data_4NL4 # _model_server_result.job_id pOb1JEngGH8qaVJDKYR3og _model_server_result.datetime_utc '2024-12-13 12:23:23' _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 4nl4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":801}' # _entry.id 4NL4 # _exptl.entry_id 4NL4 _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 120 _cell.entry_id 4NL4 _cell.length_a 85.433 _cell.length_b 85.433 _cell.length_c 111.682 _cell.Z_PDB 3 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4NL4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 145 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32' # _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,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 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 metalc ? metalc1 A SG CYS 451 H CYS 435 1_555 D ZN ZN . H ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc2 A SG CYS 454 H CYS 438 1_555 D ZN ZN . H ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc3 A SG CYS 460 H CYS 444 1_555 C ZN ZN . H ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc4 A SG CYS 463 H CYS 447 1_555 C ZN ZN . H ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.393 ? metalc ? metalc5 A SG CYS 478 H CYS 462 1_555 C ZN ZN . H ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? metalc ? metalc6 A SG CYS 481 H CYS 465 1_555 C ZN ZN . H ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc7 A SG CYS 491 H CYS 475 1_555 D ZN ZN . H ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc8 A SG CYS 494 H CYS 478 1_555 D ZN ZN . H ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? # _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 4NL4 _atom_sites.fract_transf_matrix[1][1] 0.011705 _atom_sites.fract_transf_matrix[1][2] 0.006758 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013516 _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] 0.008954 _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 H 1 801 800 ADP ADP . C 3 ZN H 1 802 1 ZN ZN . D 3 ZN H 1 803 2 ZN ZN . E 4 HOH H 1 901 5 HOH HOH . E 4 HOH H 2 902 19 HOH HOH . E 4 HOH H 3 903 20 HOH HOH . E 4 HOH H 4 904 33 HOH HOH . E 4 HOH H 5 905 34 HOH HOH . E 4 HOH H 6 906 57 HOH HOH . E 4 HOH H 7 907 85 HOH HOH . E 4 HOH H 8 908 94 HOH HOH . E 4 HOH H 9 909 97 HOH HOH . E 4 HOH H 10 910 98 HOH HOH . E 4 HOH H 11 911 102 HOH HOH . E 4 HOH H 12 912 117 HOH HOH . E 4 HOH H 13 913 138 HOH HOH . E 4 HOH H 14 914 142 HOH HOH . E 4 HOH H 15 915 143 HOH HOH . E 4 HOH H 16 916 147 HOH HOH . E 4 HOH H 17 917 157 HOH HOH . E 4 HOH H 18 918 158 HOH HOH . E 4 HOH H 19 919 160 HOH HOH . E 4 HOH H 20 920 161 HOH HOH . E 4 HOH H 21 921 162 HOH HOH . E 4 HOH H 22 922 163 HOH HOH . E 4 HOH H 23 923 164 HOH HOH . E 4 HOH H 24 924 165 HOH HOH . E 4 HOH H 25 925 166 HOH HOH . E 4 HOH H 26 926 167 HOH HOH . E 4 HOH H 27 927 168 HOH HOH . E 4 HOH H 28 928 169 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 15.888 -3.142 -7.761 1 81.74 ? PB ADP 801 H 1 HETATM 2 O O1B ADP . . . B 2 16.836 -4.225 -8.218 1 82.77 ? O1B ADP 801 H 1 HETATM 3 O O2B ADP . . . B 2 15.791 -2.974 -6.265 1 79.76 ? O2B ADP 801 H 1 HETATM 4 O O3B ADP . . . B 2 14.556 -3.145 -8.472 1 81.92 ? O3B ADP 801 H 1 HETATM 5 P PA ADP . . . B 2 16.784 -1.366 -9.754 1 89.18 ? PA ADP 801 H 1 HETATM 6 O O1A ADP . . . B 2 17.938 -0.401 -9.845 1 88.92 ? O1A ADP 801 H 1 HETATM 7 O O2A ADP . . . B 2 16.794 -2.611 -10.605 1 89.45 ? O2A ADP 801 H 1 HETATM 8 O O3A ADP . . . B 2 16.62 -1.786 -8.213 1 87.21 ? O3A ADP 801 H 1 HETATM 9 O O5' ADP . . . B 2 15.413 -0.548 -9.985 1 101.02 ? O5' ADP 801 H 1 HETATM 10 C C5' ADP . . . B 2 14.311 -1.072 -10.735 1 113.08 ? C5' ADP 801 H 1 HETATM 11 C C4' ADP . . . B 2 14.203 -0.352 -12.075 1 121.93 ? C4' ADP 801 H 1 HETATM 12 O O4' ADP . . . B 2 14.384 1.057 -11.893 1 126.4 ? O4' ADP 801 H 1 HETATM 13 C C3' ADP . . . B 2 15.273 -0.831 -13.043 1 126.08 ? C3' ADP 801 H 1 HETATM 14 O O3' ADP . . . B 2 14.671 -1.203 -14.288 1 126.97 ? O3' ADP 801 H 1 HETATM 15 C C2' ADP . . . B 2 16.239 0.333 -13.201 1 129.04 ? C2' ADP 801 H 1 HETATM 16 O O2' ADP . . . B 2 16.504 0.609 -14.582 1 130.44 ? O2' ADP 801 H 1 HETATM 17 C C1' ADP . . . B 2 15.574 1.535 -12.534 1 129.65 ? C1' ADP 801 H 1 HETATM 18 N N9 ADP . . . B 2 16.462 2.193 -11.529 1 131.27 ? N9 ADP 801 H 1 HETATM 19 C C8 ADP . . . B 2 16.143 2.413 -10.238 1 131.7 ? C8 ADP 801 H 1 HETATM 20 N N7 ADP . . . B 2 17.147 3.036 -9.571 1 133.94 ? N7 ADP 801 H 1 HETATM 21 C C5 ADP . . . B 2 18.146 3.237 -10.449 1 134.9 ? C5 ADP 801 H 1 HETATM 22 C C6 ADP . . . B 2 19.501 3.847 -10.406 1 137.04 ? C6 ADP 801 H 1 HETATM 23 N N6 ADP . . . B 2 19.994 4.379 -9.259 1 134.68 ? N6 ADP 801 H 1 HETATM 24 N N1 ADP . . . B 2 20.228 3.855 -11.551 1 138.25 ? N1 ADP 801 H 1 HETATM 25 C C2 ADP . . . B 2 19.753 3.331 -12.701 1 134.13 ? C2 ADP 801 H 1 HETATM 26 N N3 ADP . . . B 2 18.534 2.764 -12.808 1 134.08 ? N3 ADP 801 H 1 HETATM 27 C C4 ADP . . . B 2 17.693 2.685 -11.74 1 133.81 ? C4 ADP 801 H 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #