data_6DA8 # _model_server_result.job_id '_eYlIA6BhhUbu0jbPnm6gw' _model_server_result.datetime_utc '2024-11-05 06:47:40' _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 6da8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 6DA8 # _exptl.entry_id 6DA8 _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 6DA8 _cell.length_a 76.25 _cell.length_b 101.68 _cell.length_c 126.24 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DA8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 422 A CYS 442 1_555 B FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? metalc ? metalc2 B FE HEM . A HEM 601 1_555 C N28 G0J . A G0J 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? # _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 6DA8 _atom_sites.fract_transf_matrix[1][1] 0.013115 _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] 0.009835 _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] 0.007921 _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 1 601 500 HEM HEM . C 3 G0J A 1 602 700 G0J 187 . # 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 -23.109 -31.096 -8.98 1 51.67 ? CHA HEM 601 A 1 HETATM 2 C CHB HEM . . . B 2 -22.432 -28.28 -12.886 1 51.24 ? CHB HEM 601 A 1 HETATM 3 C CHC HEM . . . B 2 -21.805 -24.336 -10.132 1 54.91 ? CHC HEM 601 A 1 HETATM 4 C CHD HEM . . . B 2 -22.844 -27.033 -6.229 1 67.17 ? CHD HEM 601 A 1 HETATM 5 C C1A HEM . . . B 2 -22.959 -30.658 -10.276 1 64.07 ? C1A HEM 601 A 1 HETATM 6 C C2A HEM . . . B 2 -23.023 -31.495 -11.461 1 60.22 ? C2A HEM 601 A 1 HETATM 7 C C3A HEM . . . B 2 -22.857 -30.739 -12.539 1 52.35 ? C3A HEM 601 A 1 HETATM 8 C C4A HEM . . . B 2 -22.641 -29.376 -12.081 1 50.45 ? C4A HEM 601 A 1 HETATM 9 C CMA HEM . . . B 2 -22.878 -31.248 -13.988 1 51.28 ? CMA HEM 601 A 1 HETATM 10 C CAA HEM . . . B 2 -23.279 -32.999 -11.513 1 74.78 ? CAA HEM 601 A 1 HETATM 11 C CBA HEM . . . B 2 -24.759 -33.202 -11.834 1 84.53 ? CBA HEM 601 A 1 HETATM 12 C CGA HEM . . . B 2 -24.963 -34.704 -11.909 1 73.48 ? CGA HEM 601 A 1 HETATM 13 O O1A HEM . . . B 2 -25.886 -35.131 -12.674 1 66.21 ? O1A HEM 601 A 1 HETATM 14 O O2A HEM . . . B 2 -24.193 -35.473 -11.224 1 66.97 ? O2A HEM 601 A 1 HETATM 15 C C1B HEM . . . B 2 -22.232 -26.983 -12.459 1 62.02 ? C1B HEM 601 A 1 HETATM 16 C C2B HEM . . . B 2 -21.987 -25.845 -13.334 1 55.77 ? C2B HEM 601 A 1 HETATM 17 C C3B HEM . . . B 2 -21.814 -24.726 -12.593 1 52.78 ? C3B HEM 601 A 1 HETATM 18 C C4B HEM . . . B 2 -21.943 -25.158 -11.214 1 61.59 ? C4B HEM 601 A 1 HETATM 19 C CMB HEM . . . B 2 -21.972 -26.01 -14.86 1 56.01 ? CMB HEM 601 A 1 HETATM 20 C CAB HEM . . . B 2 -21.532 -23.247 -12.977 1 74.57 ? CAB HEM 601 A 1 HETATM 21 C CBB HEM . . . B 2 -21.377 -22.815 -14.24 1 82.06 ? CBB HEM 601 A 1 HETATM 22 C C1C HEM . . . B 2 -22.065 -24.755 -8.86 1 65.42 ? C1C HEM 601 A 1 HETATM 23 C C2C HEM . . . B 2 -22.136 -23.833 -7.775 1 72.66 ? C2C HEM 601 A 1 HETATM 24 C C3C HEM . . . B 2 -22.414 -24.503 -6.685 1 68.82 ? C3C HEM 601 A 1 HETATM 25 C C4C HEM . . . B 2 -22.551 -25.935 -7.031 1 74.19 ? C4C HEM 601 A 1 HETATM 26 C CMC HEM . . . B 2 -21.931 -22.314 -7.846 1 80.67 ? CMC HEM 601 A 1 HETATM 27 C CAC HEM . . . B 2 -22.552 -23.687 -5.39 1 49.68 ? CAC HEM 601 A 1 HETATM 28 C CBC HEM . . . B 2 -22.569 -24.235 -4.185 1 51.14 ? CBC HEM 601 A 1 HETATM 29 C C1D HEM . . . B 2 -22.951 -28.348 -6.652 1 65.77 ? C1D HEM 601 A 1 HETATM 30 C C2D HEM . . . B 2 -23.063 -29.504 -5.777 1 69.21 ? C2D HEM 601 A 1 HETATM 31 C C3D HEM . . . B 2 -23.129 -30.622 -6.524 1 53.53 ? C3D HEM 601 A 1 HETATM 32 C C4D HEM . . . B 2 -23.074 -30.219 -7.914 1 56.93 ? C4D HEM 601 A 1 HETATM 33 C CMD HEM . . . B 2 -23.087 -29.406 -4.242 1 72.61 ? CMD HEM 601 A 1 HETATM 34 C CAD HEM . . . B 2 -23.26 -32.088 -6.064 1 44.64 ? CAD HEM 601 A 1 HETATM 35 C CBD HEM . . . B 2 -24.747 -32.41 -6.031 1 80.1 ? CBD HEM 601 A 1 HETATM 36 C CGD HEM . . . B 2 -25.08 -33.615 -5.189 1 77.15 ? CGD HEM 601 A 1 HETATM 37 O O1D HEM . . . B 2 -26.254 -33.731 -4.749 1 70.58 ? O1D HEM 601 A 1 HETATM 38 O O2D HEM . . . B 2 -24.182 -34.46 -4.948 1 74.9 ? O2D HEM 601 A 1 HETATM 39 N NA HEM . . . B 2 -22.709 -29.365 -10.698 1 57.51 ? NA HEM 601 A 1 HETATM 40 N NB HEM . . . B 2 -22.206 -26.518 -11.166 1 61.79 ? NB HEM 601 A 1 HETATM 41 N NC HEM . . . B 2 -22.323 -26.03 -8.4 1 65.02 ? NC HEM 601 A 1 HETATM 42 N ND HEM . . . B 2 -22.968 -28.827 -7.966 1 65.52 ? ND HEM 601 A 1 HETATM 43 FE FE HEM . . . B 2 -22.784 -27.592 -9.722 1 71.7 ? FE HEM 601 A 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #