data_8U0Y # _model_server_result.job_id t8K7sDx9vD_wt5BHcTao8A _model_server_result.datetime_utc '2024-10-18 05:21:44' _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 8u0y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":202}' # _entry.id 8U0Y # _exptl.entry_id 8U0Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 590.71 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description PHYCOUROBILIN _entity.pdbx_number_of_molecules 5 _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 8U0Y _cell.length_a 221.79 _cell.length_b 221.79 _cell.length_c 139.34 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8U0Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 177 _symmetry.space_group_name_Hall 'P 6 2' _symmetry.space_group_name_H-M 'P 6 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details 24-meric _pdbx_struct_assembly.oligomeric_count 24 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_755 -y+2,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 443.58 0 0 3 'crystal symmetry operation' 3_775 -x+y+2,-x+2,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 221.79 384.151549 0 4 'crystal symmetry operation' 10_775 -y+2,-x+2,-z 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 221.79 384.151549 0 5 'crystal symmetry operation' 11_755 -x+y+2,y,-z -1 0 0 0 1 0 0 0 -1 443.58 0 0 6 'crystal symmetry operation' 12_555 x,x-y,-z 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 E N N ? 5 F N N ? 5 G N N ? 5 H N N ? 5 I 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 C SG CYS 21 C CYS 23 1_555 C SG CYS 85 C CYS 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 C SG CYS 130 C CYS 132 1_555 C SG CYS 180 C CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf3 C SG CYS 155 C CYS 157 1_555 D SG CYS 168 D CYS 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 D SG CYS 22 D CYS 24 1_555 D SG CYS 90 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 D SG CYS 142 D CYS 144 1_555 D SG CYS 207 D CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? covale ? covale1 A SG CYS 82 A CYS 82 1_555 E CAA PUB . A PUB 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.809 ? covale ? covale2 B SG CYS 50 B CYS 50 1_555 I CAA PUB . B PUB 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.888 ? covale ? covale3 B SG CYS 61 B CYS 61 1_555 I CAD PUB . B PUB 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.577 ? covale ? covale4 B SG CYS 82 B CYS 82 1_555 G CAA PUB . B PUB 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.846 ? covale ? covale5 B SG CYS 158 B CYS 158 1_555 H CBA PUB . B PUB 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.846 ? # _chem_comp.formula 'C33 H42 N4 O6' _chem_comp.formula_weight 590.71 _chem_comp.id PUB _chem_comp.mon_nstd_flag . _chem_comp.name PHYCOUROBILIN _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 CHC C4C PUB sing 277 n n CHC C1D PUB sing 278 n n CHC HHC1 PUB sing 279 n n CHC HHC2 PUB sing 280 n n NC C1C PUB sing 281 n n NC C4C PUB doub 282 n n C1C C2C PUB sing 283 n n C1C CHB PUB doub 284 z n C2C C3C PUB doub 285 n n C2C CAC PUB sing 286 n n C3C C4C PUB sing 287 n n C3C CMC PUB sing 288 n n CMC HMC1 PUB sing 289 n n CMC HMC2 PUB sing 290 n n CMC HMC3 PUB sing 291 n n CAC CBC PUB sing 292 n n CAC HAC1 PUB sing 293 n n CAC HAC2 PUB sing 294 n n CBC CGC PUB sing 295 n n CBC HBC1 PUB sing 296 n n CBC HBC2 PUB sing 297 n n CGC O1C PUB doub 298 n n CGC O2C PUB sing 299 n n O2C HOC2 PUB sing 300 n n ND C1D PUB sing 301 n n ND C4D PUB sing 302 n n ND HND PUB sing 303 n n C1D C2D PUB sing 304 n n C1D H1D1 PUB sing 305 n n C2D C3D PUB doub 306 n n C2D CMD PUB sing 307 n n C3D C4D PUB sing 308 n n C3D CAD PUB sing 309 n n C4D OD PUB doub 310 n n CMD HMD1 PUB sing 311 n n CMD HMD2 PUB sing 312 n n CMD HMD3 PUB sing 313 n n CBD CAD PUB sing 314 n n CBD HBD1 PUB sing 315 n n CBD HBD2 PUB sing 316 n n CBD HBD3 PUB sing 317 n n NA C1A PUB sing 318 n n NA C4A PUB sing 319 n n NA HNA PUB sing 320 n n C1A C2A PUB sing 321 n n C1A OA PUB doub 322 n n C2A C3A PUB doub 323 n n C2A CMA PUB sing 324 n n C3A C4A PUB sing 325 n n C3A CAA PUB sing 326 n n C4A CHA PUB sing 327 n n C4A H4A1 PUB sing 328 n n CMA HMA1 PUB sing 329 n n CMA HMA2 PUB sing 330 n n CMA HMA3 PUB sing 331 n n CBA CAA PUB sing 332 n n CBA HBA1 PUB sing 333 n n CBA HBA2 PUB sing 334 n n CBA HBA3 PUB sing 335 n n CHA C1B PUB sing 336 n n CHA HHA1 PUB sing 337 n n CHA HHA2 PUB sing 338 n n CAA HAA1 PUB sing 339 n n CAA HAA2 PUB sing 340 n n CAD HAD1 PUB sing 341 n n CAD HAD2 PUB sing 342 n n NB C1B PUB sing 343 n y NB C4B PUB sing 344 n y NB HNB PUB sing 345 n n C1B C2B PUB doub 346 n y C2B C3B PUB sing 347 n y C2B CMB PUB sing 348 n n C3B C4B PUB doub 349 n y C3B CAB PUB sing 350 n n C4B CHB PUB sing 351 n n CHB HHB1 PUB sing 352 n n CMB HMB1 PUB sing 353 n n CMB HMB2 PUB sing 354 n n CMB HMB3 PUB sing 355 n n CAB CBB PUB sing 356 n n CAB HAB1 PUB sing 357 n n CAB HAB2 PUB sing 358 n n CBB CGB PUB sing 359 n n CBB HBB1 PUB sing 360 n n CBB HBB2 PUB sing 361 n n CGB O1B PUB doub 362 n n CGB O2B PUB sing 363 n n O2B HOB2 PUB sing 364 n n # _atom_sites.entry_id 8U0Y _atom_sites.fract_transf_matrix[1][1] 0.004509 _atom_sites.fract_transf_matrix[1][2] 0.002603 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005206 _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] 0.007177 _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 E 5 PUB A 1 201 2 PUB PEB . F 5 PUB A 1 202 3 PUB PEB . G 5 PUB B 1 201 4 PUB PEB . H 5 PUB B 1 202 5 PUB PEB . I 5 PUB B 1 203 1 PUB PUB . J 6 HOH A 1 301 2 HOH HOH . J 6 HOH A 2 302 17 HOH HOH . J 6 HOH A 3 303 7 HOH HOH . J 6 HOH A 4 304 15 HOH HOH . J 6 HOH A 5 305 16 HOH HOH . J 6 HOH A 6 306 14 HOH HOH . K 6 HOH B 1 301 18 HOH HOH . K 6 HOH B 2 302 6 HOH HOH . K 6 HOH B 3 303 5 HOH HOH . K 6 HOH B 4 304 12 HOH HOH . K 6 HOH B 5 305 11 HOH HOH . K 6 HOH B 6 306 4 HOH HOH . K 6 HOH B 7 307 3 HOH HOH . K 6 HOH B 8 308 9 HOH HOH . K 6 HOH B 9 309 8 HOH HOH . K 6 HOH B 10 310 10 HOH HOH . L 6 HOH C 1 201 1 HOH HOH . M 6 HOH D 1 301 13 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 CHC PUB . . . H 5 178.782 141.001 -5.345 1 35.73 ? CHC PUB 202 B 1 HETATM 2 N NC PUB . . . H 5 177.466 142.09 -7.32 1 37.62 ? NC PUB 202 B 1 HETATM 3 C C1C PUB . . . H 5 176.673 143.191 -7.44 1 38.72 ? C1C PUB 202 B 1 HETATM 4 C C2C PUB . . . H 5 176.578 143.852 -6.234 1 35.98 ? C2C PUB 202 B 1 HETATM 5 C C3C PUB . . . H 5 177.311 143.137 -5.346 1 29.8 ? C3C PUB 202 B 1 HETATM 6 C C4C PUB . . . H 5 177.842 142.05 -6.003 1 37.36 ? C4C PUB 202 B 1 HETATM 7 C CMC PUB . . . H 5 177.543 143.409 -3.898 1 28.37 ? CMC PUB 202 B 1 HETATM 8 C CAC PUB . . . H 5 175.781 145.143 -6.001 1 41.09 ? CAC PUB 202 B 1 HETATM 9 C CBC PUB . . . H 5 174.445 144.946 -5.266 1 47.33 ? CBC PUB 202 B 1 HETATM 10 C CGC PUB . . . H 5 173.852 143.536 -5.455 1 52.62 ? CGC PUB 202 B 1 HETATM 11 O O1C PUB . . . H 5 173.556 143.136 -6.626 1 59.31 ? O1C PUB 202 B 1 HETATM 12 O O2C PUB . . . H 5 173.646 142.767 -4.444 1 41.29 ? O2C PUB 202 B 1 HETATM 13 N ND PUB . . . H 5 180.465 142.83 -5.099 1 36.97 ? ND PUB 202 B 1 HETATM 14 C C1D PUB . . . H 5 180.125 141.396 -5.615 1 28.02 ? C1D PUB 202 B 1 HETATM 15 C C2D PUB . . . H 5 180.955 140.47 -4.908 1 24.36 ? C2D PUB 202 B 1 HETATM 16 C C3D PUB . . . H 5 181.522 141.074 -3.836 1 25.78 ? C3D PUB 202 B 1 HETATM 17 C C4D PUB . . . H 5 181.377 142.488 -3.923 1 30.37 ? C4D PUB 202 B 1 HETATM 18 C CMD PUB . . . H 5 180.884 138.962 -5.066 1 25.06 ? CMD PUB 202 B 1 HETATM 19 C CBD PUB . . . H 5 183.181 140.834 -1.991 1 28.45 ? CBD PUB 202 B 1 HETATM 20 O OD PUB . . . H 5 181.892 143.305 -3.173 1 30.8 ? OD PUB 202 B 1 HETATM 21 N NA PUB . . . H 5 173.699 139.071 -12.89 1 54.42 ? NA PUB 202 B 1 HETATM 22 C C1A PUB . . . H 5 173.561 138.203 -14.24 1 39.88 ? C1A PUB 202 B 1 HETATM 23 C C2A PUB . . . H 5 175.009 137.598 -14.594 1 31.44 ? C2A PUB 202 B 1 HETATM 24 C C3A PUB . . . H 5 175.802 137.924 -13.761 1 32.78 ? C3A PUB 202 B 1 HETATM 25 C C4A PUB . . . H 5 174.932 139.065 -12.686 1 44.32 ? C4A PUB 202 B 1 HETATM 26 C CMA PUB . . . H 5 175.124 135.981 -14.648 1 34.64 ? CMA PUB 202 B 1 HETATM 27 C CBA PUB . . . H 5 178.242 138.313 -14.208 1 41.46 ? CBA PUB 202 B 1 HETATM 28 O OA PUB . . . H 5 172.558 137.925 -14.888 1 46.03 ? OA PUB 202 B 1 HETATM 29 C CHA PUB . . . H 5 175.814 139.706 -11.836 1 37.98 ? CHA PUB 202 B 1 HETATM 30 C CAA PUB . . . H 5 176.823 138.668 -14.536 1 42.97 ? CAA PUB 202 B 1 HETATM 31 C CAD PUB . . . H 5 182.711 140.39 -3.174 1 22.8 ? CAD PUB 202 B 1 HETATM 32 N NB PUB . . . H 5 176.151 141.486 -9.973 1 45.55 ? NB PUB 202 B 1 HETATM 33 C C1B PUB . . . H 5 175.696 141.108 -11.329 1 35.57 ? C1B PUB 202 B 1 HETATM 34 C C2B PUB . . . H 5 175.038 142.21 -12.017 1 36.32 ? C2B PUB 202 B 1 HETATM 35 C C3B PUB . . . H 5 175.088 143.338 -11.131 1 44.2 ? C3B PUB 202 B 1 HETATM 36 C C4B PUB . . . H 5 175.776 142.929 -9.821 1 46.35 ? C4B PUB 202 B 1 HETATM 37 C CHB PUB . . . H 5 176.006 143.706 -8.718 1 41.4 ? CHB PUB 202 B 1 HETATM 38 C CMB PUB . . . H 5 174.444 142.223 -13.398 1 43.11 ? CMB PUB 202 B 1 HETATM 39 C CAB PUB . . . H 5 174.528 144.658 -11.595 1 36.47 ? CAB PUB 202 B 1 HETATM 40 C CBB PUB . . . H 5 173.639 145.164 -10.482 1 64.59 ? CBB PUB 202 B 1 HETATM 41 C CGB PUB . . . H 5 174.323 146.43 -10.006 1 71.8 ? CGB PUB 202 B 1 HETATM 42 O O1B PUB . . . H 5 175.523 146.648 -10.395 1 64.43 ? O1B PUB 202 B 1 HETATM 43 O O2B PUB . . . H 5 173.667 147.226 -9.253 1 66.42 ? O2B PUB 202 B 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #