data_6DJM # _model_server_result.job_id 84zMDwGpmmKdCc5PsrJSVw _model_server_result.datetime_utc '2025-07-17 03:56:45' _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 6djm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":802}' # _entry.id 6DJM # _exptl.entry_id 6DJM _exptl.method 'ELECTRON MICROSCOPY' # _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 90 _cell.angle_gamma 90 _cell.entry_id 6DJM _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DJM _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P _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 ? _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 H N N ? 3 J N N ? 3 L 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 A C GLU 72 A GLU 72 1_555 A N HIC 73 A HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale2 A C HIC 73 A HIC 73 1_555 A N GLY 74 A GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale3 B C GLU 72 B GLU 72 1_555 B N HIC 73 B HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale4 B C HIC 73 B HIC 73 1_555 B N GLY 74 B GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale5 C C GLU 72 C GLU 72 1_555 C N HIC 73 C HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale6 C C HIC 73 C HIC 73 1_555 C N GLY 74 C GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale7 D C GLU 72 D GLU 72 1_555 D N HIC 73 D HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale8 D C HIC 73 D HIC 73 1_555 D N GLY 74 D GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? metalc ? metalc1 E MG MG . A MG 801 1_555 F O2G ANP . A ANP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc2 E MG MG . A MG 801 1_555 F O2B ANP . A ANP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? metalc ? metalc3 E MG MG . A MG 801 1_555 F O3G ANP . A ANP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc4 G MG MG . B MG 801 1_555 H O2G ANP . B ANP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc5 G MG MG . B MG 801 1_555 H O2B ANP . B ANP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? metalc ? metalc6 I MG MG . C MG 801 1_555 J O2G ANP . C ANP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc7 I MG MG . C MG 801 1_555 J O2B ANP . C ANP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc8 K MG MG . D MG 801 1_555 L O2B ANP . D ANP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? metalc ? metalc9 K MG MG . D MG 801 1_555 L O2G ANP . D ANP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? # _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 6DJM _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 A 1 801 801 MG MG . F 3 ANP A 1 802 901 ANP ANP . G 2 MG B 1 801 801 MG MG . H 3 ANP B 1 802 901 ANP ANP . I 2 MG C 1 801 801 MG MG . J 3 ANP C 1 802 901 ANP ANP . K 2 MG D 1 801 801 MG MG . L 3 ANP D 1 802 901 ANP ANP . M 4 HOH A 1 901 961 HOH HOH . N 4 HOH B 1 901 961 HOH HOH . O 4 HOH C 1 901 961 HOH HOH . P 4 HOH D 1 901 961 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 . . . H 3 186.516 168.406 182.642 1 47.32 ? PG ANP 802 B 1 HETATM 2 O O1G ANP . . . H 3 185.381 167.854 181.85 1 47.32 ? O1G ANP 802 B 1 HETATM 3 O O2G ANP . . . H 3 187.867 168.09 181.893 1 47.32 ? O2G ANP 802 B 1 HETATM 4 O O3G ANP . . . H 3 186.305 169.967 182.749 1 47.32 ? O3G ANP 802 B 1 HETATM 5 P PB ANP . . . H 3 187.764 166.569 184.259 1 47.32 ? PB ANP 802 B 1 HETATM 6 O O1B ANP . . . H 3 189.044 167.137 184.739 1 47.32 ? O1B ANP 802 B 1 HETATM 7 O O2B ANP . . . H 3 187.988 165.962 182.85 1 47.32 ? O2B ANP 802 B 1 HETATM 8 N N3B ANP . . . H 3 186.556 167.719 184.189 1 47.32 ? N3B ANP 802 B 1 HETATM 9 P PA ANP . . . H 3 187.657 163.977 184.796 1 47.32 ? PA ANP 802 B 1 HETATM 10 O O1A ANP . . . H 3 187.369 163.734 183.375 1 47.32 ? O1A ANP 802 B 1 HETATM 11 O O2A ANP . . . H 3 189.093 163.703 185.232 1 47.32 ? O2A ANP 802 B 1 HETATM 12 O O3A ANP . . . H 3 187.34 165.443 185.218 1 47.32 ? O3A ANP 802 B 1 HETATM 13 O O5' ANP . . . H 3 186.635 163.175 185.645 1 47.32 ? O5' ANP 802 B 1 HETATM 14 C C5' ANP . . . H 3 186.362 163.663 186.958 1 47.32 ? C5' ANP 802 B 1 HETATM 15 C C4' ANP . . . H 3 185.019 163.161 187.399 1 47.32 ? C4' ANP 802 B 1 HETATM 16 O O4' ANP . . . H 3 184.833 161.827 186.901 1 47.32 ? O4' ANP 802 B 1 HETATM 17 C C3' ANP . . . H 3 184.854 163.038 188.905 1 47.32 ? C3' ANP 802 B 1 HETATM 18 O O3' ANP . . . H 3 184.38 164.253 189.47 1 47.32 ? O3' ANP 802 B 1 HETATM 19 C C2' ANP . . . H 3 183.795 161.949 189.036 1 47.32 ? C2' ANP 802 B 1 HETATM 20 O O2' ANP . . . H 3 182.485 162.495 188.974 1 47.32 ? O2' ANP 802 B 1 HETATM 21 C C1' ANP . . . H 3 184.059 161.072 187.811 1 47.32 ? C1' ANP 802 B 1 HETATM 22 N N9 ANP . . . H 3 184.778 159.844 188.105 1 47.32 ? N9 ANP 802 B 1 HETATM 23 C C8 ANP . . . H 3 186.085 159.713 188.489 1 47.32 ? C8 ANP 802 B 1 HETATM 24 N N7 ANP . . . H 3 186.465 158.473 188.675 1 47.32 ? N7 ANP 802 B 1 HETATM 25 C C5 ANP . . . H 3 185.328 157.737 188.386 1 47.32 ? C5 ANP 802 B 1 HETATM 26 C C6 ANP . . . H 3 185.066 156.356 188.399 1 47.32 ? C6 ANP 802 B 1 HETATM 27 N N6 ANP . . . H 3 185.973 155.431 188.718 1 47.32 ? N6 ANP 802 B 1 HETATM 28 N N1 ANP . . . H 3 183.823 155.952 188.061 1 47.32 ? N1 ANP 802 B 1 HETATM 29 C C2 ANP . . . H 3 182.912 156.872 187.739 1 47.32 ? C2 ANP 802 B 1 HETATM 30 N N3 ANP . . . H 3 183.042 158.199 187.697 1 47.32 ? N3 ANP 802 B 1 HETATM 31 C C4 ANP . . . H 3 184.282 158.568 188.035 1 47.32 ? C4 ANP 802 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 249 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #