data_6Y8P # _model_server_result.job_id qvcPrw-cr_bMeNbtHY0RzQ _model_server_result.datetime_utc '2025-07-21 01:02:46' _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 6y8p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":202}' # _entry.id 6Y8P # _exptl.entry_id 6Y8P _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 534.625 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[9-[2-carboxy-5-[(4-methylphenyl)methylcarbamoyl]phenyl]-6-(dimethylamino)xanthen-3-ylidene]-dimethyl-azanium' _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 6Y8P _cell.length_a 65.515 _cell.length_b 65.515 _cell.length_c 97.067 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6Y8P _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _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,D,E _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 3 _struct_asym.id C _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 SG CYS 143 A CYS 145 1_555 C CBH OGQ . A OGQ 202 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.786 ? covale ? covale2 A SG CYS 143 A CYS 145 1_555 C CBH OGQ . A OGQ 202 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.765 ? metalc ? metalc1 A SG CYS 3 A CYS 5 1_555 B ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? metalc ? metalc2 A SG CYS 22 A CYS 24 1_555 B ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.46 ? metalc ? metalc3 A NE2 HIS 27 A HIS 29 1_555 B ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc4 A ND1 HIS 83 A HIS 85 1_555 B ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? # _chem_comp.formula 'C33 H32 N3 O4 1' _chem_comp.formula_weight 534.625 _chem_comp.id OGQ _chem_comp.mon_nstd_flag . _chem_comp.name '[9-[2-carboxy-5-[(4-methylphenyl)methylcarbamoyl]phenyl]-6-(dimethylamino)xanthen-3-ylidene]-dimethyl-azanium' _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 CBH CBK OGQ sing 246 n n CBE CBK OGQ doub 247 n y CBE CBC OGQ sing 248 n y CBK CBF OGQ sing 249 n y CBC CBJ OGQ doub 250 n y CBF CBD OGQ doub 251 n y CBJ CBD OGQ sing 252 n y CBJ CBG OGQ sing 253 n n CBG NBI OGQ sing 254 n n NBI CAU OGQ sing 255 n n OAW CAU OGQ doub 256 n n CAU CAP OGQ sing 257 n n CAP CAK OGQ doub 258 n y CAP CAT OGQ sing 259 n y CAK CAF OGQ sing 260 n y CAT CAQ OGQ doub 261 n y CAF CAC OGQ sing 262 n n CAF CAL OGQ doub 263 n y CAQ CAL OGQ sing 264 n y CAB CAE OGQ doub 265 n n CAB CAA OGQ sing 266 n n CAE CAJ OGQ sing 267 n n CAC CAA OGQ doub 268 n n CAC CAG OGQ sing 269 n n CAL CBL OGQ sing 270 n n CBA NAO OGQ sing 271 n n CAA CAD OGQ sing 272 n n CAJ NAO OGQ doub 273 n n CAJ CAH OGQ sing 274 n n CAM CAG OGQ doub 275 n y CAM CAR OGQ sing 276 n y CAG CAN OGQ sing 277 n y NAO CBB OGQ sing 278 n n CAD CAH OGQ doub 279 n n CAD OAI OGQ sing 280 n n CAR CAV OGQ doub 281 n y CAN OAI OGQ sing 282 n n CAN CAS OGQ doub 283 n y CBL OBN OGQ doub 284 n n CBL OBM OGQ sing 285 n n CAV CAS OGQ sing 286 n y CAV NAX OGQ sing 287 n n CAZ NAX OGQ sing 288 n n NAX CAY OGQ sing 289 n n CAB H1 OGQ sing 290 n n CAE H2 OGQ sing 291 n n CAH H3 OGQ sing 292 n n CAK H4 OGQ sing 293 n n CAM H5 OGQ sing 294 n n CAQ H6 OGQ sing 295 n n CAR H7 OGQ sing 296 n n CAS H8 OGQ sing 297 n n CAT H9 OGQ sing 298 n n CAY H10 OGQ sing 299 n n CAY H11 OGQ sing 300 n n CAY H12 OGQ sing 301 n n CAZ H13 OGQ sing 302 n n CAZ H14 OGQ sing 303 n n CAZ H15 OGQ sing 304 n n CBA H16 OGQ sing 305 n n CBA H17 OGQ sing 306 n n CBA H18 OGQ sing 307 n n CBB H19 OGQ sing 308 n n CBB H20 OGQ sing 309 n n CBB H21 OGQ sing 310 n n CBC H22 OGQ sing 311 n n CBD H23 OGQ sing 312 n n CBE H24 OGQ sing 313 n n CBF H25 OGQ sing 314 n n CBG H26 OGQ sing 315 n n CBG H27 OGQ sing 316 n n CBH H28 OGQ sing 317 n n CBH H29 OGQ sing 318 n n CBH H30 OGQ sing 319 n n NBI H31 OGQ sing 320 n n OBM H32 OGQ sing 321 n n # _atom_sites.entry_id 6Y8P _atom_sites.fract_transf_matrix[1][1] 0.015264 _atom_sites.fract_transf_matrix[1][2] 0.008812 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017625 _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] 0.010302 _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 ZN A 1 201 180 ZN ZN . C 3 OGQ A 1 202 200 OGQ DRG . D 4 EDO A 1 203 301 EDO EDO . E 5 HOH A 1 301 24 HOH HOH . E 5 HOH A 2 302 4 HOH HOH . E 5 HOH A 3 303 26 HOH HOH . E 5 HOH A 4 304 57 HOH HOH . E 5 HOH A 5 305 39 HOH HOH . E 5 HOH A 6 306 1 HOH HOH . E 5 HOH A 7 307 40 HOH HOH . E 5 HOH A 8 308 43 HOH HOH . E 5 HOH A 9 309 2 HOH HOH . E 5 HOH A 10 310 33 HOH HOH . E 5 HOH A 11 311 47 HOH HOH . E 5 HOH A 12 312 53 HOH HOH . E 5 HOH A 13 313 41 HOH HOH . E 5 HOH A 14 314 9 HOH HOH . E 5 HOH A 15 315 42 HOH HOH . E 5 HOH A 16 316 14 HOH HOH . E 5 HOH A 17 317 25 HOH HOH . E 5 HOH A 18 318 58 HOH HOH . E 5 HOH A 19 319 10 HOH HOH . E 5 HOH A 20 320 20 HOH HOH . E 5 HOH A 21 321 12 HOH HOH . E 5 HOH A 22 322 32 HOH HOH . E 5 HOH A 23 323 37 HOH HOH . E 5 HOH A 24 324 22 HOH HOH . E 5 HOH A 25 325 15 HOH HOH . E 5 HOH A 26 326 29 HOH HOH . E 5 HOH A 27 327 19 HOH HOH . E 5 HOH A 28 328 49 HOH HOH . E 5 HOH A 29 329 3 HOH HOH . E 5 HOH A 30 330 23 HOH HOH . E 5 HOH A 31 331 6 HOH HOH . E 5 HOH A 32 332 38 HOH HOH . E 5 HOH A 33 333 5 HOH HOH . E 5 HOH A 34 334 13 HOH HOH . E 5 HOH A 35 335 48 HOH HOH . E 5 HOH A 36 336 50 HOH HOH . E 5 HOH A 37 337 35 HOH HOH . E 5 HOH A 38 338 56 HOH HOH . E 5 HOH A 39 339 8 HOH HOH . E 5 HOH A 40 340 36 HOH HOH . E 5 HOH A 41 341 7 HOH HOH . E 5 HOH A 42 342 55 HOH HOH . E 5 HOH A 43 343 27 HOH HOH . E 5 HOH A 44 344 28 HOH HOH . E 5 HOH A 45 345 11 HOH HOH . E 5 HOH A 46 346 17 HOH HOH . E 5 HOH A 47 347 30 HOH HOH . E 5 HOH A 48 348 21 HOH HOH . E 5 HOH A 49 349 31 HOH HOH . E 5 HOH A 50 350 16 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 CAA OGQ . . . C 3 19.307 -2.901 16.506 1 59.34 ? CAA OGQ 202 A 1 HETATM 2 C CAB OGQ . . . C 3 18.299 -3.717 15.985 1 57.73 ? CAB OGQ 202 A 1 HETATM 3 C CAC OGQ . . . C 3 20.659 -3.204 16.31 1 56.33 ? CAC OGQ 202 A 1 HETATM 4 C CAD OGQ . . . C 3 18.936 -1.718 17.132 1 60.57 ? CAD OGQ 202 A 1 HETATM 5 C CAE OGQ . . . C 3 16.959 -3.367 16.136 1 57.67 ? CAE OGQ 202 A 1 HETATM 6 C CAF OGQ . . . C 3 20.954 -4.422 15.68 1 50.73 ? CAF OGQ 202 A 1 HETATM 7 C CAG OGQ . . . C 3 21.616 -2.333 16.854 1 58.64 ? CAG OGQ 202 A 1 HETATM 8 C CAH OGQ . . . C 3 17.605 -1.387 17.302 1 60.74 ? CAH OGQ 202 A 1 HETATM 9 C CAJ OGQ . . . C 3 16.594 -2.191 16.793 1 58.83 ? CAJ OGQ 202 A 1 HETATM 10 C CAK OGQ . . . C 3 20.942 -4.529 14.295 1 48.01 ? CAK OGQ 202 A 1 HETATM 11 C CAL OGQ . . . C 3 21.576 -5.46 16.392 1 51.76 ? CAL OGQ 202 A 1 HETATM 12 C CAM OGQ . . . C 3 22.984 -2.609 16.809 1 59.31 ? CAM OGQ 202 A 1 HETATM 13 C CAN OGQ . . . C 3 21.213 -1.188 17.538 1 59.91 ? CAN OGQ 202 A 1 HETATM 14 C CAP OGQ . . . C 3 21.284 -5.735 13.691 1 49 ? CAP OGQ 202 A 1 HETATM 15 C CAQ OGQ . . . C 3 21.935 -6.642 15.772 1 50.79 ? CAQ OGQ 202 A 1 HETATM 16 C CAR OGQ . . . C 3 23.91 -1.702 17.316 1 60.77 ? CAR OGQ 202 A 1 HETATM 17 C CAS OGQ . . . C 3 22.126 -0.293 18.062 1 60.81 ? CAS OGQ 202 A 1 HETATM 18 C CAT OGQ . . . C 3 21.831 -6.762 14.417 1 48.85 ? CAT OGQ 202 A 1 HETATM 19 C CAU OGQ . . . C 3 21.309 -5.95 12.331 1 54.52 ? CAU OGQ 202 A 1 HETATM 20 C CAV OGQ . . . C 3 23.486 -0.547 17.967 1 63 ? CAV OGQ 202 A 1 HETATM 21 C CAY OGQ . . . C 3 23.848 1.528 19.174 1 64.68 ? CAY OGQ 202 A 1 HETATM 22 C CAZ OGQ . . . C 3 25.795 0.044 18.384 1 68.59 ? CAZ OGQ 202 A 1 HETATM 23 C CBA OGQ . . . C 3 14.217 -2.619 16.465 1 53.57 ? CBA OGQ 202 A 1 HETATM 24 C CBB OGQ . . . C 3 15.017 -0.586 17.717 1 53.99 ? CBB OGQ 202 A 1 HETATM 25 C CBC OGQ . . . C 3 19.795 -3.804 8.629 1 62.59 ? CBC OGQ 202 A 1 HETATM 26 C CBD OGQ . . . C 3 18.73 -5.463 10.033 1 61.88 ? CBD OGQ 202 A 1 HETATM 27 C CBE OGQ . . . C 3 18.569 -3.472 8.074 1 59.55 ? CBE OGQ 202 A 1 HETATM 28 C CBF OGQ . . . C 3 17.5 -5.131 9.476 1 60.59 ? CBF OGQ 202 A 1 HETATM 29 C CBG OGQ . . . C 3 21.084 -5.086 10.115 1 61.49 ? CBG OGQ 202 A 1 HETATM 30 C CBH OGQ . . . C 3 16.186 -3.821 7.927 1 52.91 ? CBH OGQ 202 A 1 HETATM 31 C CBJ OGQ . . . C 3 19.862 -4.79 9.597 1 61.93 ? CBJ OGQ 202 A 1 HETATM 32 C CBK OGQ . . . C 3 17.419 -4.139 8.497 1 57.46 ? CBK OGQ 202 A 1 HETATM 33 C CBL OGQ . . . C 3 21.731 -5.489 17.785 1 58.54 ? CBL OGQ 202 A 1 HETATM 34 N NAO OGQ . . . C 3 15.306 -1.82 16.975 1 54.92 ? NAO OGQ 202 A 1 HETATM 35 N NAX OGQ . . . C 3 24.357 0.32 18.496 1 65.97 ? NAX OGQ 202 A 1 HETATM 36 N NBI OGQ . . . C 3 21.066 -4.904 11.561 1 57.41 ? NBI OGQ 202 A 1 HETATM 37 O OAI OGQ . . . C 3 19.891 -0.884 17.63 1 60.06 ? OAI OGQ 202 A 1 HETATM 38 O OAW OGQ . . . C 3 21.507 -7.079 11.88 1 58.86 ? OAW OGQ 202 A 1 HETATM 39 O OBM OGQ . . . C 3 21.39 -4.55 18.529 1 62.36 ? OBM OGQ 202 A 1 HETATM 40 O OBN OGQ . . . C 3 22.196 -6.514 18.322 1 63.84 ? OBN OGQ 202 A 1 # _model_server_stats.io_time_ms 109 _model_server_stats.parse_time_ms 290 _model_server_stats.create_model_time_ms 148 _model_server_stats.query_time_ms 642 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 40 #