data_8FDN # _model_server_result.job_id y1bixAtIOeKPUykhbfA5Pg _model_server_result.datetime_utc '2024-11-30 08:30:49' _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 8fdn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 8FDN # _exptl.entry_id 8FDN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 4 _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 8FDN _cell.length_a 53.262 _cell.length_b 53.262 _cell.length_c 192.545 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8FDN _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall 'P 4w' _symmetry.space_group_name_H-M 'P 41' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 G N N ? 3 L N N ? 3 M 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 metalc ? metalc1 A NE2 HIS 87 A HIS 87 1_555 F FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc2 F FE HEM . A HEM 302 1_555 Q O HOH . A HOH 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc3 B NE2 HIS 92 B HIS 92 1_555 H FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.493 ? metalc ? metalc4 C NE2 HIS 87 C HIS 87 1_555 J FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc5 J FE HEM . C HEM 201 1_555 S O HOH . C HOH 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc6 D NE2 HIS 63 D HIS 63 1_555 O FE HEM . D HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc7 D NE2 HIS 92 D HIS 92 1_555 O FE HEM . D HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.606 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 O1 GOL sing 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 8FDN _atom_sites.fract_transf_matrix[1][1] 0.018775 _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] 0.018775 _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] 0.005194 _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 3 GOL A 1 301 301 GOL GOL . F 4 HEM A 1 302 302 HEM HEM . G 3 GOL A 1 303 303 GOL GOL . H 4 HEM B 1 201 201 HEM HEM . I 5 XQZ B 1 202 202 XQZ XQZ . J 4 HEM C 1 201 201 HEM HEM . K 5 XQZ C 1 202 202 XQZ XQZ . L 3 GOL C 1 203 203 GOL GOL . M 3 GOL C 1 204 204 GOL GOL . N 5 XQZ C 1 205 205 XQZ XQZ . O 4 HEM D 1 201 201 HEM HEM . P 5 XQZ D 1 202 202 XQZ XQZ . Q 6 HOH A 1 401 401 HOH HOH . Q 6 HOH A 2 402 402 HOH HOH . Q 6 HOH A 3 403 403 HOH HOH . Q 6 HOH A 4 404 404 HOH HOH . Q 6 HOH A 5 405 405 HOH HOH . Q 6 HOH A 6 406 406 HOH HOH . Q 6 HOH A 7 407 407 HOH HOH . Q 6 HOH A 8 408 408 HOH HOH . Q 6 HOH A 9 409 409 HOH HOH . Q 6 HOH A 10 410 410 HOH HOH . Q 6 HOH A 11 411 411 HOH HOH . Q 6 HOH A 12 412 412 HOH HOH . Q 6 HOH A 13 413 413 HOH HOH . Q 6 HOH A 14 414 414 HOH HOH . Q 6 HOH A 15 415 415 HOH HOH . Q 6 HOH A 16 416 416 HOH HOH . Q 6 HOH A 17 417 417 HOH HOH . Q 6 HOH A 18 418 418 HOH HOH . Q 6 HOH A 19 419 419 HOH HOH . Q 6 HOH A 20 420 420 HOH HOH . Q 6 HOH A 21 421 421 HOH HOH . Q 6 HOH A 22 422 422 HOH HOH . Q 6 HOH A 23 423 423 HOH HOH . Q 6 HOH A 24 424 424 HOH HOH . Q 6 HOH A 25 425 425 HOH HOH . Q 6 HOH A 26 426 426 HOH HOH . R 6 HOH B 1 301 301 HOH HOH . R 6 HOH B 2 302 302 HOH HOH . R 6 HOH B 3 303 303 HOH HOH . R 6 HOH B 4 304 304 HOH HOH . R 6 HOH B 5 305 305 HOH HOH . R 6 HOH B 6 306 306 HOH HOH . R 6 HOH B 7 307 307 HOH HOH . R 6 HOH B 8 308 308 HOH HOH . R 6 HOH B 9 309 309 HOH HOH . R 6 HOH B 10 310 310 HOH HOH . R 6 HOH B 11 311 311 HOH HOH . R 6 HOH B 12 312 312 HOH HOH . R 6 HOH B 13 313 313 HOH HOH . R 6 HOH B 14 314 314 HOH HOH . R 6 HOH B 15 315 315 HOH HOH . R 6 HOH B 16 316 316 HOH HOH . R 6 HOH B 17 317 317 HOH HOH . R 6 HOH B 18 318 318 HOH HOH . R 6 HOH B 19 319 319 HOH HOH . R 6 HOH B 20 320 320 HOH HOH . R 6 HOH B 21 321 321 HOH HOH . R 6 HOH B 22 322 322 HOH HOH . R 6 HOH B 23 323 323 HOH HOH . S 6 HOH C 1 301 301 HOH HOH . S 6 HOH C 2 302 302 HOH HOH . S 6 HOH C 3 303 303 HOH HOH . S 6 HOH C 4 304 304 HOH HOH . S 6 HOH C 5 305 305 HOH HOH . S 6 HOH C 6 306 306 HOH HOH . S 6 HOH C 7 307 307 HOH HOH . S 6 HOH C 8 308 308 HOH HOH . S 6 HOH C 9 309 309 HOH HOH . S 6 HOH C 10 310 310 HOH HOH . S 6 HOH C 11 311 311 HOH HOH . S 6 HOH C 12 312 312 HOH HOH . S 6 HOH C 13 313 313 HOH HOH . S 6 HOH C 14 314 314 HOH HOH . S 6 HOH C 15 315 315 HOH HOH . S 6 HOH C 16 316 316 HOH HOH . S 6 HOH C 17 317 317 HOH HOH . S 6 HOH C 18 318 318 HOH HOH . S 6 HOH C 19 319 319 HOH HOH . S 6 HOH C 20 320 320 HOH HOH . S 6 HOH C 21 321 321 HOH HOH . S 6 HOH C 22 322 322 HOH HOH . S 6 HOH C 23 323 323 HOH HOH . S 6 HOH C 24 324 324 HOH HOH . S 6 HOH C 25 325 325 HOH HOH . S 6 HOH C 26 326 326 HOH HOH . S 6 HOH C 27 327 327 HOH HOH . S 6 HOH C 28 328 328 HOH HOH . S 6 HOH C 29 329 329 HOH HOH . S 6 HOH C 30 330 330 HOH HOH . T 6 HOH D 1 302 302 HOH HOH . T 6 HOH D 2 303 303 HOH HOH . T 6 HOH D 3 304 304 HOH HOH . T 6 HOH D 4 305 305 HOH HOH . T 6 HOH D 5 306 306 HOH HOH . T 6 HOH D 6 307 307 HOH HOH . T 6 HOH D 7 308 308 HOH HOH . T 6 HOH D 8 309 309 HOH HOH . T 6 HOH D 9 310 310 HOH HOH . T 6 HOH D 10 311 311 HOH HOH . T 6 HOH D 11 312 312 HOH HOH . T 6 HOH D 12 313 313 HOH HOH . T 6 HOH D 13 314 314 HOH HOH . T 6 HOH D 14 315 315 HOH HOH . T 6 HOH D 15 316 316 HOH HOH . T 6 HOH D 16 317 317 HOH HOH . T 6 HOH D 17 318 318 HOH HOH . T 6 HOH D 18 319 319 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 C1 GOL . . . E 3 25.25 -1.505 0.996 1 74.46 ? C1 GOL 301 A 1 HETATM 2 O O1 GOL . . . E 3 23.834 -1.64 1.028 1 67.47 ? O1 GOL 301 A 1 HETATM 3 C C2 GOL . . . E 3 25.645 -0.868 -0.39 1 79.85 ? C2 GOL 301 A 1 HETATM 4 O O2 GOL . . . E 3 27.031 -0.874 -0.617 1 80.1 ? O2 GOL 301 A 1 HETATM 5 C C3 GOL . . . E 3 24.912 -1.72 -1.488 1 67.06 ? C3 GOL 301 A 1 HETATM 6 O O3 GOL . . . E 3 25.351 -3.039 -1.302 1 54.47 ? O3 GOL 301 A 1 HETATM 7 H H11 GOL . . . E 3 25.705 -2.356 1.095 1 89.29 ? H11 GOL 301 A 1 HETATM 8 H H12 GOL . . . E 3 25.584 -0.94 1.711 1 89.29 ? H12 GOL 301 A 1 HETATM 9 H HO1 GOL . . . E 3 23.632 -1.928 1.793 1 80.9 ? HO1 GOL 301 A 1 HETATM 10 H H2 GOL . . . E 3 25.356 0.058 -0.398 1 95.76 ? H2 GOL 301 A 1 HETATM 11 H HO2 GOL . . . E 3 27.419 -0.967 0.139 1 96.07 ? HO2 GOL 301 A 1 HETATM 12 H H31 GOL . . . E 3 25.121 -1.36 -2.364 1 80.41 ? H31 GOL 301 A 1 HETATM 13 H H32 GOL . . . E 3 23.953 -1.612 -1.389 1 80.41 ? H32 GOL 301 A 1 HETATM 14 H HO3 GOL . . . E 3 26.182 -2.988 -1.093 1 65.3 ? HO3 GOL 301 A 1 # _model_server_stats.io_time_ms 121 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #