data_5IRV # _model_server_result.job_id vGLCD7Zmo4ZAbSOvr16dTQ _model_server_result.datetime_utc '2024-11-25 06:30:12' _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 5irv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":600}' # _entry.id 5IRV # _exptl.entry_id 5IRV _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 4 _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 5IRV _cell.length_a 90.954 _cell.length_b 153.499 _cell.length_c 169.035 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5IRV _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F 1 1 B,G,H 2 1 C,I,J 3 1 D,K,L 4 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 ? 2 E N N ? 2 G N N ? 2 I N N ? 2 K 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 E FE HEM . A HEM 600 1_555 F N27 6D8 . A 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc2 G FE HEM . B HEM 600 1_555 H N26 6D8 . B 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.765 ? metalc ? metalc3 G FE HEM . B HEM 600 1_555 H N27 6D8 . B 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc4 I FE HEM . C HEM 600 1_555 J N27 6D8 . C 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? metalc ? metalc5 K FE HEM . D HEM 600 1_555 L N26 6D8 . D 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.74 ? metalc ? metalc6 K FE HEM . D HEM 600 1_555 L N27 6D8 . D 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? # _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 176 n n CHA C4D HEM doub 177 n n CHA HHA HEM sing 178 n n CHB C4A HEM sing 179 n n CHB C1B HEM doub 180 n n CHB HHB HEM sing 181 n n CHC C4B HEM sing 182 n n CHC C1C HEM doub 183 n n CHC HHC HEM sing 184 n n CHD C4C HEM doub 185 n n CHD C1D HEM sing 186 n n CHD HHD HEM sing 187 n n C1A C2A HEM doub 188 n y C1A NA HEM sing 189 n y C2A C3A HEM sing 190 n y C2A CAA HEM sing 191 n n C3A C4A HEM doub 192 n y C3A CMA HEM sing 193 n n C4A NA HEM sing 194 n y CMA HMA HEM sing 195 n n CMA HMAA HEM sing 196 n n CMA HMAB HEM sing 197 n n CAA CBA HEM sing 198 n n CAA HAA HEM sing 199 n n CAA HAAA HEM sing 200 n n CBA CGA HEM sing 201 n n CBA HBA HEM sing 202 n n CBA HBAA HEM sing 203 n n CGA O1A HEM doub 204 n n CGA O2A HEM sing 205 n n C1B C2B HEM sing 206 n n C1B NB HEM sing 207 n n C2B C3B HEM doub 208 n n C2B CMB HEM sing 209 n n C3B C4B HEM sing 210 n n C3B CAB HEM sing 211 n n C4B NB HEM doub 212 n n CMB HMB HEM sing 213 n n CMB HMBA HEM sing 214 n n CMB HMBB HEM sing 215 n n CAB CBB HEM doub 216 n n CAB HAB HEM sing 217 n n CBB HBB HEM sing 218 n n CBB HBBA HEM sing 219 n n C1C C2C HEM sing 220 n y C1C NC HEM sing 221 n y C2C C3C HEM doub 222 n y C2C CMC HEM sing 223 n n C3C C4C HEM sing 224 n y C3C CAC HEM sing 225 n n C4C NC HEM sing 226 n y CMC HMC HEM sing 227 n n CMC HMCA HEM sing 228 n n CMC HMCB HEM sing 229 n n CAC CBC HEM doub 230 n n CAC HAC HEM sing 231 n n CBC HBC HEM sing 232 n n CBC HBCA HEM sing 233 n n C1D C2D HEM sing 234 n n C1D ND HEM doub 235 n n C2D C3D HEM doub 236 n n C2D CMD HEM sing 237 n n C3D C4D HEM sing 238 n n C3D CAD HEM sing 239 n n C4D ND HEM sing 240 n n CMD HMD HEM sing 241 n n CMD HMDA HEM sing 242 n n CMD HMDB HEM sing 243 n n CAD CBD HEM sing 244 n n CAD HAD HEM sing 245 n n CAD HADA HEM sing 246 n n CBD CGD HEM sing 247 n n CBD HBD HEM sing 248 n n CBD HBDA HEM sing 249 n n CGD O1D HEM doub 250 n n CGD O2D HEM sing 251 n n O2A H2A HEM sing 252 n n O2D H2D HEM sing 253 n n FE NA HEM sing 254 n n FE NB HEM sing 255 n n FE NC HEM sing 256 n n FE ND HEM sing 257 n n # _atom_sites.entry_id 5IRV _atom_sites.fract_transf_matrix[1][1] 0.010995 _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] 0.006515 _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] 0.005916 _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 2 HEM A 1 600 600 HEM HEM . F 3 6D8 A 1 601 601 6D8 LIG . G 2 HEM B 1 600 600 HEM HEM . H 3 6D8 B 1 601 601 6D8 LIG . I 2 HEM C 1 600 600 HEM HEM . J 3 6D8 C 1 601 601 6D8 LIG . K 2 HEM D 1 600 600 HEM HEM . L 3 6D8 D 1 601 601 6D8 LIG . # 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 . . . E 2 20.415 -111.334 27.613 1 49.05 ? CHA HEM 600 A 1 HETATM 2 C CHB HEM . . . E 2 21.009 -111.539 32.429 1 42.52 ? CHB HEM 600 A 1 HETATM 3 C CHC HEM . . . E 2 16.921 -114.083 32.618 1 48.83 ? CHC HEM 600 A 1 HETATM 4 C CHD HEM . . . E 2 16.045 -113.484 27.914 1 42.6 ? CHD HEM 600 A 1 HETATM 5 C C1A HEM . . . E 2 20.958 -111.193 28.875 1 54.43 ? C1A HEM 600 A 1 HETATM 6 C C2A HEM . . . E 2 22.242 -110.587 29.198 1 49.97 ? C2A HEM 600 A 1 HETATM 7 C C3A HEM . . . E 2 22.405 -110.651 30.525 1 44.2 ? C3A HEM 600 A 1 HETATM 8 C C4A HEM . . . E 2 21.235 -111.288 31.093 1 45.3 ? C4A HEM 600 A 1 HETATM 9 C CMA HEM . . . E 2 23.605 -110.13 31.342 1 40.87 ? CMA HEM 600 A 1 HETATM 10 C CAA HEM . . . E 2 23.233 -109.994 28.166 1 41.1 ? CAA HEM 600 A 1 HETATM 11 C CBA HEM . . . E 2 23.535 -108.519 28.408 1 60.03 ? CBA HEM 600 A 1 HETATM 12 C CGA HEM . . . E 2 24.435 -108.034 27.299 1 66.07 ? CGA HEM 600 A 1 HETATM 13 O O1A HEM . . . E 2 24.891 -108.876 26.483 1 44.14 ? O1A HEM 600 A 1 HETATM 14 O O2A HEM . . . E 2 24.689 -106.805 27.227 1 53.57 ? O2A HEM 600 A 1 HETATM 15 C C1B HEM . . . E 2 19.95 -112.272 32.911 1 39.45 ? C1B HEM 600 A 1 HETATM 16 C C2B HEM . . . E 2 19.709 -112.668 34.29 1 44.91 ? C2B HEM 600 A 1 HETATM 17 C C3B HEM . . . E 2 18.565 -113.375 34.313 1 42.37 ? C3B HEM 600 A 1 HETATM 18 C C4B HEM . . . E 2 18.075 -113.439 32.966 1 47.43 ? C4B HEM 600 A 1 HETATM 19 C CMB HEM . . . E 2 20.647 -112.287 35.457 1 45.8 ? CMB HEM 600 A 1 HETATM 20 C CAB HEM . . . E 2 17.77 -114.069 35.443 1 41.86 ? CAB HEM 600 A 1 HETATM 21 C CBB HEM . . . E 2 18.024 -113.951 36.742 1 52.95 ? CBB HEM 600 A 1 HETATM 22 C C1C HEM . . . E 2 16.318 -114.091 31.396 1 43.34 ? C1C HEM 600 A 1 HETATM 23 C C2C HEM . . . E 2 15.003 -114.615 31.169 1 43.19 ? C2C HEM 600 A 1 HETATM 24 C C3C HEM . . . E 2 14.734 -114.521 29.877 1 38.54 ? C3C HEM 600 A 1 HETATM 25 C C4C HEM . . . E 2 15.863 -113.845 29.235 1 38.08 ? C4C HEM 600 A 1 HETATM 26 C CMC HEM . . . E 2 14.131 -115.268 32.262 1 53.99 ? CMC HEM 600 A 1 HETATM 27 C CAC HEM . . . E 2 13.384 -115.003 29.305 1 43.12 ? CAC HEM 600 A 1 HETATM 28 C CBC HEM . . . E 2 12.961 -114.685 28.091 1 56.13 ? CBC HEM 600 A 1 HETATM 29 C C1D HEM . . . E 2 17.172 -112.853 27.418 1 43.78 ? C1D HEM 600 A 1 HETATM 30 C C2D HEM . . . E 2 17.422 -112.515 26.03 1 43.24 ? C2D HEM 600 A 1 HETATM 31 C C3D HEM . . . E 2 18.623 -111.921 25.946 1 45.23 ? C3D HEM 600 A 1 HETATM 32 C C4D HEM . . . E 2 19.185 -111.869 27.283 1 44.05 ? C4D HEM 600 A 1 HETATM 33 C CMD HEM . . . E 2 16.429 -112.799 24.884 1 46.61 ? CMD HEM 600 A 1 HETATM 34 C CAD HEM . . . E 2 19.344 -111.375 24.687 1 48.33 ? CAD HEM 600 A 1 HETATM 35 C CBD HEM . . . E 2 19.069 -109.881 24.515 1 56.7 ? CBD HEM 600 A 1 HETATM 36 C CGD HEM . . . E 2 19.809 -109.31 23.326 1 55.44 ? CGD HEM 600 A 1 HETATM 37 O O1D HEM . . . E 2 19.355 -108.265 22.796 1 46.11 ? O1D HEM 600 A 1 HETATM 38 O O2D HEM . . . E 2 20.841 -109.885 22.896 1 53.57 ? O2D HEM 600 A 1 HETATM 39 N NA HEM . . . E 2 20.376 -111.604 30.058 1 37.47 ? NA HEM 600 A 1 HETATM 40 N NB HEM . . . E 2 18.929 -112.764 32.129 1 39.13 ? NB HEM 600 A 1 HETATM 41 N NC HEM . . . E 2 16.818 -113.614 30.207 1 35.39 ? NC HEM 600 A 1 HETATM 42 N ND HEM . . . E 2 18.275 -112.446 28.148 1 38.39 ? ND HEM 600 A 1 HETATM 43 FE FE HEM . . . E 2 18.622 -112.6 30.124 1 44.85 ? FE HEM 600 A 1 HETATM 44 H HHB HEM . . . E 2 21.499 -110.988 33.075 1 51.02 ? HHB HEM 600 A 1 HETATM 45 H HHC HEM . . . E 2 16.478 -114.596 33.326 1 58.6 ? HHC HEM 600 A 1 HETATM 46 H HHD HEM . . . E 2 15.424 -113.866 27.26 1 51.12 ? HHD HEM 600 A 1 HETATM 47 H HMA HEM . . . E 2 24.423 -110.583 31.047 1 49.04 ? HMA HEM 600 A 1 HETATM 48 H HMAA HEM . . . E 2 23.457 -110.311 32.293 1 49.04 ? HMAA HEM 600 A 1 HETATM 49 H HMAB HEM . . . E 2 23.7 -109.164 31.204 1 49.04 ? HMAB HEM 600 A 1 HETATM 50 H HAA HEM . . . E 2 22.855 -110.093 27.278 1 49.31 ? HAA HEM 600 A 1 HETATM 51 H HAAA HEM . . . E 2 24.064 -110.493 28.209 1 49.31 ? HAAA HEM 600 A 1 HETATM 52 H HBA HEM . . . E 2 23.982 -108.412 29.262 1 72.04 ? HBA HEM 600 A 1 HETATM 53 H HBAA HEM . . . E 2 22.709 -108.011 28.405 1 72.04 ? HBAA HEM 600 A 1 HETATM 54 H HMB HEM . . . E 2 21.532 -112.648 35.292 1 54.96 ? HMB HEM 600 A 1 HETATM 55 H HMBA HEM . . . E 2 20.299 -112.653 36.285 1 54.96 ? HMBA HEM 600 A 1 HETATM 56 H HMBB HEM . . . E 2 20.7 -111.321 35.528 1 54.96 ? HMBB HEM 600 A 1 HETATM 57 H HAB HEM . . . E 2 17.034 -114.63 35.186 1 50.23 ? HAB HEM 600 A 1 HETATM 58 H HBB HEM . . . E 2 17.478 -114.425 37.388 1 63.54 ? HBB HEM 600 A 1 HETATM 59 H HBBA HEM . . . E 2 18.759 -113.394 37.043 1 63.54 ? HBBA HEM 600 A 1 HETATM 60 H HMC HEM . . . E 2 13.285 -115.547 31.877 1 64.78 ? HMC HEM 600 A 1 HETATM 61 H HMCA HEM . . . E 2 13.968 -114.627 32.971 1 64.78 ? HMCA HEM 600 A 1 HETATM 62 H HMCB HEM . . . E 2 14.592 -116.041 32.624 1 64.78 ? HMCB HEM 600 A 1 HETATM 63 H HAC HEM . . . E 2 12.825 -115.558 29.854 1 51.75 ? HAC HEM 600 A 1 HETATM 64 H HBC HEM . . . E 2 12.102 -115.008 27.776 1 67.35 ? HBC HEM 600 A 1 HETATM 65 H HBCA HEM . . . E 2 13.508 -114.125 27.518 1 67.35 ? HBCA HEM 600 A 1 HETATM 66 H HMD HEM . . . E 2 16.81 -112.486 24.037 1 55.93 ? HMD HEM 600 A 1 HETATM 67 H HMDA HEM . . . E 2 15.587 -112.329 25.057 1 55.93 ? HMDA HEM 600 A 1 HETATM 68 H HMDB HEM . . . E 2 16.261 -113.763 24.829 1 55.93 ? HMDB HEM 600 A 1 HETATM 69 H HAD HEM . . . E 2 19.026 -111.851 23.904 1 58 ? HAD HEM 600 A 1 HETATM 70 H HADA HEM . . . E 2 20.3 -111.516 24.78 1 58 ? HADA HEM 600 A 1 HETATM 71 H HBD HEM . . . E 2 19.35 -109.413 25.317 1 68.04 ? HBD HEM 600 A 1 HETATM 72 H HBDA HEM . . . E 2 18.117 -109.748 24.388 1 68.04 ? HBDA HEM 600 A 1 HETATM 73 H HHA HEM . . . E 2 20.965 -111.019 26.865 1 58.86 ? HHA HEM 600 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 35 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 73 #