data_2OYE # _model_server_result.job_id h3sWB78vzRS1QAPdxsU02Q _model_server_result.datetime_utc '2024-11-24 07:46:18' _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 2oye # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":601}' # _entry.id 2OYE # _exptl.entry_id 2OYE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _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 2OYE _cell.length_a 181.72 _cell.length_b 181.72 _cell.length_c 104.09 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2OYE _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 7_644 y+1,x-1,-z-1/3 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 272.58 -157.374136 -34.696667 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide 4 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NDG NAG C1 O1 . O4 HO4 . sing 2 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 3 4 3 BMA BMA C1 O1 . O6 HO6 . sing 5 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 A 1 NAG T 661 NAG 2 n B NDG 2 A 2 NDG T 662 NDG 3 n C NAG 1 B 1 NAG S 671 NAG 3 n C NAG 2 B 2 NAG S 672 NAG 3 n C BMA 3 B 3 BMA S 673 BMA 3 n C BMA 4 B 4 BMA S 674 BMA 4 n D NAG 1 C 1 NAG U 681 NAG 4 n D NAG 2 C 2 NAG U 682 NAG # 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 36 P CYS 36 1_555 A SG CYS 47 P CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? disulf ? disulf2 A SG CYS 37 P CYS 37 1_555 A SG CYS 159 P CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf3 A SG CYS 41 P CYS 41 1_555 A SG CYS 57 P CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf4 A SG CYS 59 P CYS 59 1_555 A SG CYS 69 P CYS 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf5 A SG CYS 569 P CYS 569 1_555 A SG CYS 575 P CYS 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? covale ? covale1 A ND2 ASN 68 P ASN 68 1_555 B C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale2 A ND2 ASN 144 P ASN 144 1_555 C C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale3 A ND2 ASN 410 P ASN 410 1_555 D C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale4 B O4 NAG . A NAG 1 1_555 B C1 NDG . A NDG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.397 ? covale ? covale5 C O4 NAG . B NAG 1 1_555 C C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.403 ? covale ? covale6 C O4 NAG . B NAG 2 1_555 C C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.407 ? covale ? covale7 C O6 BMA . B BMA 3 1_555 C C1 BMA . B BMA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.41 ? covale ? covale8 D O4 NAG . C NAG 1 1_555 D C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 ? metalc ? metalc1 A NE2 HIS 388 P HIS 388 1_555 H FE HEM . P HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? # _chem_comp.formula 'C34 H32 Fe N4 O4' _chem_comp.formula_weight 616.487 _chem_comp.id HEM _chem_comp.mon_nstd_flag . _chem_comp.name 'PROTOPORPHYRIN IX CONTAINING FE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEME # 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 CHA C1A HEM sing 218 n n CHA C4D HEM doub 219 n n CHA HHA HEM sing 220 n n CHB C4A HEM sing 221 n n CHB C1B HEM doub 222 n n CHB HHB HEM sing 223 n n CHC C4B HEM sing 224 n n CHC C1C HEM doub 225 n n CHC HHC HEM sing 226 n n CHD C4C HEM doub 227 n n CHD C1D HEM sing 228 n n CHD HHD HEM sing 229 n n C1A C2A HEM doub 230 n y C1A NA HEM sing 231 n y C2A C3A HEM sing 232 n y C2A CAA HEM sing 233 n n C3A C4A HEM doub 234 n y C3A CMA HEM sing 235 n n C4A NA HEM sing 236 n y CMA HMA HEM sing 237 n n CMA HMAA HEM sing 238 n n CMA HMAB HEM sing 239 n n CAA CBA HEM sing 240 n n CAA HAA HEM sing 241 n n CAA HAAA HEM sing 242 n n CBA CGA HEM sing 243 n n CBA HBA HEM sing 244 n n CBA HBAA HEM sing 245 n n CGA O1A HEM doub 246 n n CGA O2A HEM sing 247 n n C1B C2B HEM sing 248 n n C1B NB HEM sing 249 n n C2B C3B HEM doub 250 n n C2B CMB HEM sing 251 n n C3B C4B HEM sing 252 n n C3B CAB HEM sing 253 n n C4B NB HEM doub 254 n n CMB HMB HEM sing 255 n n CMB HMBA HEM sing 256 n n CMB HMBB HEM sing 257 n n CAB CBB HEM doub 258 n n CAB HAB HEM sing 259 n n CBB HBB HEM sing 260 n n CBB HBBA HEM sing 261 n n C1C C2C HEM sing 262 n y C1C NC HEM sing 263 n y C2C C3C HEM doub 264 n y C2C CMC HEM sing 265 n n C3C C4C HEM sing 266 n y C3C CAC HEM sing 267 n n C4C NC HEM sing 268 n y CMC HMC HEM sing 269 n n CMC HMCA HEM sing 270 n n CMC HMCB HEM sing 271 n n CAC CBC HEM doub 272 n n CAC HAC HEM sing 273 n n CBC HBC HEM sing 274 n n CBC HBCA HEM sing 275 n n C1D C2D HEM sing 276 n n C1D ND HEM doub 277 n n C2D C3D HEM doub 278 n n C2D CMD HEM sing 279 n n C3D C4D HEM sing 280 n n C3D CAD HEM sing 281 n n C4D ND HEM sing 282 n n CMD HMD HEM sing 283 n n CMD HMDA HEM sing 284 n n CMD HMDB HEM sing 285 n n CAD CBD HEM sing 286 n n CAD HAD HEM sing 287 n n CAD HADA HEM sing 288 n n CBD CGD HEM sing 289 n n CBD HBD HEM sing 290 n n CBD HBDA HEM sing 291 n n CGD O1D HEM doub 292 n n CGD O2D HEM sing 293 n n O2A H2A HEM sing 294 n n O2D H2D HEM sing 295 n n FE NA HEM sing 296 n n FE NB HEM sing 297 n n FE NC HEM sing 298 n n FE ND HEM sing 299 n n # _atom_sites.entry_id 2OYE _atom_sites.fract_transf_matrix[1][1] 0.005503 _atom_sites.fract_transf_matrix[1][2] 0.003177 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006354 _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] 0.009607 _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 BOG P 1 750 750 BOG BOG . F 5 BOG P 1 751 751 BOG BOG . G 6 FLC P 1 900 900 FLC FLC . H 7 HEM P 1 601 601 HEM HEM . I 8 IM8 P 1 700 700 IM8 IM8 . J 9 HOH P 1 901 1 HOH HOH . J 9 HOH P 2 902 2 HOH HOH . J 9 HOH P 3 903 3 HOH HOH . J 9 HOH P 4 904 4 HOH HOH . J 9 HOH P 5 905 5 HOH HOH . J 9 HOH P 6 906 6 HOH HOH . J 9 HOH P 7 907 7 HOH HOH . J 9 HOH P 8 908 8 HOH HOH . J 9 HOH P 9 909 9 HOH HOH . J 9 HOH P 10 910 11 HOH HOH . J 9 HOH P 11 911 13 HOH HOH . J 9 HOH P 12 912 14 HOH HOH . J 9 HOH P 13 913 16 HOH HOH . J 9 HOH P 14 914 17 HOH HOH . J 9 HOH P 15 915 18 HOH HOH . J 9 HOH P 16 916 19 HOH HOH . J 9 HOH P 17 917 20 HOH HOH . J 9 HOH P 18 918 21 HOH HOH . J 9 HOH P 19 919 26 HOH HOH . J 9 HOH P 20 920 27 HOH HOH . J 9 HOH P 21 921 28 HOH HOH . J 9 HOH P 22 922 31 HOH HOH . J 9 HOH P 23 923 32 HOH HOH . J 9 HOH P 24 924 35 HOH HOH . J 9 HOH P 25 925 36 HOH HOH . J 9 HOH P 26 926 37 HOH HOH . J 9 HOH P 27 927 44 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 CHA HEM . . . H 7 239.48 91.021 -41.322 1 73.23 ? CHA HEM 601 P 1 HETATM 2 C CHB HEM . . . H 7 241.253 87.992 -44.604 1 73.23 ? CHB HEM 601 P 1 HETATM 3 C CHC HEM . . . H 7 245.337 90.462 -44.516 1 73.23 ? CHC HEM 601 P 1 HETATM 4 C CHD HEM . . . H 7 243.65 93.482 -41.279 1 73.23 ? CHD HEM 601 P 1 HETATM 5 C C1A HEM . . . H 7 239.546 89.94 -42.231 1 73.23 ? C1A HEM 601 P 1 HETATM 6 C C2A HEM . . . H 7 238.459 88.886 -42.532 1 73.23 ? C2A HEM 601 P 1 HETATM 7 C C3A HEM . . . H 7 239.016 88.017 -43.507 1 73.23 ? C3A HEM 601 P 1 HETATM 8 C C4A HEM . . . H 7 240.411 88.573 -43.739 1 73.23 ? C4A HEM 601 P 1 HETATM 9 C CMA HEM . . . H 7 238.401 86.789 -44.167 1 73.23 ? CMA HEM 601 P 1 HETATM 10 C CAA HEM . . . H 7 236.99 88.661 -41.947 1 73.23 ? CAA HEM 601 P 1 HETATM 11 C CBA HEM . . . H 7 235.796 89.339 -42.655 1 73.23 ? CBA HEM 601 P 1 HETATM 12 C CGA HEM . . . H 7 235.813 90.863 -42.673 1 73.23 ? CGA HEM 601 P 1 HETATM 13 O O1A HEM . . . H 7 235.834 91.47 -41.547 1 73.23 ? O1A HEM 601 P 1 HETATM 14 O O2A HEM . . . H 7 235.722 91.466 -43.794 1 73.23 ? O2A HEM 601 P 1 HETATM 15 C C1B HEM . . . H 7 242.52 88.383 -44.874 1 73.23 ? C1B HEM 601 P 1 HETATM 16 C C2B HEM . . . H 7 243.403 87.695 -45.823 1 73.23 ? C2B HEM 601 P 1 HETATM 17 C C3B HEM . . . H 7 244.566 88.398 -45.797 1 73.23 ? C3B HEM 601 P 1 HETATM 18 C C4B HEM . . . H 7 244.374 89.507 -44.84 1 73.23 ? C4B HEM 601 P 1 HETATM 19 C CMB HEM . . . H 7 243.069 86.471 -46.627 1 73.23 ? CMB HEM 601 P 1 HETATM 20 C CAB HEM . . . H 7 245.783 88.117 -46.58 1 73.23 ? CAB HEM 601 P 1 HETATM 21 C CBB HEM . . . H 7 246.525 86.965 -46.519 1 73.23 ? CBB HEM 601 P 1 HETATM 22 C C1C HEM . . . H 7 245.242 91.517 -43.625 1 73.23 ? C1C HEM 601 P 1 HETATM 23 C C2C HEM . . . H 7 246.318 92.452 -43.342 1 73.23 ? C2C HEM 601 P 1 HETATM 24 C C3C HEM . . . H 7 245.809 93.326 -42.382 1 73.23 ? C3C HEM 601 P 1 HETATM 25 C C4C HEM . . . H 7 244.491 92.891 -42.162 1 73.23 ? C4C HEM 601 P 1 HETATM 26 C CMC HEM . . . H 7 247.722 92.474 -44.03 1 73.23 ? CMC HEM 601 P 1 HETATM 27 C CAC HEM . . . H 7 246.394 94.451 -41.681 1 73.23 ? CAC HEM 601 P 1 HETATM 28 C CBC HEM . . . H 7 246.952 95.654 -42.199 1 73.23 ? CBC HEM 601 P 1 HETATM 29 C C1D HEM . . . H 7 242.339 93.063 -41 1 73.23 ? C1D HEM 601 P 1 HETATM 30 C C2D HEM . . . H 7 241.426 93.74 -39.986 1 73.23 ? C2D HEM 601 P 1 HETATM 31 C C3D HEM . . . H 7 240.286 93.02 -40.035 1 73.23 ? C3D HEM 601 P 1 HETATM 32 C C4D HEM . . . H 7 240.447 91.967 -41.005 1 73.23 ? C4D HEM 601 P 1 HETATM 33 C CMD HEM . . . H 7 241.872 94.954 -39.173 1 73.23 ? CMD HEM 601 P 1 HETATM 34 C CAD HEM . . . H 7 239.025 93.239 -39.2 1 73.23 ? CAD HEM 601 P 1 HETATM 35 C CBD HEM . . . H 7 239.111 92.407 -37.912 1 73.23 ? CBD HEM 601 P 1 HETATM 36 C CGD HEM . . . H 7 237.825 92.48 -37.086 1 73.23 ? CGD HEM 601 P 1 HETATM 37 O O1D HEM . . . H 7 237.687 93.359 -36.205 1 73.23 ? O1D HEM 601 P 1 HETATM 38 O O2D HEM . . . H 7 236.942 91.651 -37.323 1 73.23 ? O2D HEM 601 P 1 HETATM 39 N NA HEM . . . H 7 240.708 89.686 -43.011 1 73.23 ? NA HEM 601 P 1 HETATM 40 N NB HEM . . . H 7 243.098 89.506 -44.262 1 73.23 ? NB HEM 601 P 1 HETATM 41 N NC HEM . . . H 7 244.126 91.828 -42.876 1 73.23 ? NC HEM 601 P 1 HETATM 42 N ND HEM . . . H 7 241.756 92.017 -41.603 1 73.23 ? ND HEM 601 P 1 HETATM 43 FE FE HEM . . . H 7 242.387 90.763 -42.954 1 73.23 ? FE HEM 601 P 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #