data_9CVK # _model_server_result.job_id rSvq1fv0Zf1h2J53RjfyZw _model_server_result.datetime_utc '2025-06-19 23:08:33' _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 9cvk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":801}' # _entry.id 9CVK # _exptl.entry_id 9CVK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 2 _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 90 _cell.entry_id 9CVK _cell.length_a 48.737 _cell.length_b 113.321 _cell.length_c 163.105 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9CVK _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 2 _struct_asym.id B _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 metalc ? metalc1 A SG CYS 30 A CYS 326 1_555 F ZN ZN . A ZN 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? metalc ? metalc2 A SG CYS 30 A CYS 326 1_555 F ZN ZN . A ZN 805 3_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc3 A SG CYS 35 A CYS 331 1_555 F ZN ZN . A ZN 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc4 A SG CYS 35 A CYS 331 1_555 F ZN ZN . A ZN 805 3_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc5 A SG CYS 119 A CYS 415 1_555 B FE HEM . A HEM 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? # _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 203 n n CHA C4D HEM doub 204 n n CHA HHA HEM sing 205 n n CHB C4A HEM sing 206 n n CHB C1B HEM doub 207 n n CHB HHB HEM sing 208 n n CHC C4B HEM sing 209 n n CHC C1C HEM doub 210 n n CHC HHC HEM sing 211 n n CHD C4C HEM doub 212 n n CHD C1D HEM sing 213 n n CHD HHD HEM sing 214 n n C1A C2A HEM doub 215 n y C1A NA HEM sing 216 n y C2A C3A HEM sing 217 n y C2A CAA HEM sing 218 n n C3A C4A HEM doub 219 n y C3A CMA HEM sing 220 n n C4A NA HEM sing 221 n y CMA HMA HEM sing 222 n n CMA HMAA HEM sing 223 n n CMA HMAB HEM sing 224 n n CAA CBA HEM sing 225 n n CAA HAA HEM sing 226 n n CAA HAAA HEM sing 227 n n CBA CGA HEM sing 228 n n CBA HBA HEM sing 229 n n CBA HBAA HEM sing 230 n n CGA O1A HEM doub 231 n n CGA O2A HEM sing 232 n n C1B C2B HEM sing 233 n n C1B NB HEM sing 234 n n C2B C3B HEM doub 235 n n C2B CMB HEM sing 236 n n C3B C4B HEM sing 237 n n C3B CAB HEM sing 238 n n C4B NB HEM doub 239 n n CMB HMB HEM sing 240 n n CMB HMBA HEM sing 241 n n CMB HMBB HEM sing 242 n n CAB CBB HEM doub 243 n n CAB HAB HEM sing 244 n n CBB HBB HEM sing 245 n n CBB HBBA HEM sing 246 n n C1C C2C HEM sing 247 n y C1C NC HEM sing 248 n y C2C C3C HEM doub 249 n y C2C CMC HEM sing 250 n n C3C C4C HEM sing 251 n y C3C CAC HEM sing 252 n n C4C NC HEM sing 253 n y CMC HMC HEM sing 254 n n CMC HMCA HEM sing 255 n n CMC HMCB HEM sing 256 n n CAC CBC HEM doub 257 n n CAC HAC HEM sing 258 n n CBC HBC HEM sing 259 n n CBC HBCA HEM sing 260 n n C1D C2D HEM sing 261 n n C1D ND HEM doub 262 n n C2D C3D HEM doub 263 n n C2D CMD HEM sing 264 n n C3D C4D HEM sing 265 n n C3D CAD HEM sing 266 n n C4D ND HEM sing 267 n n CMD HMD HEM sing 268 n n CMD HMDA HEM sing 269 n n CMD HMDB HEM sing 270 n n CAD CBD HEM sing 271 n n CAD HAD HEM sing 272 n n CAD HADA HEM sing 273 n n CBD CGD HEM sing 274 n n CBD HBD HEM sing 275 n n CBD HBDA HEM sing 276 n n CGD O1D HEM doub 277 n n CGD O2D HEM sing 278 n n O2A H2A HEM sing 279 n n O2D H2D HEM sing 280 n n FE NA HEM sing 281 n n FE NB HEM sing 282 n n FE NC HEM sing 283 n n FE ND HEM sing 284 n n # _atom_sites.entry_id 9CVK _atom_sites.fract_transf_matrix[1][1] 0.020518 _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] 0.008824 _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] 0.006131 _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 HEM A 1 801 750 HEM HEM . C 3 H4B A 1 802 760 H4B BH4 . D 4 A1A0G A 1 803 800 A1A0G 3V0 . E 5 ACT A 1 804 860 ACT ACT . F 6 ZN A 1 805 900 ZN ZN . G 7 HOH A 1 901 30 HOH HOH . G 7 HOH A 2 902 38 HOH HOH . G 7 HOH A 3 903 3 HOH HOH . G 7 HOH A 4 904 31 HOH HOH . G 7 HOH A 5 905 27 HOH HOH . G 7 HOH A 6 906 21 HOH HOH . G 7 HOH A 7 907 37 HOH HOH . G 7 HOH A 8 908 34 HOH HOH . G 7 HOH A 9 909 24 HOH HOH . G 7 HOH A 10 910 19 HOH HOH . G 7 HOH A 11 911 35 HOH HOH . G 7 HOH A 12 912 17 HOH HOH . G 7 HOH A 13 913 16 HOH HOH . G 7 HOH A 14 914 13 HOH HOH . G 7 HOH A 15 915 42 HOH HOH . G 7 HOH A 16 916 25 HOH HOH . G 7 HOH A 17 917 7 HOH HOH . G 7 HOH A 18 918 14 HOH HOH . G 7 HOH A 19 919 1 HOH HOH . G 7 HOH A 20 920 15 HOH HOH . G 7 HOH A 21 921 29 HOH HOH . G 7 HOH A 22 922 18 HOH HOH . G 7 HOH A 23 923 26 HOH HOH . G 7 HOH A 24 924 20 HOH HOH . G 7 HOH A 25 925 40 HOH HOH . G 7 HOH A 26 926 23 HOH HOH . G 7 HOH A 27 927 12 HOH HOH . G 7 HOH A 28 928 8 HOH HOH . G 7 HOH A 29 929 36 HOH HOH . G 7 HOH A 30 930 6 HOH HOH . G 7 HOH A 31 931 5 HOH HOH . G 7 HOH A 32 932 28 HOH HOH . G 7 HOH A 33 933 4 HOH HOH . G 7 HOH A 34 934 11 HOH HOH . G 7 HOH A 35 935 2 HOH HOH . G 7 HOH A 36 936 10 HOH HOH . G 7 HOH A 37 937 33 HOH HOH . G 7 HOH A 38 938 39 HOH HOH . G 7 HOH A 39 939 9 HOH HOH . G 7 HOH A 40 940 32 HOH HOH . G 7 HOH A 41 941 22 HOH HOH . G 7 HOH A 42 942 41 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 . . . B 2 -25.208 -4.404 26.256 1 50.93 ? CHA HEM 801 A 1 HETATM 2 C CHB HEM . . . B 2 -28.161 -0.621 25.74 1 59.7 ? CHB HEM 801 A 1 HETATM 3 C CHC HEM . . . B 2 -29.454 -2.39 21.393 1 62.16 ? CHC HEM 801 A 1 HETATM 4 C CHD HEM . . . B 2 -27.113 -6.526 22.289 1 57.04 ? CHD HEM 801 A 1 HETATM 5 C C1A HEM . . . B 2 -25.764 -3.158 26.459 1 61.27 ? C1A HEM 801 A 1 HETATM 6 C C2A HEM . . . B 2 -25.363 -2.132 27.414 1 62.49 ? C2A HEM 801 A 1 HETATM 7 C C3A HEM . . . B 2 -26.19 -1.093 27.264 1 63.65 ? C3A HEM 801 A 1 HETATM 8 C C4A HEM . . . B 2 -27.139 -1.409 26.215 1 63.96 ? C4A HEM 801 A 1 HETATM 9 C CMA HEM . . . B 2 -26.123 0.216 28.086 1 43.89 ? CMA HEM 801 A 1 HETATM 10 C CAA HEM . . . B 2 -24.2 -2.167 28.433 1 57.17 ? CAA HEM 801 A 1 HETATM 11 C CBA HEM . . . B 2 -22.866 -1.905 27.725 1 66.92 ? CBA HEM 801 A 1 HETATM 12 C CGA HEM . . . B 2 -21.837 -1.324 28.673 1 74.05 ? CGA HEM 801 A 1 HETATM 13 O O1A HEM . . . B 2 -22.197 -0.455 29.517 1 75.36 ? O1A HEM 801 A 1 HETATM 14 O O2A HEM . . . B 2 -20.636 -1.705 28.579 1 72.53 ? O2A HEM 801 A 1 HETATM 15 C C1B HEM . . . B 2 -28.767 -0.763 24.513 1 64.34 ? C1B HEM 801 A 1 HETATM 16 C C2B HEM . . . B 2 -29.689 0.185 23.925 1 63.61 ? C2B HEM 801 A 1 HETATM 17 C C3B HEM . . . B 2 -30.061 -0.298 22.727 1 67.68 ? C3B HEM 801 A 1 HETATM 18 C C4B HEM . . . B 2 -29.372 -1.57 22.504 1 64.59 ? C4B HEM 801 A 1 HETATM 19 C CMB HEM . . . B 2 -30.166 1.504 24.575 1 53.6 ? CMB HEM 801 A 1 HETATM 20 C CAB HEM . . . B 2 -31.049 0.426 21.779 1 70.37 ? CAB HEM 801 A 1 HETATM 21 C CBB HEM . . . B 2 -31.62 -0.181 20.737 1 69.69 ? CBB HEM 801 A 1 HETATM 22 C C1C HEM . . . B 2 -28.914 -3.644 21.232 1 57.78 ? C1C HEM 801 A 1 HETATM 23 C C2C HEM . . . B 2 -29.01 -4.463 20.031 1 53.98 ? C2C HEM 801 A 1 HETATM 24 C C3C HEM . . . B 2 -28.363 -5.628 20.275 1 58.87 ? C3C HEM 801 A 1 HETATM 25 C C4C HEM . . . B 2 -27.846 -5.562 21.64 1 48.73 ? C4C HEM 801 A 1 HETATM 26 C CMC HEM . . . B 2 -29.753 -3.967 18.765 1 51.89 ? CMC HEM 801 A 1 HETATM 27 C CAC HEM . . . B 2 -28.155 -6.865 19.369 1 63.94 ? CAC HEM 801 A 1 HETATM 28 C CBC HEM . . . B 2 -28.668 -6.971 18.137 1 60.96 ? CBC HEM 801 A 1 HETATM 29 C C1D HEM . . . B 2 -26.4 -6.314 23.45 1 55.33 ? C1D HEM 801 A 1 HETATM 30 C C2D HEM . . . B 2 -25.546 -7.269 24.103 1 51.93 ? C2D HEM 801 A 1 HETATM 31 C C3D HEM . . . B 2 -25.018 -6.678 25.208 1 53.03 ? C3D HEM 801 A 1 HETATM 32 C C4D HEM . . . B 2 -25.523 -5.33 25.272 1 50.31 ? C4D HEM 801 A 1 HETATM 33 C CMD HEM . . . B 2 -25.339 -8.707 23.581 1 40.23 ? CMD HEM 801 A 1 HETATM 34 C CAD HEM . . . B 2 -24.071 -7.229 26.301 1 55.55 ? CAD HEM 801 A 1 HETATM 35 C CBD HEM . . . B 2 -22.787 -7.901 25.852 1 64.85 ? CBD HEM 801 A 1 HETATM 36 C CGD HEM . . . B 2 -22.377 -8.843 26.977 1 68.36 ? CGD HEM 801 A 1 HETATM 37 O O1D HEM . . . B 2 -23.058 -9.892 27.186 1 59.35 ? O1D HEM 801 A 1 HETATM 38 O O2D HEM . . . B 2 -21.357 -8.543 27.645 1 65.94 ? O2D HEM 801 A 1 HETATM 39 N NA HEM . . . B 2 -26.849 -2.674 25.758 1 66.32 ? NA HEM 801 A 1 HETATM 40 N NB HEM . . . B 2 -28.59 -1.82 23.618 1 61.15 ? NB HEM 801 A 1 HETATM 41 N NC HEM . . . B 2 -28.203 -4.347 22.176 1 54.76 ? NC HEM 801 A 1 HETATM 42 N ND HEM . . . B 2 -26.365 -5.14 24.182 1 47.87 ? ND HEM 801 A 1 HETATM 43 FE FE HEM . . . B 2 -27.846 -3.718 24.168 1 52.1 ? FE HEM 801 A 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 362 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 43 #