data_8TO4 # _model_server_result.job_id HIb3ePJyPCMPbFtIVzoJoQ _model_server_result.datetime_utc '2024-11-16 07:31:01' _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 8to4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1102}' # _entry.id 8TO4 # _exptl.entry_id 8TO4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 101.24 _cell.angle_gamma 90 _cell.entry_id 8TO4 _cell.length_a 72.346 _cell.length_b 103.109 _cell.length_c 86.867 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8TO4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,G,O 1 1 B,H,I,P 2 1 C,J,K,Q 3 1 D,L,M,N,R 4 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 ? 3 F N N ? 3 I N N ? 3 K N N ? 3 M 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 OD1 ASN 148 D ASN 842 1_555 E MG MG . D MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? metalc ? metalc2 A OD2 ASP 161 D ASP 855 1_555 E MG MG . D MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc3 E MG MG . D MG 1101 1_555 F O1A ANP . D ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.843 ? metalc ? metalc4 E MG MG . D MG 1101 1_555 F O3A ANP . D ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? metalc ? metalc5 E MG MG . D MG 1101 1_555 F O2G ANP . D ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.777 ? metalc ? metalc6 E MG MG . D MG 1101 1_555 O O HOH . D HOH 1209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? metalc ? metalc7 B OD1 ASN 148 A ASN 842 1_555 H MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc8 B OD2 ASP 161 A ASP 855 1_555 H MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.796 ? metalc ? metalc9 H MG MG . A MG 1101 1_555 I O2G ANP . A ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.911 ? metalc ? metalc10 H MG MG . A MG 1101 1_555 I O2A ANP . A ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.693 ? metalc ? metalc11 H MG MG . A MG 1101 1_555 P O HOH . A HOH 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.947 ? metalc ? metalc12 C OD1 ASN 148 B ASN 842 1_555 J MG MG . B MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? metalc ? metalc13 C OD2 ASP 161 B ASP 855 1_555 J MG MG . B MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc14 J MG MG . B MG 1101 1_555 K O1G ANP . B ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.941 ? metalc ? metalc15 J MG MG . B MG 1101 1_555 K O1A ANP . B ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.872 ? metalc ? metalc16 D OD1 ASN 148 C ASN 842 1_555 L MG MG . C MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.653 ? metalc ? metalc17 D OD2 ASP 161 C ASP 855 1_555 L MG MG . C MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.784 ? metalc ? metalc18 L MG MG . C MG 1101 1_555 M O2A ANP . C ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc19 L MG MG . C MG 1101 1_555 M O3A ANP . C ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc20 L MG MG . C MG 1101 1_555 M O3G ANP . C ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.606 ? metalc ? metalc21 L MG MG . C MG 1101 1_555 R O HOH . C HOH 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.759 ? # _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 8TO4 _atom_sites.fract_transf_matrix[1][1] 0.013823 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002747 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009698 _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] 0.011737 _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 E 2 MG D 1 1101 4 MG MG . F 3 ANP D 1 1102 1 ANP ANP . G 4 IXR D 1 1103 1101 IXR LIG . H 2 MG A 1 1101 7 MG MG . I 3 ANP A 1 1102 4 ANP ANP . J 2 MG B 1 1101 6 MG MG . K 3 ANP B 1 1102 3 ANP ANP . L 2 MG C 1 1101 5 MG MG . M 3 ANP C 1 1102 2 ANP ANP . N 4 IXR C 1 1103 1101 IXR LIG . O 5 HOH D 1 1201 20 HOH HOH . O 5 HOH D 2 1202 12 HOH HOH . O 5 HOH D 3 1203 73 HOH HOH . O 5 HOH D 4 1204 67 HOH HOH . O 5 HOH D 5 1205 57 HOH HOH . O 5 HOH D 6 1206 84 HOH HOH . O 5 HOH D 7 1207 64 HOH HOH . O 5 HOH D 8 1208 83 HOH HOH . O 5 HOH D 9 1209 92 HOH HOH . O 5 HOH D 10 1210 14 HOH HOH . O 5 HOH D 11 1211 80 HOH HOH . O 5 HOH D 12 1212 18 HOH HOH . O 5 HOH D 13 1213 62 HOH HOH . O 5 HOH D 14 1214 4 HOH HOH . O 5 HOH D 15 1215 17 HOH HOH . O 5 HOH D 16 1216 77 HOH HOH . O 5 HOH D 17 1217 68 HOH HOH . O 5 HOH D 18 1218 55 HOH HOH . P 5 HOH A 1 1201 93 HOH HOH . P 5 HOH A 2 1202 60 HOH HOH . P 5 HOH A 3 1203 74 HOH HOH . P 5 HOH A 4 1204 89 HOH HOH . P 5 HOH A 5 1205 87 HOH HOH . P 5 HOH A 6 1206 59 HOH HOH . P 5 HOH A 7 1207 95 HOH HOH . P 5 HOH A 8 1208 70 HOH HOH . P 5 HOH A 9 1209 49 HOH HOH . P 5 HOH A 10 1210 8 HOH HOH . P 5 HOH A 11 1211 82 HOH HOH . P 5 HOH A 12 1212 25 HOH HOH . P 5 HOH A 13 1213 23 HOH HOH . P 5 HOH A 14 1214 21 HOH HOH . P 5 HOH A 15 1215 69 HOH HOH . P 5 HOH A 16 1216 85 HOH HOH . P 5 HOH A 17 1217 81 HOH HOH . P 5 HOH A 18 1218 22 HOH HOH . Q 5 HOH B 1 1201 94 HOH HOH . Q 5 HOH B 2 1202 13 HOH HOH . Q 5 HOH B 3 1203 33 HOH HOH . Q 5 HOH B 4 1204 75 HOH HOH . Q 5 HOH B 5 1205 30 HOH HOH . Q 5 HOH B 6 1206 76 HOH HOH . Q 5 HOH B 7 1207 71 HOH HOH . Q 5 HOH B 8 1208 29 HOH HOH . Q 5 HOH B 9 1209 34 HOH HOH . Q 5 HOH B 10 1210 56 HOH HOH . Q 5 HOH B 11 1211 86 HOH HOH . R 5 HOH C 1 1201 91 HOH HOH . R 5 HOH C 2 1202 53 HOH HOH . R 5 HOH C 3 1203 72 HOH HOH . R 5 HOH C 4 1204 43 HOH HOH . R 5 HOH C 5 1205 88 HOH HOH . R 5 HOH C 6 1206 78 HOH HOH . R 5 HOH C 7 1207 47 HOH HOH . R 5 HOH C 8 1208 61 HOH HOH . R 5 HOH C 9 1209 3 HOH HOH . R 5 HOH C 10 1210 51 HOH HOH . R 5 HOH C 11 1211 46 HOH HOH . R 5 HOH C 12 1212 37 HOH HOH . R 5 HOH C 13 1213 39 HOH HOH . R 5 HOH C 14 1214 35 HOH HOH . R 5 HOH C 15 1215 27 HOH HOH . R 5 HOH C 16 1216 45 HOH HOH . R 5 HOH C 17 1217 9 HOH HOH . R 5 HOH C 18 1218 79 HOH HOH . R 5 HOH C 19 1219 26 HOH HOH . R 5 HOH C 20 1220 63 HOH HOH . R 5 HOH C 21 1221 58 HOH HOH . R 5 HOH C 22 1222 7 HOH HOH . R 5 HOH C 23 1223 42 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 PG ANP . . . I 3 15.762 -3.475 80.296 0.63 72.38 ? PG ANP 1102 A 1 HETATM 2 O O1G ANP . . . I 3 15.192 -3.014 78.978 0.63 64.41 ? O1G ANP 1102 A 1 HETATM 3 O O2G ANP . . . I 3 17.246 -2.98 80.338 0.63 47.84 ? O2G ANP 1102 A 1 HETATM 4 O O3G ANP . . . I 3 15.731 -5.038 80.389 0.63 62.09 ? O3G ANP 1102 A 1 HETATM 5 P PB ANP . . . I 3 14.517 -3.731 82.898 0.63 64.25 ? PB ANP 1102 A 1 HETATM 6 O O1B ANP . . . I 3 15.708 -4.572 83.117 0.63 65.01 ? O1B ANP 1102 A 1 HETATM 7 O O2B ANP . . . I 3 13.348 -4.719 82.707 0.63 46.08 ? O2B ANP 1102 A 1 HETATM 8 N N3B ANP . . . I 3 14.864 -2.764 81.549 0.63 57.66 ? N3B ANP 1102 A 1 HETATM 9 P PA ANP . . . I 3 14.701 -1.328 84.367 0.63 58.9 ? PA ANP 1102 A 1 HETATM 10 O O1A ANP . . . I 3 15.78 -1.188 85.379 0.63 55.14 ? O1A ANP 1102 A 1 HETATM 11 O O2A ANP . . . I 3 15.054 -0.705 83.009 0.63 54.61 ? O2A ANP 1102 A 1 HETATM 12 O O3A ANP . . . I 3 14.28 -2.872 84.212 0.63 51.31 ? O3A ANP 1102 A 1 HETATM 13 O O5' ANP . . . I 3 13.458 -0.529 84.937 0.63 45.09 ? O5' ANP 1102 A 1 HETATM 14 C C5' ANP . . . I 3 13.597 0.171 86.194 0.63 44.98 ? C5' ANP 1102 A 1 HETATM 15 C C4' ANP . . . I 3 13.739 1.664 86.018 0.63 38.96 ? C4' ANP 1102 A 1 HETATM 16 O O4' ANP . . . I 3 13.622 2.304 87.304 0.63 50.07 ? O4' ANP 1102 A 1 HETATM 17 C C3' ANP . . . I 3 15.094 2.065 85.444 0.63 44.07 ? C3' ANP 1102 A 1 HETATM 18 O O3' ANP . . . I 3 15 2.346 84.052 0.63 57.85 ? O3' ANP 1102 A 1 HETATM 19 C C2' ANP . . . I 3 15.509 3.27 86.286 0.63 45.24 ? C2' ANP 1102 A 1 HETATM 20 O O2' ANP . . . I 3 15.017 4.508 85.805 0.63 44.66 ? O2' ANP 1102 A 1 HETATM 21 C C1' ANP . . . I 3 14.812 3.001 87.615 0.63 49.32 ? C1' ANP 1102 A 1 HETATM 22 N N9 ANP . . . I 3 15.592 2.208 88.574 0.63 50.57 ? N9 ANP 1102 A 1 HETATM 23 C C8 ANP . . . I 3 16.159 0.972 88.4 0.63 43.71 ? C8 ANP 1102 A 1 HETATM 24 N N7 ANP . . . I 3 16.804 0.521 89.454 0.63 40.26 ? N7 ANP 1102 A 1 HETATM 25 C C5 ANP . . . I 3 16.651 1.538 90.384 0.63 34.54 ? C5 ANP 1102 A 1 HETATM 26 C C6 ANP . . . I 3 17.104 1.682 91.708 0.63 32.8 ? C6 ANP 1102 A 1 HETATM 27 N N6 ANP . . . I 3 17.846 0.772 92.347 0.63 38.81 ? N6 ANP 1102 A 1 HETATM 28 N N1 ANP . . . I 3 16.779 2.824 92.355 0.63 34.07 ? N1 ANP 1102 A 1 HETATM 29 C C2 ANP . . . I 3 16.056 3.745 91.721 0.63 32.93 ? C2 ANP 1102 A 1 HETATM 30 N N3 ANP . . . I 3 15.578 3.717 90.481 0.63 35.82 ? N3 ANP 1102 A 1 HETATM 31 C C4 ANP . . . I 3 15.912 2.581 89.861 0.63 40.94 ? C4 ANP 1102 A 1 HETATM 32 H HNB1 ANP . . . I 3 15.357 -2.065 81.854 0.63 69.19 ? HNB1 ANP 1102 A 1 HETATM 33 H "H5'1" ANP . . . I 3 14.387 -0.167 86.65 0.63 53.97 ? "H5'1" ANP 1102 A 1 HETATM 34 H "H5'2" ANP . . . I 3 12.808 -0.006 86.736 0.63 53.97 ? "H5'2" ANP 1102 A 1 HETATM 35 H H4' ANP . . . I 3 13.026 2.051 85.469 0.63 46.75 ? H4' ANP 1102 A 1 HETATM 36 H H3' ANP . . . I 3 15.72 1.356 85.609 0.63 52.89 ? H3' ANP 1102 A 1 HETATM 37 H HO3' ANP . . . I 3 15.255 3.192 83.944 0.63 69.42 ? HO3' ANP 1102 A 1 HETATM 38 H H2' ANP . . . I 3 16.47 3.247 86.373 0.63 54.28 ? H2' ANP 1102 A 1 HETATM 39 H HO2' ANP . . . I 3 15.526 5.161 86.124 0.63 53.59 ? HO2' ANP 1102 A 1 HETATM 40 H H1' ANP . . . I 3 14.594 3.859 88.012 0.63 59.19 ? H1' ANP 1102 A 1 HETATM 41 H H8 ANP . . . I 3 16.091 0.48 87.583 0.63 52.45 ? H8 ANP 1102 A 1 HETATM 42 H HN61 ANP . . . I 3 18.23 0.99 93.164 0.63 46.57 ? HN61 ANP 1102 A 1 HETATM 43 H HN62 ANP . . . I 3 17.997 -0.053 91.974 0.63 46.57 ? HN62 ANP 1102 A 1 HETATM 44 H H2 ANP . . . I 3 15.852 4.545 92.233 0.63 39.51 ? H2 ANP 1102 A 1 # _model_server_stats.io_time_ms 224 _model_server_stats.parse_time_ms 36 _model_server_stats.create_model_time_ms 52 _model_server_stats.query_time_ms 987 _model_server_stats.encode_time_ms 17 _model_server_stats.element_count 44 #