data_3O7L # _model_server_result.job_id kUtxn8SpHor29kUoM_ZEew _model_server_result.datetime_utc '2024-12-22 05:45:00' _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 3o7l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":354}' # _entry.id 3O7L # _exptl.entry_id 3O7L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 3O7L _cell.length_a 92.193 _cell.length_b 92.193 _cell.length_c 192.186 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3O7L _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _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 # _struct_asym.details ? _struct_asym.entity_id 6 _struct_asym.id G _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 covale ? covale1 A C TRP 196 B TRP 196 1_555 A N TPO 197 B TPO 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 A C TPO 197 B TPO 197 1_555 A N LEU 198 B LEU 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 B C TRP 196 D TRP 196 1_555 B N TPO 197 D TPO 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale4 B C TPO 197 D TPO 197 1_555 B N LEU 198 D LEU 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale5 B C VAL 337 D VAL 337 1_555 B N SEP 338 D SEP 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale6 B C SEP 338 D SEP 338 1_555 B N ILE 339 D ILE 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? metalc ? metalc1 A OD1 ASP 184 B ASP 184 1_555 D MG MG . B MG 351 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.727 ? metalc ? metalc2 A OD2 ASP 184 B ASP 184 1_555 E MG MG . B MG 352 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.946 ? metalc ? metalc3 D MG MG . B MG 351 1_555 G O1B ANP . B ANP 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.488 ? metalc ? metalc4 E MG MG . B MG 352 1_555 G O2A ANP . B ANP 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.876 ? metalc ? metalc5 E MG MG . B MG 352 1_555 G O1B ANP . B ANP 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.842 ? # _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 3O7L _atom_sites.fract_transf_matrix[1][1] 0.010847 _atom_sites.fract_transf_matrix[1][2] 0.006262 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012525 _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] 0.005203 _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 MG B 1 351 2 MG MG . E 4 MG B 1 352 3 MG MG . F 5 PEG B 1 353 1 PEG PEG . G 6 ANP B 1 354 1 ANP ANP . H 7 HOH B 1 355 5 HOH HOH . H 7 HOH B 2 356 7 HOH HOH . H 7 HOH B 3 357 8 HOH HOH . H 7 HOH B 4 358 11 HOH HOH . H 7 HOH B 5 359 12 HOH HOH . H 7 HOH B 6 360 13 HOH HOH . H 7 HOH B 7 361 14 HOH HOH . H 7 HOH B 8 362 19 HOH HOH . H 7 HOH B 9 363 35 HOH HOH . H 7 HOH B 10 364 36 HOH HOH . H 7 HOH B 11 365 37 HOH HOH . H 7 HOH B 12 366 42 HOH HOH . I 7 HOH D 1 351 17 HOH HOH . I 7 HOH D 2 352 21 HOH HOH . I 7 HOH D 3 353 24 HOH HOH . I 7 HOH D 4 354 25 HOH HOH . I 7 HOH D 5 355 39 HOH HOH . I 7 HOH D 6 356 40 HOH HOH . I 7 HOH D 7 357 41 HOH HOH . I 7 HOH D 8 358 43 HOH HOH . I 7 HOH D 9 359 44 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 ANP . . . G 6 -3.437 23.853 5.759 1 2 ? PB ANP 354 B 1 HETATM 2 O O1B ANP . . . G 6 -4.82 23.832 6.675 1 2 ? O1B ANP 354 B 1 HETATM 3 O O2B ANP . . . G 6 -3.165 22.192 5.403 1 2 ? O2B ANP 354 B 1 HETATM 4 N N3B ANP . . . G 6 -2.053 24.875 6.128 1 2 ? N3B ANP 354 B 1 HETATM 5 P PA ANP . . . G 6 -5.305 25.225 3.948 1 2 ? PA ANP 354 B 1 HETATM 6 O O1A ANP . . . G 6 -6.64 24.59 3.576 1 2 ? O1A ANP 354 B 1 HETATM 7 O O2A ANP . . . G 6 -5.085 26.617 5.241 1 2 ? O2A ANP 354 B 1 HETATM 8 O O3A ANP . . . G 6 -4.522 23.814 4.431 1 2 ? O3A ANP 354 B 1 HETATM 9 O O5' ANP . . . G 6 -4.273 25.846 3.009 1 2 ? O5' ANP 354 B 1 HETATM 10 C C5' ANP . . . G 6 -3.257 25.107 2.439 1 2 ? C5' ANP 354 B 1 HETATM 11 C C4' ANP . . . G 6 -2.806 26.392 1.658 1 2 ? C4' ANP 354 B 1 HETATM 12 O O4' ANP . . . G 6 -2.691 26.304 0.245 1 2 ? O4' ANP 354 B 1 HETATM 13 C C3' ANP . . . G 6 -3.585 27.754 1.827 1 2 ? C3' ANP 354 B 1 HETATM 14 O O3' ANP . . . G 6 -2.623 28.492 2.686 1 2 ? O3' ANP 354 B 1 HETATM 15 C C2' ANP . . . G 6 -3.727 28.395 0.406 1 2 ? C2' ANP 354 B 1 HETATM 16 O O2' ANP . . . G 6 -2.556 28.998 -0.117 1 2 ? O2' ANP 354 B 1 HETATM 17 C C1' ANP . . . G 6 -3.536 27.215 -0.41 1 2 ? C1' ANP 354 B 1 HETATM 18 N N9 ANP . . . G 6 -4.939 26.889 -0.75 1 2 ? N9 ANP 354 B 1 HETATM 19 C C8 ANP . . . G 6 -5.879 26.174 -0.104 1 2 ? C8 ANP 354 B 1 HETATM 20 N N7 ANP . . . G 6 -7.108 26.219 -0.731 1 2 ? N7 ANP 354 B 1 HETATM 21 C C5 ANP . . . G 6 -6.93 26.953 -1.852 1 2 ? C5 ANP 354 B 1 HETATM 22 C C6 ANP . . . G 6 -7.827 27.357 -3.019 1 2 ? C6 ANP 354 B 1 HETATM 23 N N6 ANP . . . G 6 -9.194 26.965 -3.074 1 2 ? N6 ANP 354 B 1 HETATM 24 N N1 ANP . . . G 6 -7.247 28.104 -3.995 1 2 ? N1 ANP 354 B 1 HETATM 25 C C2 ANP . . . G 6 -5.919 28.489 -3.909 1 2 ? C2 ANP 354 B 1 HETATM 26 N N3 ANP . . . G 6 -5.017 28.128 -2.981 1 2 ? N3 ANP 354 B 1 HETATM 27 C C4 ANP . . . G 6 -5.494 27.338 -1.905 1 2 ? C4 ANP 354 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #