data_5MIO # _model_server_result.job_id KWx_sXPf91Ntkd_YDW75kg _model_server_result.datetime_utc '2024-11-22 21:16:59' _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 5mio # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":802}' # _entry.id 5MIO # _exptl.entry_id 5MIO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 8 _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 90 _cell.entry_id 5MIO _cell.length_a 51.81 _cell.length_b 229.76 _cell.length_c 293.95 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5MIO _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E 1 1 B,F,G 2 1 C,H,I 3 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 8 _struct_asym.id I _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 disulf ? disulf1 C SG CYS 74 C CYS 287 1_555 C SG CYS 74 C CYS 287 3_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.637 ? metalc ? metalc1 D O1G GTP . A GTP 501 1_555 E MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? metalc ? metalc2 D O1B GTP . A GTP 501 1_555 E MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? metalc ? metalc3 C OG1 THR 142 C THR 355 1_555 H MG MG . C MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? metalc ? metalc4 C OG SER 255 C SER 468 1_555 H MG MG . C MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.88 ? metalc ? metalc5 C OD1 ASP 279 C ASP 492 1_555 H MG MG . C MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.862 ? metalc ? metalc6 H MG MG . C MG 801 1_555 I O1B ANP . C ANP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.63 ? # _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 5MIO _atom_sites.fract_transf_matrix[1][1] 0.019301 _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] 0.004352 _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] 0.003402 _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 GTP A 1 501 501 GTP GTP . E 5 MG A 1 502 502 MG MG . F 6 GDP B 1 501 501 GDP GDP . G 7 LOC B 1 502 503 LOC LOC . H 5 MG C 1 801 801 MG MG . I 8 ANP C 1 802 800 ANP ANP . # 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 8 -39.53 -41.002 48.667 1 112.78 ? PG ANP 802 C 1 HETATM 2 O O1G ANP . . . I 8 -39.217 -42.177 47.719 1 113.47 ? O1G ANP 802 C 1 HETATM 3 O O2G ANP . . . I 8 -38.588 -39.826 48.28 1 114.28 ? O2G ANP 802 C 1 HETATM 4 O O3G ANP . . . I 8 -40.895 -40.607 48.388 1 117.07 ? O3G ANP 802 C 1 HETATM 5 P PB ANP . . . I 8 -39.811 -40.235 51.471 1 100.15 ? PB ANP 802 C 1 HETATM 6 O O1B ANP . . . I 8 -40.029 -38.875 50.995 1 99.93 ? O1B ANP 802 C 1 HETATM 7 O O2B ANP . . . I 8 -38.682 -40.205 52.515 1 97.76 ? O2B ANP 802 C 1 HETATM 8 N N3B ANP . . . I 8 -39.414 -41.278 50.258 1 104.87 ? N3B ANP 802 C 1 HETATM 9 P PA ANP . . . I 8 -42.195 -40.023 53.062 1 92.05 ? PA ANP 802 C 1 HETATM 10 O O1A ANP . . . I 8 -42.959 -39.252 52.044 1 94.45 ? O1A ANP 802 C 1 HETATM 11 O O2A ANP . . . I 8 -41.602 -39.043 54.03 1 88.17 ? O2A ANP 802 C 1 HETATM 12 O O3A ANP . . . I 8 -41.005 -40.781 52.321 1 95.87 ? O3A ANP 802 C 1 HETATM 13 O O5' ANP . . . I 8 -43.081 -41.058 53.926 1 94.28 ? O5' ANP 802 C 1 HETATM 14 C C5' ANP . . . I 8 -44.059 -41.902 53.278 1 99.06 ? C5' ANP 802 C 1 HETATM 15 C C4' ANP . . . I 8 -45.31 -42.173 54.086 1 102.55 ? C4' ANP 802 C 1 HETATM 16 O O4' ANP . . . I 8 -44.967 -42.671 55.394 1 103.52 ? O4' ANP 802 C 1 HETATM 17 C C3' ANP . . . I 8 -46.3 -41.029 54.311 1 103.57 ? C3' ANP 802 C 1 HETATM 18 O O3' ANP . . . I 8 -47.643 -41.511 54.352 1 105.62 ? O3' ANP 802 C 1 HETATM 19 C C2' ANP . . . I 8 -45.901 -40.508 55.688 1 102.89 ? C2' ANP 802 C 1 HETATM 20 O O2' ANP . . . I 8 -46.994 -39.845 56.322 1 102.26 ? O2' ANP 802 C 1 HETATM 21 C C1' ANP . . . I 8 -45.472 -41.806 56.393 1 105.94 ? C1' ANP 802 C 1 HETATM 22 N N9 ANP . . . I 8 -44.422 -41.627 57.389 1 109.24 ? N9 ANP 802 C 1 HETATM 23 C C8 ANP . . . I 8 -43.11 -41.317 57.141 1 108.98 ? C8 ANP 802 C 1 HETATM 24 N N7 ANP . . . I 8 -42.405 -41.067 58.217 1 108.03 ? N7 ANP 802 C 1 HETATM 25 C C5 ANP . . . I 8 -43.315 -41.231 59.247 1 107.35 ? C5 ANP 802 C 1 HETATM 26 C C6 ANP . . . I 8 -43.212 -41.034 60.628 1 105.08 ? C6 ANP 802 C 1 HETATM 27 N N6 ANP . . . I 8 -42.099 -40.617 61.22 1 102.79 ? N6 ANP 802 C 1 HETATM 28 N N1 ANP . . . I 8 -44.315 -41.25 61.382 1 107.22 ? N1 ANP 802 C 1 HETATM 29 C C2 ANP . . . I 8 -45.441 -41.646 60.778 1 108.7 ? C2 ANP 802 C 1 HETATM 30 N N3 ANP . . . I 8 -45.662 -41.859 59.478 1 109.86 ? N3 ANP 802 C 1 HETATM 31 C C4 ANP . . . I 8 -44.555 -41.609 58.757 1 109.59 ? C4 ANP 802 C 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #