data_6OYU # _model_server_result.job_id gMJ68-YboG6KbToXXjhPvQ _model_server_result.datetime_utc '2024-11-25 17:40:33' _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 6oyu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":605}' # _entry.id 6OYU # _exptl.entry_id 6OYU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 2 _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 6OYU _cell.length_a 164.641 _cell.length_b 164.641 _cell.length_c 96.301 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6OYU _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,I,S 1 1 B,J,K,L,M,N,O,P,Q,R,T 2 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 G N N ? 3 N 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 SG CYS 432 A CYS 470 1_555 G FE HEM . A HEM 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? metalc ? metalc2 B SG CYS 432 B CYS 470 1_555 N FE HEM . B HEM 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.69 ? # _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 178 n n CHA C4D HEM doub 179 n n CHA HHA HEM sing 180 n n CHB C4A HEM sing 181 n n CHB C1B HEM doub 182 n n CHB HHB HEM sing 183 n n CHC C4B HEM sing 184 n n CHC C1C HEM doub 185 n n CHC HHC HEM sing 186 n n CHD C4C HEM doub 187 n n CHD C1D HEM sing 188 n n CHD HHD HEM sing 189 n n C1A C2A HEM doub 190 n y C1A NA HEM sing 191 n y C2A C3A HEM sing 192 n y C2A CAA HEM sing 193 n n C3A C4A HEM doub 194 n y C3A CMA HEM sing 195 n n C4A NA HEM sing 196 n y CMA HMA HEM sing 197 n n CMA HMAA HEM sing 198 n n CMA HMAB HEM sing 199 n n CAA CBA HEM sing 200 n n CAA HAA HEM sing 201 n n CAA HAAA HEM sing 202 n n CBA CGA HEM sing 203 n n CBA HBA HEM sing 204 n n CBA HBAA HEM sing 205 n n CGA O1A HEM doub 206 n n CGA O2A HEM sing 207 n n C1B C2B HEM sing 208 n n C1B NB HEM sing 209 n n C2B C3B HEM doub 210 n n C2B CMB HEM sing 211 n n C3B C4B HEM sing 212 n n C3B CAB HEM sing 213 n n C4B NB HEM doub 214 n n CMB HMB HEM sing 215 n n CMB HMBA HEM sing 216 n n CMB HMBB HEM sing 217 n n CAB CBB HEM doub 218 n n CAB HAB HEM sing 219 n n CBB HBB HEM sing 220 n n CBB HBBA HEM sing 221 n n C1C C2C HEM sing 222 n y C1C NC HEM sing 223 n y C2C C3C HEM doub 224 n y C2C CMC HEM sing 225 n n C3C C4C HEM sing 226 n y C3C CAC HEM sing 227 n n C4C NC HEM sing 228 n y CMC HMC HEM sing 229 n n CMC HMCA HEM sing 230 n n CMC HMCB HEM sing 231 n n CAC CBC HEM doub 232 n n CAC HAC HEM sing 233 n n CBC HBC HEM sing 234 n n CBC HBCA HEM sing 235 n n C1D C2D HEM sing 236 n n C1D ND HEM doub 237 n n C2D C3D HEM doub 238 n n C2D CMD HEM sing 239 n n C3D C4D HEM sing 240 n n C3D CAD HEM sing 241 n n C4D ND HEM sing 242 n n CMD HMD HEM sing 243 n n CMD HMDA HEM sing 244 n n CMD HMDB HEM sing 245 n n CAD CBD HEM sing 246 n n CAD HAD HEM sing 247 n n CAD HADA HEM sing 248 n n CBD CGD HEM sing 249 n n CBD HBD HEM sing 250 n n CBD HBDA HEM sing 251 n n CGD O1D HEM doub 252 n n CGD O2D HEM sing 253 n n O2A H2A HEM sing 254 n n O2D H2D HEM sing 255 n n FE NA HEM sing 256 n n FE NB HEM sing 257 n n FE NC HEM sing 258 n n FE ND HEM sing 259 n n # _atom_sites.entry_id 6OYU _atom_sites.fract_transf_matrix[1][1] 0.006074 _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] 0.006074 _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] 0.010384 _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 C 2 BHF A 1 601 602 BHF BHF . D 2 BHF A 1 602 603 BHF BHF . E 2 BHF A 1 603 604 BHF BHF . F 2 BHF A 1 604 605 BHF BHF . G 3 HEM A 1 605 601 HEM HEM . H 4 GOL A 1 606 3 GOL GOL . I 4 GOL A 1 607 4 GOL GOL . J 2 BHF B 1 601 602 BHF BHF . K 2 BHF B 1 602 603 BHF BHF . L 2 BHF B 1 603 604 BHF BHF . M 2 BHF B 1 604 605 BHF BHF . N 3 HEM B 1 605 601 HEM HEM . O 4 GOL B 1 606 1 GOL GOL . P 4 GOL B 1 607 2 GOL GOL . Q 4 GOL B 1 608 6 GOL GOL . R 4 GOL B 1 609 7 GOL GOL . S 5 HOH A 1 701 17 HOH HOH . S 5 HOH A 2 702 1 HOH HOH . S 5 HOH A 3 703 10 HOH HOH . S 5 HOH A 4 704 36 HOH HOH . S 5 HOH A 5 705 20 HOH HOH . S 5 HOH A 6 706 14 HOH HOH . S 5 HOH A 7 707 18 HOH HOH . S 5 HOH A 8 708 8 HOH HOH . S 5 HOH A 9 709 32 HOH HOH . S 5 HOH A 10 710 15 HOH HOH . S 5 HOH A 11 711 4 HOH HOH . S 5 HOH A 12 712 7 HOH HOH . S 5 HOH A 13 713 33 HOH HOH . S 5 HOH A 14 714 12 HOH HOH . S 5 HOH A 15 715 13 HOH HOH . S 5 HOH A 16 716 38 HOH HOH . S 5 HOH A 17 717 16 HOH HOH . S 5 HOH A 18 718 19 HOH HOH . S 5 HOH A 19 719 28 HOH HOH . S 5 HOH A 20 720 37 HOH HOH . T 5 HOH B 1 701 30 HOH HOH . T 5 HOH B 2 702 40 HOH HOH . T 5 HOH B 3 703 2 HOH HOH . T 5 HOH B 4 704 3 HOH HOH . T 5 HOH B 5 705 9 HOH HOH . T 5 HOH B 6 706 21 HOH HOH . T 5 HOH B 7 707 25 HOH HOH . T 5 HOH B 8 708 24 HOH HOH . T 5 HOH B 9 709 26 HOH HOH . T 5 HOH B 10 710 5 HOH HOH . T 5 HOH B 11 711 6 HOH HOH . T 5 HOH B 12 712 27 HOH HOH . T 5 HOH B 13 713 11 HOH HOH . T 5 HOH B 14 714 44 HOH HOH . T 5 HOH B 15 715 35 HOH HOH . T 5 HOH B 16 716 31 HOH HOH . T 5 HOH B 17 717 39 HOH HOH . T 5 HOH B 18 718 34 HOH HOH . T 5 HOH B 19 719 41 HOH HOH . T 5 HOH B 20 720 22 HOH HOH . T 5 HOH B 21 721 23 HOH HOH . T 5 HOH B 22 722 42 HOH HOH . T 5 HOH B 23 723 43 HOH HOH . T 5 HOH B 24 724 29 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 . . . N 3 -15.052 -40.838 -93.602 1 30.51 ? CHA HEM 605 B 1 HETATM 2 C CHB HEM . . . N 3 -19.397 -38.786 -94.281 1 31.3 ? CHB HEM 605 B 1 HETATM 3 C CHC HEM . . . N 3 -17.739 -34.686 -92.284 1 33.06 ? CHC HEM 605 B 1 HETATM 4 C CHD HEM . . . N 3 -13.466 -36.809 -91.444 1 33.82 ? CHD HEM 605 B 1 HETATM 5 C C1A HEM . . . N 3 -16.337 -40.601 -94.036 1 28.45 ? C1A HEM 605 B 1 HETATM 6 C C2A HEM . . . N 3 -17.102 -41.459 -94.911 1 27.73 ? C2A HEM 605 B 1 HETATM 7 C C3A HEM . . . N 3 -18.301 -40.905 -95.102 1 25.55 ? C3A HEM 605 B 1 HETATM 8 C C4A HEM . . . N 3 -18.34 -39.666 -94.354 1 26.16 ? C4A HEM 605 B 1 HETATM 9 C CMA HEM . . . N 3 -19.444 -41.478 -95.97 1 25.52 ? CMA HEM 605 B 1 HETATM 10 C CAA HEM . . . N 3 -16.595 -42.786 -95.507 1 26.46 ? CAA HEM 605 B 1 HETATM 11 C CBA HEM . . . N 3 -17.157 -43.911 -94.651 1 31.24 ? CBA HEM 605 B 1 HETATM 12 C CGA HEM . . . N 3 -16.588 -45.228 -95.096 1 35.34 ? CGA HEM 605 B 1 HETATM 13 O O1A HEM . . . N 3 -16.986 -46.273 -94.52 1 40.69 ? O1A HEM 605 B 1 HETATM 14 O O2A HEM . . . N 3 -15.74 -45.235 -96.023 1 40.01 ? O2A HEM 605 B 1 HETATM 15 C C1B HEM . . . N 3 -19.34 -37.501 -93.786 1 34.72 ? C1B HEM 605 B 1 HETATM 16 C C2B HEM . . . N 3 -20.431 -36.549 -93.756 1 26.76 ? C2B HEM 605 B 1 HETATM 17 C C3B HEM . . . N 3 -19.97 -35.412 -93.207 1 31.2 ? C3B HEM 605 B 1 HETATM 18 C C4B HEM . . . N 3 -18.575 -35.612 -92.87 1 30.81 ? C4B HEM 605 B 1 HETATM 19 C CMB HEM . . . N 3 -21.85 -36.852 -94.287 1 20.31 ? CMB HEM 605 B 1 HETATM 20 C CAB HEM . . . N 3 -20.725 -34.087 -92.933 1 36.22 ? CAB HEM 605 B 1 HETATM 21 C CBB HEM . . . N 3 -22.042 -33.969 -93.124 1 37.55 ? CBB HEM 605 B 1 HETATM 22 C C1C HEM . . . N 3 -16.485 -34.944 -91.782 1 34.36 ? C1C HEM 605 B 1 HETATM 23 C C2C HEM . . . N 3 -15.759 -34.14 -90.817 1 34.16 ? C2C HEM 605 B 1 HETATM 24 C C3C HEM . . . N 3 -14.571 -34.724 -90.601 1 37.01 ? C3C HEM 605 B 1 HETATM 25 C C4C HEM . . . N 3 -14.52 -35.927 -91.402 1 35.87 ? C4C HEM 605 B 1 HETATM 26 C CMC HEM . . . N 3 -16.285 -32.831 -90.19 1 32.07 ? CMC HEM 605 B 1 HETATM 27 C CAC HEM . . . N 3 -13.434 -34.297 -89.643 1 31.89 ? CAC HEM 605 B 1 HETATM 28 C CBC HEM . . . N 3 -13.682 -33.561 -88.555 1 46.65 ? CBC HEM 605 B 1 HETATM 29 C C1D HEM . . . N 3 -13.507 -38.07 -91.986 1 32.57 ? C1D HEM 605 B 1 HETATM 30 C C2D HEM . . . N 3 -12.401 -38.996 -92.062 1 34.07 ? C2D HEM 605 B 1 HETATM 31 C C3D HEM . . . N 3 -12.839 -40.112 -92.656 1 31.7 ? C3D HEM 605 B 1 HETATM 32 C C4D HEM . . . N 3 -14.237 -39.925 -92.979 1 32.36 ? C4D HEM 605 B 1 HETATM 33 C CMD HEM . . . N 3 -10.978 -38.716 -91.534 1 29.28 ? CMD HEM 605 B 1 HETATM 34 C CAD HEM . . . N 3 -12.025 -41.387 -92.96 1 32 ? CAD HEM 605 B 1 HETATM 35 C CBD HEM . . . N 3 -12.288 -42.418 -91.868 1 31.83 ? CBD HEM 605 B 1 HETATM 36 C CGD HEM . . . N 3 -11.66 -43.74 -92.229 1 34.48 ? CGD HEM 605 B 1 HETATM 37 O O1D HEM . . . N 3 -11.392 -44.545 -91.3 1 35.24 ? O1D HEM 605 B 1 HETATM 38 O O2D HEM . . . N 3 -11.421 -43.998 -93.439 1 30.72 ? O2D HEM 605 B 1 HETATM 39 N NA HEM . . . N 3 -17.124 -39.514 -93.718 1 25.68 ? NA HEM 605 B 1 HETATM 40 N NB HEM . . . N 3 -18.226 -36.895 -93.238 1 31.87 ? NB HEM 605 B 1 HETATM 41 N NC HEM . . . N 3 -15.7 -36.031 -92.117 1 37.93 ? NC HEM 605 B 1 HETATM 42 N ND HEM . . . N 3 -14.616 -38.667 -92.555 1 36.61 ? ND HEM 605 B 1 HETATM 43 FE FE HEM . . . N 3 -16.476 -37.796 -92.881 1 31.37 ? FE HEM 605 B 1 HETATM 44 H HHB HEM . . . N 3 -20.265 -39.101 -94.609 1 37.83 ? HHB HEM 605 B 1 HETATM 45 H HHC HEM . . . N 3 -18.067 -33.764 -92.22 1 39.94 ? HHC HEM 605 B 1 HETATM 46 H HHD HEM . . . N 3 -12.616 -36.514 -91.055 1 40.85 ? HHD HEM 605 B 1 HETATM 47 H HMA HEM . . . N 3 -20.22 -40.881 -95.925 1 30.89 ? HMA HEM 605 B 1 HETATM 48 H HMAA HEM . . . N 3 -19.695 -42.365 -95.637 1 30.89 ? HMAA HEM 605 B 1 HETATM 49 H HMAB HEM . . . N 3 -19.143 -41.552 -96.9 1 30.89 ? HMAB HEM 605 B 1 HETATM 50 H HAA HEM . . . N 3 -15.625 -42.808 -95.489 1 32.02 ? HAA HEM 605 B 1 HETATM 51 H HAAA HEM . . . N 3 -16.904 -42.878 -96.421 1 32.02 ? HAAA HEM 605 B 1 HETATM 52 H HBA HEM . . . N 3 -18.122 -43.932 -94.742 1 37.77 ? HBA HEM 605 B 1 HETATM 53 H HBAA HEM . . . N 3 -16.922 -43.757 -93.723 1 37.77 ? HBAA HEM 605 B 1 HETATM 54 H HMB HEM . . . N 3 -21.81 -37.589 -94.915 1 24.64 ? HMB HEM 605 B 1 HETATM 55 H HMBA HEM . . . N 3 -22.203 -36.066 -94.734 1 24.64 ? HMBA HEM 605 B 1 HETATM 56 H HMBB HEM . . . N 3 -22.43 -37.089 -93.546 1 24.64 ? HMBB HEM 605 B 1 HETATM 57 H HAB HEM . . . N 3 -20.231 -33.327 -92.616 1 43.74 ? HAB HEM 605 B 1 HETATM 58 H HBB HEM . . . N 3 -22.485 -33.126 -92.944 1 45.33 ? HBB HEM 605 B 1 HETATM 59 H HBBA HEM . . . N 3 -22.555 -34.728 -93.444 1 45.33 ? HBBA HEM 605 B 1 HETATM 60 H HMC HEM . . . N 3 -16.825 -32.355 -90.84 1 38.76 ? HMC HEM 605 B 1 HETATM 61 H HMCA HEM . . . N 3 -15.535 -32.276 -89.924 1 38.76 ? HMCA HEM 605 B 1 HETATM 62 H HMCB HEM . . . N 3 -16.825 -33.039 -89.412 1 38.76 ? HMCB HEM 605 B 1 HETATM 63 H HAC HEM . . . N 3 -12.532 -34.566 -89.834 1 38.54 ? HAC HEM 605 B 1 HETATM 64 H HBC HEM . . . N 3 -12.955 -33.304 -87.967 1 56.25 ? HBC HEM 605 B 1 HETATM 65 H HBCA HEM . . . N 3 -14.59 -33.285 -88.353 1 56.25 ? HBCA HEM 605 B 1 HETATM 66 H HMD HEM . . . N 3 -10.43 -39.523 -91.626 1 35.4 ? HMD HEM 605 B 1 HETATM 67 H HMDA HEM . . . N 3 -11.024 -38.458 -90.59 1 35.4 ? HMDA HEM 605 B 1 HETATM 68 H HMDB HEM . . . N 3 -10.575 -37.988 -92.052 1 35.4 ? HMDB HEM 605 B 1 HETATM 69 H HAD HEM . . . N 3 -11.08 -41.171 -92.982 1 38.67 ? HAD HEM 605 B 1 HETATM 70 H HADA HEM . . . N 3 -12.295 -41.748 -93.819 1 38.67 ? HADA HEM 605 B 1 HETATM 71 H HBD HEM . . . N 3 -13.246 -42.536 -91.765 1 38.47 ? HBD HEM 605 B 1 HETATM 72 H HBDA HEM . . . N 3 -11.909 -42.102 -91.033 1 38.47 ? HBDA HEM 605 B 1 HETATM 73 H HHA HEM . . . N 3 -14.688 -41.736 -93.751 1 36.88 ? HHA HEM 605 B 1 # _model_server_stats.io_time_ms 36 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 73 #