data_3NCK # _model_server_result.job_id HZ33ClfqnkzFEiZfguS8Wg _model_server_result.datetime_utc '2024-12-06 08:34:20' _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 3nck # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1}' # _entry.id 3NCK # _exptl.entry_id 3NCK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 416.491 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R,4S)-2-[(1R)-1-{[(2-ethoxynaphthalen-1-yl)carbonyl]amino}-2-oxoethyl]-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid' _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 3NCK _cell.length_a 48.671 _cell.length_b 67.822 _cell.length_c 76.643 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NCK _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_atom_id C _struct_conn.ptnr1_label_comp_id NFF _struct_conn.ptnr1_label_seq_id . _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id NFF _struct_conn.ptnr1_auth_seq_id 1 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id OG _struct_conn.ptnr2_label_comp_id SER _struct_conn.ptnr2_label_seq_id 42 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id SER _struct_conn.ptnr2_auth_seq_id 84 _struct_conn.ptnr2_symmetry 1_555 _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 1.453 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C21 H24 N2 O5 S' _chem_comp.formula_weight 416.491 _chem_comp.id NFF _chem_comp.mon_nstd_flag . _chem_comp.name '(2R,4S)-2-[(1R)-1-{[(2-ethoxynaphthalen-1-yl)carbonyl]amino}-2-oxoethyl]-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Nafcillin, bound form' # 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 O C NFF doub 237 n n CA C NFF sing 238 n n C H NFF sing 239 n n CAU N NFF sing 240 n n N CA NFF sing 241 n n N HN NFF sing 242 n n CA CB NFF sing 243 n n CA HAA NFF sing 244 n n SAS CB NFF sing 245 n n CB NAQ NFF sing 246 n n CB HB NFF sing 247 n n CAO CAA NFF sing 248 n n CAA HAAA NFF sing 249 n n CAA HAAB NFF sing 250 n n CAA HAAC NFF sing 251 n n CAB CBC NFF sing 252 n n CAB HAB NFF sing 253 n n CAB HABA NFF sing 254 n n CAB HABB NFF sing 255 n n CBC CAC NFF sing 256 n n CAC HAC NFF sing 257 n n CAC HACA NFF sing 258 n n CAC HACB NFF sing 259 n n CAT OAE NFF sing 260 n n OAE HOAE NFF sing 261 n n CAU OAF NFF doub 262 n n OAG CAT NFF doub 263 n n CAL CAI NFF doub 264 n y CAI CAJ NFF sing 265 n y CAI HAI NFF sing 266 n n CAJ CAM NFF doub 267 n y CAJ HAJ NFF sing 268 n n CAN CAK NFF sing 269 n y CAK CAV NFF doub 270 n y CAK HAK NFF sing 271 n n CAL CAX NFF sing 272 n y CAL HAL NFF sing 273 n n CAY CAM NFF sing 274 n y CAM HAM NFF sing 275 n n CAN CAX NFF doub 276 n y CAN HAN NFF sing 277 n n CAO OAR NFF sing 278 n n CAO HAO NFF sing 279 n n CAO HAOA NFF sing 280 n n CBB NAQ NFF sing 281 n n NAQ HNAQ NFF sing 282 n n CAV OAR NFF sing 283 n n CBC SAS NFF sing 284 n n CBB CAT NFF sing 285 n n CAW CAU NFF sing 286 n n CAV CAW NFF sing 287 n y CAY CAW NFF doub 288 n y CAX CAY NFF sing 289 n y CBC CBB NFF sing 290 n n CBB HBB NFF sing 291 n n # _atom_sites.entry_id 3NCK _atom_sites.fract_transf_matrix[1][1] 0.020546 _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] 0.014744 _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] 0.013048 _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 B 2 NFF A 1 1 1 NFF NFF . C 3 HOH A 1 2 2 HOH HOH . C 3 HOH A 2 3 3 HOH HOH . C 3 HOH A 3 4 4 HOH HOH . C 3 HOH A 4 6 6 HOH HOH . C 3 HOH A 5 7 7 HOH HOH . C 3 HOH A 6 8 8 HOH HOH . C 3 HOH A 7 9 9 HOH HOH . C 3 HOH A 8 10 10 HOH HOH . C 3 HOH A 9 12 12 HOH HOH . C 3 HOH A 10 13 13 HOH HOH . C 3 HOH A 11 15 15 HOH HOH . C 3 HOH A 12 16 16 HOH HOH . C 3 HOH A 13 17 17 HOH HOH . C 3 HOH A 14 18 18 HOH HOH . C 3 HOH A 15 19 19 HOH HOH . C 3 HOH A 16 20 20 HOH HOH . C 3 HOH A 17 21 21 HOH HOH . C 3 HOH A 18 22 22 HOH HOH . C 3 HOH A 19 23 23 HOH HOH . C 3 HOH A 20 24 24 HOH HOH . C 3 HOH A 21 25 25 HOH HOH . C 3 HOH A 22 26 26 HOH HOH . C 3 HOH A 23 27 27 HOH HOH . C 3 HOH A 24 28 28 HOH HOH . C 3 HOH A 25 29 29 HOH HOH . C 3 HOH A 26 30 30 HOH HOH . C 3 HOH A 27 31 31 HOH HOH . C 3 HOH A 28 32 32 HOH HOH . C 3 HOH A 29 308 1 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 C C NFF . . . B 2 -11.332 -11.791 5.176 1 41.25 ? C NFF 1 A 1 HETATM 2 N N NFF . . . B 2 -9.879 -12.355 3.131 1 41.81 ? N NFF 1 A 1 HETATM 3 O O NFF . . . B 2 -12.035 -11.249 3.987 1 40.92 ? O NFF 1 A 1 HETATM 4 C CA NFF . . . B 2 -9.825 -11.965 4.589 1 41.64 ? CA NFF 1 A 1 HETATM 5 C CB NFF . . . B 2 -9.005 -10.759 4.956 1 41.83 ? CB NFF 1 A 1 HETATM 6 C CAA NFF . . . B 2 -10.413 -17.923 2.708 1 47.19 ? CAA NFF 1 A 1 HETATM 7 C CAB NFF . . . B 2 -7.706 -8.034 2.226 1 41.54 ? CAB NFF 1 A 1 HETATM 8 C CAC NFF . . . B 2 -7.325 -7.702 4.691 1 43.02 ? CAC NFF 1 A 1 HETATM 9 O OAE NFF . . . B 2 -10.664 -7.08 5.341 1 40.44 ? OAE NFF 1 A 1 HETATM 10 O OAF NFF . . . B 2 -8.458 -14.107 3.386 1 42.7 ? OAF NFF 1 A 1 HETATM 11 O OAG NFF . . . B 2 -10.532 -6.584 3.189 1 41.32 ? OAG NFF 1 A 1 HETATM 12 C CAI NFF . . . B 2 -7.902 -11.333 -1.874 1 41.42 ? CAI NFF 1 A 1 HETATM 13 C CAJ NFF . . . B 2 -7.649 -10.995 -0.537 1 41.55 ? CAJ NFF 1 A 1 HETATM 14 C CAK NFF . . . B 2 -10.442 -15.192 -0.404 1 42.38 ? CAK NFF 1 A 1 HETATM 15 C CAL NFF . . . B 2 -8.663 -12.466 -2.164 1 41.51 ? CAL NFF 1 A 1 HETATM 16 C CAM NFF . . . B 2 -8.156 -11.776 0.502 1 40.93 ? CAM NFF 1 A 1 HETATM 17 C CAN NFF . . . B 2 -9.929 -14.393 -1.425 1 41.52 ? CAN NFF 1 A 1 HETATM 18 C CAO NFF . . . B 2 -11.162 -16.948 1.774 1 45.51 ? CAO NFF 1 A 1 HETATM 19 N NAQ NFF . . . B 2 -9.847 -9.538 5.061 1 41.43 ? NAQ NFF 1 A 1 HETATM 20 O OAR NFF . . . B 2 -10.693 -15.598 2.002 1 44.17 ? OAR NFF 1 A 1 HETATM 21 S SAS NFF . . . B 2 -7.649 -10.307 3.807 1 42.07 ? SAS NFF 1 A 1 HETATM 22 C CAT NFF . . . B 2 -10.319 -7.32 4.165 1 40.79 ? CAT NFF 1 A 1 HETATM 23 C CAU NFF . . . B 2 -9.203 -13.401 2.69 1 42.05 ? CAU NFF 1 A 1 HETATM 24 C CAV NFF . . . B 2 -10.203 -14.856 0.936 1 42.92 ? CAV NFF 1 A 1 HETATM 25 C CAW NFF . . . B 2 -9.44 -13.715 1.22 1 41.69 ? CAW NFF 1 A 1 HETATM 26 C CAX NFF . . . B 2 -9.175 -13.255 -1.128 1 41.25 ? CAX NFF 1 A 1 HETATM 27 C CAY NFF . . . B 2 -8.923 -12.91 0.205 1 41.05 ? CAY NFF 1 A 1 HETATM 28 C CBB NFF . . . B 2 -9.621 -8.655 3.882 1 41.49 ? CBB NFF 1 A 1 HETATM 29 C CBC NFF . . . B 2 -8.073 -8.539 3.634 1 42.44 ? CBC NFF 1 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 29 #