data_4PL0 # _model_server_result.job_id cdB3aOlQKCoDwzBaWHv4UQ _model_server_result.datetime_utc '2024-11-13 10:37:04' _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 4pl0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":601}' # _entry.id 4PL0 # _exptl.entry_id 4PL0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 4PL0 _cell.length_a 80.83 _cell.length_b 107.92 _cell.length_c 232.96 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PL0 _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 Dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 2 C N N ? 2 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 metalc ? metalc1 A OG SER 385 A SER 385 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.925 ? metalc ? metalc2 A OE1 GLN 426 A GLN 426 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.965 ? metalc ? metalc3 C O1G ANP . A ANP 601 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.463 ? metalc ? metalc4 C O1B ANP . A ANP 601 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.904 ? metalc ? metalc5 B OG SER 385 B SER 385 1_555 G MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.926 ? metalc ? metalc6 B OE1 GLN 426 B GLN 426 1_555 G MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc7 F O1G ANP . B ANP 601 1_555 G MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.301 ? metalc ? metalc8 F O1B ANP . B ANP 601 1_555 G MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.512 ? # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 ANP doub 13 n n PG O2G ANP sing 14 n n PG O3G ANP sing 15 n n PG N3B ANP sing 16 n n O2G HOG2 ANP sing 17 n n O3G HOG3 ANP sing 18 n n PB O1B ANP doub 19 n n PB O2B ANP sing 20 n n PB N3B ANP sing 21 n n PB O3A ANP sing 22 n n O2B HOB2 ANP sing 23 n n N3B HNB1 ANP sing 24 n n PA O1A ANP doub 25 n n PA O2A ANP sing 26 n n PA O3A ANP sing 27 n n PA O5' ANP sing 28 n n O2A HOA2 ANP sing 29 n n O5' C5' ANP sing 30 n n C5' C4' ANP sing 31 n n C5' "H5'1" ANP sing 32 n n C5' "H5'2" ANP sing 33 n n C4' O4' ANP sing 34 n n C4' C3' ANP sing 35 n n C4' H4' ANP sing 36 n n O4' C1' ANP sing 37 n n C3' O3' ANP sing 38 n n C3' C2' ANP sing 39 n n C3' H3' ANP sing 40 n n O3' HO3' ANP sing 41 n n C2' O2' ANP sing 42 n n C2' C1' ANP sing 43 n n C2' H2' ANP sing 44 n n O2' HO2' ANP sing 45 n n C1' N9 ANP sing 46 n n C1' H1' ANP sing 47 n n N9 C8 ANP sing 48 n y N9 C4 ANP sing 49 n y C8 N7 ANP doub 50 n y C8 H8 ANP sing 51 n n N7 C5 ANP sing 52 n y C5 C6 ANP sing 53 n y C5 C4 ANP doub 54 n y C6 N6 ANP sing 55 n n C6 N1 ANP doub 56 n y N6 HN61 ANP sing 57 n n N6 HN62 ANP sing 58 n n N1 C2 ANP sing 59 n y C2 N3 ANP doub 60 n y C2 H2 ANP sing 61 n n N3 C4 ANP sing 62 n y # _atom_sites.entry_id 4PL0 _atom_sites.fract_transf_matrix[1][1] 0.012372 _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] 0.009266 _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] 0.004293 _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 ANP A 1 601 1 ANP ANP . D 3 MG A 1 602 1 MG MG . E 4 BNG A 1 603 1 BNG BNG . F 2 ANP B 1 601 1 ANP ANP . G 3 MG B 1 602 1 MG MG . H 4 BNG B 1 603 1 BNG BNG . # 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 ANP . . . F 2 -17.475 -8.633 9.38 1 84.84 ? PG ANP 601 B 1 HETATM 2 O O1G ANP . . . F 2 -17.365 -9.267 7.939 1 88.25 ? O1G ANP 601 B 1 HETATM 3 O O2G ANP . . . F 2 -16.748 -9.796 10.101 1 87.69 ? O2G ANP 601 B 1 HETATM 4 O O3G ANP . . . F 2 -18.91 -8.411 9.682 1 87.19 ? O3G ANP 601 B 1 HETATM 5 P PB ANP . . . F 2 -17.121 -5.717 9.572 1 85.56 ? PB ANP 601 B 1 HETATM 6 O O1B ANP . . . F 2 -16.243 -4.858 8.572 1 89.02 ? O1B ANP 601 B 1 HETATM 7 O O2B ANP . . . F 2 -18.575 -5.515 9.416 1 87.09 ? O2B ANP 601 B 1 HETATM 8 N N3B ANP . . . F 2 -16.554 -7.282 9.512 1 81.47 ? N3B ANP 601 B 1 HETATM 9 P PA ANP . . . F 2 -16.829 -4.449 12.265 1 86.43 ? PA ANP 601 B 1 HETATM 10 O O1A ANP . . . F 2 -17.694 -3.197 11.994 1 82.04 ? O1A ANP 601 B 1 HETATM 11 O O2A ANP . . . F 2 -17.411 -5.489 13.151 1 91.2 ? O2A ANP 601 B 1 HETATM 12 O O3A ANP . . . F 2 -16.616 -5.043 10.852 1 86.93 ? O3A ANP 601 B 1 HETATM 13 O O5' ANP . . . F 2 -15.419 -3.841 12.756 1 81.35 ? O5' ANP 601 B 1 HETATM 14 C C5' ANP . . . F 2 -14.409 -3.287 11.899 1 81.39 ? C5' ANP 601 B 1 HETATM 15 C C4' ANP . . . F 2 -13.101 -3.254 12.654 1 86.49 ? C4' ANP 601 B 1 HETATM 16 O O4' ANP . . . F 2 -13.302 -2.698 13.97 1 89.8 ? O4' ANP 601 B 1 HETATM 17 C C3' ANP . . . F 2 -12.357 -4.58 12.832 1 88.12 ? C3' ANP 601 B 1 HETATM 18 O O3' ANP . . . F 2 -10.975 -4.48 12.504 1 88.3 ? O3' ANP 601 B 1 HETATM 19 C C2' ANP . . . F 2 -12.565 -4.931 14.309 1 89.25 ? C2' ANP 601 B 1 HETATM 20 O O2' ANP . . . F 2 -11.395 -5.512 14.87 1 88.84 ? O2' ANP 601 B 1 HETATM 21 C C1' ANP . . . F 2 -12.804 -3.569 14.967 1 91.19 ? C1' ANP 601 B 1 HETATM 22 N N9 ANP . . . F 2 -13.771 -3.611 16.065 1 92.79 ? N9 ANP 601 B 1 HETATM 23 C C8 ANP . . . F 2 -15.049 -4.107 16.019 1 91.67 ? C8 ANP 601 B 1 HETATM 24 N N7 ANP . . . F 2 -15.701 -4.009 17.152 1 91.6 ? N7 ANP 601 B 1 HETATM 25 C C5 ANP . . . F 2 -14.791 -3.403 18.004 1 93.49 ? C5 ANP 601 B 1 HETATM 26 C C6 ANP . . . F 2 -14.876 -3.004 19.354 1 94.39 ? C6 ANP 601 B 1 HETATM 27 N N6 ANP . . . F 2 -15.984 -3.117 20.089 1 94.72 ? N6 ANP 601 B 1 HETATM 28 N N1 ANP . . . F 2 -13.778 -2.439 19.913 1 94.26 ? N1 ANP 601 B 1 HETATM 29 C C2 ANP . . . F 2 -12.68 -2.281 19.163 1 94.45 ? C2 ANP 601 B 1 HETATM 30 N N3 ANP . . . F 2 -12.491 -2.598 17.876 1 93.91 ? N3 ANP 601 B 1 HETATM 31 C C4 ANP . . . F 2 -13.593 -3.159 17.35 1 93.62 ? C4 ANP 601 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #