data_9CVL # _model_server_result.job_id uSP4ufSDxCFqjCvAQAC9DQ _model_server_result.datetime_utc '2025-08-04 22:53:57' _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 9cvl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":801}' # _entry.id 9CVL # _exptl.entry_id 9CVL _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 9CVL _cell.length_a 48.787 _cell.length_b 114.049 _cell.length_c 164.444 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9CVL _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 E ZN ZN . A ZN 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.548 ? metalc ? metalc2 A SG CYS 30 A CYS 326 1_555 E ZN ZN . A ZN 804 3_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.576 ? metalc ? metalc3 A SG CYS 35 A CYS 331 1_555 E ZN ZN . A ZN 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? metalc ? metalc4 A SG CYS 35 A CYS 331 1_555 E ZN ZN . A ZN 804 3_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? metalc ? metalc5 A SG CYS 119 A CYS 415 1_555 B FE HEM . A HEM 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? # _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 206 n n CHA C4D HEM doub 207 n n CHA HHA HEM sing 208 n n CHB C4A HEM sing 209 n n CHB C1B HEM doub 210 n n CHB HHB HEM sing 211 n n CHC C4B HEM sing 212 n n CHC C1C HEM doub 213 n n CHC HHC HEM sing 214 n n CHD C4C HEM doub 215 n n CHD C1D HEM sing 216 n n CHD HHD HEM sing 217 n n C1A C2A HEM doub 218 n y C1A NA HEM sing 219 n y C2A C3A HEM sing 220 n y C2A CAA HEM sing 221 n n C3A C4A HEM doub 222 n y C3A CMA HEM sing 223 n n C4A NA HEM sing 224 n y CMA HMA HEM sing 225 n n CMA HMAA HEM sing 226 n n CMA HMAB HEM sing 227 n n CAA CBA HEM sing 228 n n CAA HAA HEM sing 229 n n CAA HAAA HEM sing 230 n n CBA CGA HEM sing 231 n n CBA HBA HEM sing 232 n n CBA HBAA HEM sing 233 n n CGA O1A HEM doub 234 n n CGA O2A HEM sing 235 n n C1B C2B HEM sing 236 n n C1B NB HEM sing 237 n n C2B C3B HEM doub 238 n n C2B CMB HEM sing 239 n n C3B C4B HEM sing 240 n n C3B CAB HEM sing 241 n n C4B NB HEM doub 242 n n CMB HMB HEM sing 243 n n CMB HMBA HEM sing 244 n n CMB HMBB HEM sing 245 n n CAB CBB HEM doub 246 n n CAB HAB HEM sing 247 n n CBB HBB HEM sing 248 n n CBB HBBA HEM sing 249 n n C1C C2C HEM sing 250 n y C1C NC HEM sing 251 n y C2C C3C HEM doub 252 n y C2C CMC HEM sing 253 n n C3C C4C HEM sing 254 n y C3C CAC HEM sing 255 n n C4C NC HEM sing 256 n y CMC HMC HEM sing 257 n n CMC HMCA HEM sing 258 n n CMC HMCB HEM sing 259 n n CAC CBC HEM doub 260 n n CAC HAC HEM sing 261 n n CBC HBC HEM sing 262 n n CBC HBCA HEM sing 263 n n C1D C2D HEM sing 264 n n C1D ND HEM doub 265 n n C2D C3D HEM doub 266 n n C2D CMD HEM sing 267 n n C3D C4D HEM sing 268 n n C3D CAD HEM sing 269 n n C4D ND HEM sing 270 n n CMD HMD HEM sing 271 n n CMD HMDA HEM sing 272 n n CMD HMDB HEM sing 273 n n CAD CBD HEM sing 274 n n CAD HAD HEM sing 275 n n CAD HADA HEM sing 276 n n CBD CGD HEM sing 277 n n CBD HBD HEM sing 278 n n CBD HBDA HEM sing 279 n n CGD O1D HEM doub 280 n n CGD O2D HEM sing 281 n n O2A H2A HEM sing 282 n n O2D H2D HEM sing 283 n n FE NA HEM sing 284 n n FE NB HEM sing 285 n n FE NC HEM sing 286 n n FE ND HEM sing 287 n n # _atom_sites.entry_id 9CVL _atom_sites.fract_transf_matrix[1][1] 0.020497 _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] 0.008768 _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] 0.006081 _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 ACT A 1 803 860 ACT ACT . E 5 ZN A 1 804 900 ZN ZN . F 6 A1A0N A 1 805 800 A1A0N 3V7 . G 7 HOH A 1 901 21 HOH HOH . G 7 HOH A 2 902 17 HOH HOH . G 7 HOH A 3 903 41 HOH HOH . G 7 HOH A 4 904 35 HOH HOH . G 7 HOH A 5 905 7 HOH HOH . G 7 HOH A 6 906 38 HOH HOH . G 7 HOH A 7 907 9 HOH HOH . G 7 HOH A 8 908 24 HOH HOH . G 7 HOH A 9 909 28 HOH HOH . G 7 HOH A 10 910 30 HOH HOH . G 7 HOH A 11 911 40 HOH HOH . G 7 HOH A 12 912 14 HOH HOH . G 7 HOH A 13 913 39 HOH HOH . G 7 HOH A 14 914 32 HOH HOH . G 7 HOH A 15 915 8 HOH HOH . G 7 HOH A 16 916 15 HOH HOH . G 7 HOH A 17 917 25 HOH HOH . G 7 HOH A 18 918 20 HOH HOH . G 7 HOH A 19 919 27 HOH HOH . G 7 HOH A 20 920 10 HOH HOH . G 7 HOH A 21 921 23 HOH HOH . G 7 HOH A 22 922 2 HOH HOH . G 7 HOH A 23 923 6 HOH HOH . G 7 HOH A 24 924 3 HOH HOH . G 7 HOH A 25 925 29 HOH HOH . G 7 HOH A 26 926 1 HOH HOH . G 7 HOH A 27 927 19 HOH HOH . G 7 HOH A 28 928 16 HOH HOH . G 7 HOH A 29 929 11 HOH HOH . G 7 HOH A 30 930 31 HOH HOH . G 7 HOH A 31 931 33 HOH HOH . G 7 HOH A 32 932 18 HOH HOH . G 7 HOH A 33 933 4 HOH HOH . G 7 HOH A 34 934 26 HOH HOH . G 7 HOH A 35 935 34 HOH HOH . G 7 HOH A 36 936 22 HOH HOH . G 7 HOH A 37 937 5 HOH HOH . G 7 HOH A 38 938 36 HOH HOH . G 7 HOH A 39 939 12 HOH HOH . G 7 HOH A 40 940 37 HOH HOH . G 7 HOH A 41 941 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 CHA HEM . . . B 2 -25.14 -4.615 26.48 1 63.32 ? CHA HEM 801 A 1 HETATM 2 C CHB HEM . . . B 2 -28.056 -0.75 25.961 1 63.33 ? CHB HEM 801 A 1 HETATM 3 C CHC HEM . . . B 2 -29.443 -2.493 21.584 1 61.63 ? CHC HEM 801 A 1 HETATM 4 C CHD HEM . . . B 2 -27.248 -6.711 22.553 1 59.31 ? CHD HEM 801 A 1 HETATM 5 C C1A HEM . . . B 2 -25.694 -3.351 26.679 1 64.19 ? C1A HEM 801 A 1 HETATM 6 C C2A HEM . . . B 2 -25.309 -2.333 27.663 1 68.53 ? C2A HEM 801 A 1 HETATM 7 C C3A HEM . . . B 2 -26.11 -1.265 27.513 1 66.79 ? C3A HEM 801 A 1 HETATM 8 C C4A HEM . . . B 2 -27.046 -1.558 26.442 1 62.85 ? C4A HEM 801 A 1 HETATM 9 C CMA HEM . . . B 2 -26.05 0.041 28.345 1 63.83 ? CMA HEM 801 A 1 HETATM 10 C CAA HEM . . . B 2 -24.151 -2.435 28.68 1 62.63 ? CAA HEM 801 A 1 HETATM 11 C CBA HEM . . . B 2 -22.848 -2.256 27.889 1 70.78 ? CBA HEM 801 A 1 HETATM 12 C CGA HEM . . . B 2 -21.82 -1.688 28.835 1 73.93 ? CGA HEM 801 A 1 HETATM 13 O O1A HEM . . . B 2 -22.25 -0.956 29.754 1 72.01 ? O1A HEM 801 A 1 HETATM 14 O O2A HEM . . . B 2 -20.591 -1.938 28.682 1 75.83 ? O2A HEM 801 A 1 HETATM 15 C C1B HEM . . . B 2 -28.69 -0.888 24.735 1 63.59 ? C1B HEM 801 A 1 HETATM 16 C C2B HEM . . . B 2 -29.633 0.057 24.164 1 62.18 ? C2B HEM 801 A 1 HETATM 17 C C3B HEM . . . B 2 -30.031 -0.425 22.972 1 65.66 ? C3B HEM 801 A 1 HETATM 18 C C4B HEM . . . B 2 -29.336 -1.687 22.719 1 62.81 ? C4B HEM 801 A 1 HETATM 19 C CMB HEM . . . B 2 -30.114 1.371 24.828 1 63.26 ? CMB HEM 801 A 1 HETATM 20 C CAB HEM . . . B 2 -31.039 0.283 22.032 1 66.46 ? CAB HEM 801 A 1 HETATM 21 C CBB HEM . . . B 2 -31.874 -0.424 21.269 1 68.7 ? CBB HEM 801 A 1 HETATM 22 C C1C HEM . . . B 2 -28.933 -3.765 21.424 1 61.84 ? C1C HEM 801 A 1 HETATM 23 C C2C HEM . . . B 2 -29.004 -4.589 20.224 1 59.9 ? C2C HEM 801 A 1 HETATM 24 C C3C HEM . . . B 2 -28.385 -5.762 20.485 1 59.12 ? C3C HEM 801 A 1 HETATM 25 C C4C HEM . . . B 2 -27.923 -5.72 21.867 1 59.61 ? C4C HEM 801 A 1 HETATM 26 C CMC HEM . . . B 2 -29.668 -4.098 18.911 1 59.45 ? CMC HEM 801 A 1 HETATM 27 C CAC HEM . . . B 2 -28.175 -7.01 19.596 1 58.65 ? CAC HEM 801 A 1 HETATM 28 C CBC HEM . . . B 2 -28.781 -7.223 18.421 1 61.54 ? CBC HEM 801 A 1 HETATM 29 C C1D HEM . . . B 2 -26.431 -6.491 23.657 1 61.77 ? C1D HEM 801 A 1 HETATM 30 C C2D HEM . . . B 2 -25.403 -7.387 24.154 1 61.17 ? C2D HEM 801 A 1 HETATM 31 C C3D HEM . . . B 2 -24.817 -6.82 25.22 1 61.7 ? C3D HEM 801 A 1 HETATM 32 C C4D HEM . . . B 2 -25.445 -5.526 25.458 1 63.97 ? C4D HEM 801 A 1 HETATM 33 C CMD HEM . . . B 2 -25.041 -8.761 23.554 1 59.38 ? CMD HEM 801 A 1 HETATM 34 C CAD HEM . . . B 2 -23.676 -7.484 26.018 1 61.04 ? CAD HEM 801 A 1 HETATM 35 C CBD HEM . . . B 2 -24.357 -8.457 26.971 1 70.27 ? CBD HEM 801 A 1 HETATM 36 C CGD HEM . . . B 2 -23.496 -9.63 27.408 1 72.69 ? CGD HEM 801 A 1 HETATM 37 O O1D HEM . . . B 2 -22.239 -9.464 27.537 1 70.95 ? O1D HEM 801 A 1 HETATM 38 O O2D HEM . . . B 2 -24.1 -10.729 27.625 1 66.08 ? O2D HEM 801 A 1 HETATM 39 N NA HEM . . . B 2 -26.764 -2.828 25.972 1 63.97 ? NA HEM 801 A 1 HETATM 40 N NB HEM . . . B 2 -28.526 -1.936 23.827 1 62.68 ? NB HEM 801 A 1 HETATM 41 N NC HEM . . . B 2 -28.272 -4.489 22.398 1 59.29 ? NC HEM 801 A 1 HETATM 42 N ND HEM . . . B 2 -26.43 -5.367 24.484 1 57.35 ? ND HEM 801 A 1 HETATM 43 FE FE HEM . . . B 2 -27.791 -3.834 24.399 1 57.96 ? FE HEM 801 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 37 _model_server_stats.query_time_ms 349 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #