_a 79.974 _cell.length_b 101.198 _cell.length_c 121.717 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3K5L _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 # 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 B O3' DT 3 T DT 803 1_555 B P 3DR 4 T 3DR 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.62 ? covale ? covale2 B O3' 3DR 4 T 3DR 804 1_555 B P DG 5 T DG 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.614 ? covale ? covale3 C O3' DA 12 P DA 912 1_555 C P DOC 13 P DOC 913 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.606 ? metalc ? metalc1 A OD1 ASP 422 A ASP 419 1_555 E MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc2 A OD2 ASP 422 A ASP 419 1_555 F MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.803 ? metalc ? metalc3 A O TYR 423 A TYR 420 1_555 E MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.872 ? metalc ? metalc4 A OD2 ASP 550 A ASP 547 1_555 E MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc5 A OD1 ASP 550 A ASP 547 1_555 F MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.544 ? metalc ? metalc6 D O1A DTP . A DTP 914 1_555 E MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc7 D O1G DTP . A DTP 914 1_555 E MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc8 D O1B DTP . A DTP 914 1_555 E MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? hydrog WATSON-CRICK hydrog1 B N1 DG 5 T DG 805 1_555 C N3 DOC 13 P DOC 913 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N2 DG 5 T DG 805 1_555 C O2 DOC 13 P DOC 913 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B O6 DG 5 T DG 805 1_555 C N4 DOC 13 P DOC 913 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N3 DT 6 T DT 806 1_555 C N1 DA 12 P DA 912 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B O4 DT 6 T DT 806 1_555 C N6 DA 12 P DA 912 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DA-DT PAIR' hydrog6 B N1 DA 7 T DA 807 1_555 C N3 DT 11 P DT 911 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B N3 DC 8 T DC 808 1_555 C N1 DG 10 P DG 910 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N4 DC 8 T DC 808 1_555 C O6 DG 10 P DG 910 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B O2 DC 8 T DC 808 1_555 C N2 DG 10 P DG 910 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B N1 DG 9 T DG 809 1_555 C N3 DC 9 P DC 909 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 B N2 DG 9 T DG 809 1_555 C O2 DC 9 P DC 909 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 B O6 DG 9 T DG 809 1_555 C N4 DC 9 P DC 909 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 B N3 DC 10 T DC 810 1_555 C N1 DG 8 P DG 908 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 B N4 DC 10 T DC 810 1_555 C O6 DG 8 P DG 908 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 B O2 DC 10 T DC 810 1_555 C N2 DG 8 P DG 908 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DT-DA PAIR' hydrog16 B N3 DT 11 T DT 811 1_555 C N1 DA 7 P DA 907 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 B N1 DA 12 T DA 812 1_555 C N3 DT 6 P DT 906 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 B N6 DA 12 T DA 812 1_555 C O4 DT 6 P DT 906 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog19 B N1 DG 13 T DG 813 1_555 C N3 DC 5 P DC 905 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog20 B N1 DG 14 T DG 814 1_555 C N3 DC 4 P DC 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 B N3 DC 15 T DC 815 1_555 C N1 DG 3 P DG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 B N4 DC 15 T DC 815 1_555 C O6 DG 3 P DG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 B O2 DC 15 T DC 815 1_555 C N2 DG 3 P DG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 B N1 DA 16 T DA 816 1_555 C N3 DT 2 P DT 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 B N6 DA 16 T DA 816 1_555 C O4 DT 2 P DT 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 B N3 DC 17 T DC 817 1_555 C N1 DG 1 P DG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 B N4 DC 17 T DC 817 1_555 C O6 DG 1 P DG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 B O2 DC 17 T DC 817 1_555 C N2 DG 1 P DG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'Mg 2' _chem_comp.formula_weight 24.305 _chem_comp.id MG _chem_comp.mon_nstd_flag . _chem_comp.name 'MAGNESIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3K5L _atom_sites.fract_transf_matrix[1][1] 0.012504 _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] 0.009882 _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] 0.008216 _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 DTP A 1 914 914 DTP DTP . E 5 MG A 1 1001 1001 MG MG . F 5 MG A 1 1002 1002 MG MG . G 6 HOH A 1 784 784 HOH HOH . G 6 HOH A 2 785 785 HOH HOH . G 6 HOH A 3 786 786 HOH HOH . G 6 HOH A 4 787 787 HOH HOH . G 6 HOH A 5 788 788 HOH HOH . G 6 HOH A 6 789 789 HOH HOH . G 6 HOH A 7 790 790 HOH HOH . G 6 HOH A 8 791 791 HOH HOH . G 6 HOH A 9 792 792 HOH HOH . G 6 HOH A 10 793 793 HOH HOH . G 6 HOH A 11 794 794 HOH HOH . G 6 HOH A 12 795 795 HOH HOH . G 6 HOH A 13 798 798 HOH HOH . G 6 HOH A 14 800 800 HOH HOH . G 6 HOH A 15 801 801 HOH HOH . G 6 HOH A 16 802 802 HOH HOH . G 6 HOH A 17 803 803 HOH HOH . G 6 HOH A 18 804 804 HOH HOH . G 6 HOH A 19 805 805 HOH HOH . G 6 HOH A 20 806 806 HOH HOH . G 6 HOH A 21 807 807 HOH HOH . G 6 HOH A 22 808 808 HOH HOH . G 6 HOH A 23 809 809 HOH HOH . G 6 HOH A 24 810 810 HOH HOH . G 6 HOH A 25 811 811 HOH HOH . G 6 HOH A 26 812 812 HOH HOH . G 6 HOH A 27 813 813 HOH HOH . G 6 HOH A 28 814 814 HOH HOH . G 6 HOH A 29 818 818 HOH HOH . G 6 HOH A 30 819 819 HOH HOH . G 6 HOH A 31 820 820 HOH HOH . G 6 HOH A 32 821 821 HOH HOH . G 6 HOH A 33 822 822 HOH HOH . G 6 HOH A 34 823 823 HOH HOH . G 6 HOH A 35 824 824 HOH HOH . G 6 HOH A 36 825 825 HOH HOH . G 6 HOH A 37 826 826 HOH HOH . G 6 HOH A 38 827 827 HOH HOH . G 6 HOH A 39 828 828 HOH HOH . G 6 HOH A 40 829 829 HOH HOH . G 6 HOH A 41 830 830 HOH HOH . G 6 HOH A 42 831 831 HOH HOH . G 6 HOH A 43 832 832 HOH HOH . G 6 HOH A 44 833 833 HOH HOH . G 6 HOH A 45 834 834 HOH HOH . G 6 HOH A 46 835 835 HOH HOH . G 6 HOH A 47 836 836 HOH HOH . G 6 HOH A 48 837 837 HOH HOH . G 6 HOH A 49 839 839 HOH HOH . G 6 HOH A 50 841 841 HOH HOH . G 6 HOH A 51 843 843 HOH HOH . G 6 HOH A 52 844 844 HOH HOH . G 6 HOH A 53 845 845 HOH HOH . G 6 HOH A 54 846 846 HOH HOH . G 6 HOH A 55 847 847 HOH HOH . G 6 HOH A 56 848 848 HOH HOH . G 6 HOH A 57 849 849 HOH HOH . G 6 HOH A 58 850 850 HOH HOH . G 6 HOH A 59 852 852 HOH HOH . G 6 HOH A 60 853 853 HOH HOH . G 6 HOH A 61 856 856 HOH HOH . G 6 HOH A 62 857 857 HOH HOH . G 6 HOH A 63 859 859 HOH HOH . G 6 HOH A 64 860 860 HOH HOH . H 6 HOH T 1 1 1 HOH HOH . H 6 HOH T 2 3 3 HOH HOH . H 6 HOH T 3 15 15 HOH HOH . H 6 HOH T 4 47 47 HOH HOH . H 6 HOH T 5 65 65 HOH HOH . H 6 HOH T 6 84 84 HOH HOH . H 6 HOH T 7 86 86 HOH HOH . H 6 HOH T 8 89 89 HOH HOH . I 6 HOH P 1 16 16 HOH HOH . I 6 HOH P 2 72 72 HOH HOH . I 6 HOH P 3 76 76 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MG _atom_site.label_atom_id MG _atom_site.label_comp_id MG _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 18.561 _atom_site.Cartn_y 14.238 _atom_site.Cartn_z 10.069 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 17.93 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 1002 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #