data_1KNO # _model_server_result.job_id qfAndp0S4paWO0WmDtuI2g _model_server_result.datetime_utc '2024-12-29 17:51:42' _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 1kno # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":551}' # _entry.id 1KNO # _exptl.entry_id 1KNO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 217.116 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'METHYL-PHOSPHONIC ACID MONO-(4-NITRO-PHENYL) ESTER' _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 93.8 _cell.angle_beta 93.9 _cell.angle_gamma 115.6 _cell.entry_id 1KNO _cell.length_a 74.1 _cell.length_b 76.9 _cell.length_c 88.3 _cell.Z_PDB 3 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KNO _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 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,B,G,H 1 1 C,D,I 2 1 E,F,J 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 H N N ? 4 I N N ? 4 J 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 disulf ? disulf1 A SG CYS 23 A CYS 23 1_555 A SG CYS 88 A CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 134 A CYS 134 1_555 A SG CYS 194 A CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 B SG CYS 22 B CYS 22 1_555 B SG CYS 96 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 B SG CYS 146 B CYS 150 1_555 B SG CYS 201 B CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf5 C SG CYS 23 C CYS 23 1_555 C SG CYS 88 C CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf6 C SG CYS 134 C CYS 134 1_555 C SG CYS 194 C CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf7 D SG CYS 22 D CYS 22 1_555 D SG CYS 96 D CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf8 D SG CYS 146 D CYS 150 1_555 D SG CYS 201 D CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf9 E SG CYS 23 E CYS 23 1_555 E SG CYS 88 E CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf10 E SG CYS 134 E CYS 134 1_555 E SG CYS 194 E CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf11 F SG CYS 22 F CYS 22 1_555 F SG CYS 96 F CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf12 F SG CYS 146 F CYS 150 1_555 F SG CYS 201 F CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc1 A OE1 GLU 79 A GLU 79 1_555 G ZN ZN . A ZN 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.644 ? metalc ? metalc2 G ZN ZN . A ZN 215 1_555 E OE1 GLU 79 E GLU 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.911 ? metalc ? metalc3 G ZN ZN . A ZN 215 1_555 E OE1 GLU 81 E GLU 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc4 G ZN ZN . A ZN 215 1_555 E OE2 GLU 81 E GLU 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.729 ? # _chem_comp.formula 'C7 H8 N O5 P' _chem_comp.formula_weight 217.116 _chem_comp.id PNP _chem_comp.mon_nstd_flag . _chem_comp.name 'METHYL-PHOSPHONIC ACID MONO-(4-NITRO-PHENYL) ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '4-NITROPHENYL HYDROGEN METHYLPHOSPHONATE' # 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 C1 C2 PNP doub 258 n y C1 C6 PNP sing 259 n y C1 O1P PNP sing 260 n n C2 C3 PNP sing 261 n y C2 H2 PNP sing 262 n n C3 C4 PNP doub 263 n y C3 H3 PNP sing 264 n n C4 C5 PNP sing 265 n y C4 N PNP sing 266 n n C5 C6 PNP doub 267 n y C5 H5 PNP sing 268 n n C6 H6 PNP sing 269 n n CM P PNP sing 270 n n CM HM1 PNP sing 271 n n CM HM2 PNP sing 272 n n CM HM3 PNP sing 273 n n N O1N PNP doub 274 n n N O2N PNP sing 275 n n P O1P PNP sing 276 n n P O2P PNP doub 277 n n P O3P PNP sing 278 n n O3P HOP3 PNP sing 279 n n # _atom_sites.entry_id 1KNO _atom_sites.fract_transf_matrix[1][1] 0.013495 _atom_sites.fract_transf_matrix[1][2] 0.006466 _atom_sites.fract_transf_matrix[1][3] 0.001617 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014419 _atom_sites.fract_transf_matrix[2][3] 0.001542 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.011416 _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 G 3 ZN A 1 215 1 ZN ZN . H 4 PNP B 1 551 551 PNP PNP . I 4 PNP D 1 552 552 PNP PNP . J 4 PNP F 1 553 553 PNP PNP . # 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 C C1 PNP . . . H 4 -4.484 -4.456 4.86 1 16.78 ? C1 PNP 551 B 1 HETATM 2 C C2 PNP . . . H 4 -4.401 -5.235 3.76 1 17.61 ? C2 PNP 551 B 1 HETATM 3 C C3 PNP . . . H 4 -3.485 -4.983 2.797 1 18.53 ? C3 PNP 551 B 1 HETATM 4 C C4 PNP . . . H 4 -2.64 -3.946 2.927 1 18.47 ? C4 PNP 551 B 1 HETATM 5 C C5 PNP . . . H 4 -2.693 -3.155 4.04 1 17.69 ? C5 PNP 551 B 1 HETATM 6 C C6 PNP . . . H 4 -3.633 -3.401 5.011 1 16.98 ? C6 PNP 551 B 1 HETATM 7 C CM PNP . . . H 4 -6.708 -5.7 7.935 1 11.09 ? CM PNP 551 B 1 HETATM 8 N N PNP . . . H 4 -1.69 -3.673 1.925 1 16.11 ? N PNP 551 B 1 HETATM 9 O O1N PNP . . . H 4 -1.656 -4.372 0.966 1 15.21 ? O1N PNP 551 B 1 HETATM 10 O O2N PNP . . . H 4 -1.009 -2.804 2.062 1 17.22 ? O2N PNP 551 B 1 HETATM 11 P P PNP . . . H 4 -5.262 -5.676 7.091 1 10.65 ? P PNP 551 B 1 HETATM 12 O O1P PNP . . . H 4 -5.448 -4.732 5.814 1 15.09 ? O1P PNP 551 B 1 HETATM 13 O O2P PNP . . . H 4 -4.193 -5.059 7.672 1 25.72 ? O2P PNP 551 B 1 HETATM 14 O O3P PNP . . . H 4 -4.795 -6.949 6.562 1 15.16 ? O3P PNP 551 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 925 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #