data_7ZV3 # _model_server_result.job_id LYGlA-0K3KQeAxR9ohJRiA _model_server_result.datetime_utc '2024-11-15 06:04:42' _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 7zv3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":501}' # _entry.id 7ZV3 # _exptl.entry_id 7ZV3 _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 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 7ZV3 _cell.length_a 86.65 _cell.length_b 97.419 _cell.length_c 131.996 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7ZV3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 G 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 disulf ? disulf1 A SG CYS 328 A CYS 308 1_555 B SG CYS 328 B CYS 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? metalc ? metalc1 A NE2 HIS 366 A HIS 346 1_555 C FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc2 C FE HEM . A HEM 501 1_555 D N11 RCT . A RCT 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.981 ? metalc ? metalc3 B NE2 HIS 366 B HIS 346 1_555 G FE HEM . B HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? metalc ? metalc4 G FE HEM . B HEM 501 1_555 H N11 RCT . B RCT 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.965 ? # _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 142 n n CHA C4D HEM doub 143 n n CHA HHA HEM sing 144 n n CHB C4A HEM sing 145 n n CHB C1B HEM doub 146 n n CHB HHB HEM sing 147 n n CHC C4B HEM sing 148 n n CHC C1C HEM doub 149 n n CHC HHC HEM sing 150 n n CHD C4C HEM doub 151 n n CHD C1D HEM sing 152 n n CHD HHD HEM sing 153 n n C1A C2A HEM doub 154 n y C1A NA HEM sing 155 n y C2A C3A HEM sing 156 n y C2A CAA HEM sing 157 n n C3A C4A HEM doub 158 n y C3A CMA HEM sing 159 n n C4A NA HEM sing 160 n y CMA HMA HEM sing 161 n n CMA HMAA HEM sing 162 n n CMA HMAB HEM sing 163 n n CAA CBA HEM sing 164 n n CAA HAA HEM sing 165 n n CAA HAAA HEM sing 166 n n CBA CGA HEM sing 167 n n CBA HBA HEM sing 168 n n CBA HBAA HEM sing 169 n n CGA O1A HEM doub 170 n n CGA O2A HEM sing 171 n n C1B C2B HEM sing 172 n n C1B NB HEM sing 173 n n C2B C3B HEM doub 174 n n C2B CMB HEM sing 175 n n C3B C4B HEM sing 176 n n C3B CAB HEM sing 177 n n C4B NB HEM doub 178 n n CMB HMB HEM sing 179 n n CMB HMBA HEM sing 180 n n CMB HMBB HEM sing 181 n n CAB CBB HEM doub 182 n n CAB HAB HEM sing 183 n n CBB HBB HEM sing 184 n n CBB HBBA HEM sing 185 n n C1C C2C HEM sing 186 n y C1C NC HEM sing 187 n y C2C C3C HEM doub 188 n y C2C CMC HEM sing 189 n n C3C C4C HEM sing 190 n y C3C CAC HEM sing 191 n n C4C NC HEM sing 192 n y CMC HMC HEM sing 193 n n CMC HMCA HEM sing 194 n n CMC HMCB HEM sing 195 n n CAC CBC HEM doub 196 n n CAC HAC HEM sing 197 n n CBC HBC HEM sing 198 n n CBC HBCA HEM sing 199 n n C1D C2D HEM sing 200 n n C1D ND HEM doub 201 n n C2D C3D HEM doub 202 n n C2D CMD HEM sing 203 n n C3D C4D HEM sing 204 n n C3D CAD HEM sing 205 n n C4D ND HEM sing 206 n n CMD HMD HEM sing 207 n n CMD HMDA HEM sing 208 n n CMD HMDB HEM sing 209 n n CAD CBD HEM sing 210 n n CAD HAD HEM sing 211 n n CAD HADA HEM sing 212 n n CBD CGD HEM sing 213 n n CBD HBD HEM sing 214 n n CBD HBDA HEM sing 215 n n CGD O1D HEM doub 216 n n CGD O2D HEM sing 217 n n O2A H2A HEM sing 218 n n O2D H2D HEM sing 219 n n FE NA HEM sing 220 n n FE NB HEM sing 221 n n FE NC HEM sing 222 n n FE ND HEM sing 223 n n # _atom_sites.entry_id 7ZV3 _atom_sites.fract_transf_matrix[1][1] 0.011541 _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] 0.010265 _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] 0.007576 _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 HEM A 1 501 404 HEM HEM . D 3 RCT A 1 502 501 RCT L4M . E 4 GOL A 1 503 502 GOL GOL . F 5 SO4 A 1 504 503 SO4 SO4 . G 2 HEM B 1 501 404 HEM HEM . H 3 RCT B 1 502 501 RCT L4M . I 5 SO4 B 1 503 502 SO4 SO4 . J 6 HOH A 1 601 45 HOH HOH . J 6 HOH A 2 602 32 HOH HOH . J 6 HOH A 3 603 33 HOH HOH . J 6 HOH A 4 604 35 HOH HOH . J 6 HOH A 5 605 11 HOH HOH . J 6 HOH A 6 606 37 HOH HOH . J 6 HOH A 7 607 4 HOH HOH . J 6 HOH A 8 608 3 HOH HOH . J 6 HOH A 9 609 22 HOH HOH . J 6 HOH A 10 610 19 HOH HOH . J 6 HOH A 11 611 23 HOH HOH . J 6 HOH A 12 612 1 HOH HOH . J 6 HOH A 13 613 28 HOH HOH . J 6 HOH A 14 614 46 HOH HOH . J 6 HOH A 15 615 10 HOH HOH . J 6 HOH A 16 616 13 HOH HOH . J 6 HOH A 17 617 52 HOH HOH . J 6 HOH A 18 618 51 HOH HOH . J 6 HOH A 19 619 7 HOH HOH . J 6 HOH A 20 620 21 HOH HOH . J 6 HOH A 21 621 5 HOH HOH . J 6 HOH A 22 622 2 HOH HOH . J 6 HOH A 23 623 31 HOH HOH . J 6 HOH A 24 624 42 HOH HOH . J 6 HOH A 25 625 40 HOH HOH . J 6 HOH A 26 626 54 HOH HOH . K 6 HOH B 1 601 49 HOH HOH . K 6 HOH B 2 602 60 HOH HOH . K 6 HOH B 3 603 9 HOH HOH . K 6 HOH B 4 604 27 HOH HOH . K 6 HOH B 5 605 61 HOH HOH . K 6 HOH B 6 606 18 HOH HOH . K 6 HOH B 7 607 53 HOH HOH . K 6 HOH B 8 608 34 HOH HOH . K 6 HOH B 9 609 14 HOH HOH . K 6 HOH B 10 610 50 HOH HOH . K 6 HOH B 11 611 26 HOH HOH . K 6 HOH B 12 612 57 HOH HOH . K 6 HOH B 13 613 6 HOH HOH . K 6 HOH B 14 614 29 HOH HOH . K 6 HOH B 15 615 12 HOH HOH . K 6 HOH B 16 616 8 HOH HOH . K 6 HOH B 17 617 25 HOH HOH . K 6 HOH B 18 618 48 HOH HOH . K 6 HOH B 19 619 36 HOH HOH . K 6 HOH B 20 620 20 HOH HOH . K 6 HOH B 21 621 39 HOH HOH . K 6 HOH B 22 622 55 HOH HOH . K 6 HOH B 23 623 24 HOH HOH . K 6 HOH B 24 624 47 HOH HOH . K 6 HOH B 25 625 38 HOH HOH . K 6 HOH B 26 626 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 . . . G 2 -19.653 -2.484 -21.133 0.86 53.5 ? CHA HEM 501 B 1 HETATM 2 C CHB HEM . . . G 2 -21.657 -6.689 -22.576 0.86 57.59 ? CHB HEM 501 B 1 HETATM 3 C CHC HEM . . . G 2 -22.6 -7.997 -18.026 0.86 50.61 ? CHC HEM 501 B 1 HETATM 4 C CHD HEM . . . G 2 -20.743 -3.723 -16.517 0.86 51.16 ? CHD HEM 501 B 1 HETATM 5 C C1A HEM . . . G 2 -20.066 -3.53 -21.948 0.86 53.56 ? C1A HEM 501 B 1 HETATM 6 C C2A HEM . . . G 2 -19.841 -3.702 -23.378 0.86 52.8 ? C2A HEM 501 B 1 HETATM 7 C C3A HEM . . . G 2 -20.395 -4.85 -23.738 0.86 54.57 ? C3A HEM 501 B 1 HETATM 8 C C4A HEM . . . G 2 -20.99 -5.475 -22.579 0.86 56.12 ? C4A HEM 501 B 1 HETATM 9 C CMA HEM . . . G 2 -20.412 -5.439 -25.148 0.86 53.83 ? CMA HEM 501 B 1 HETATM 10 C CAA HEM . . . G 2 -19.112 -2.758 -24.353 0.86 53.66 ? CAA HEM 501 B 1 HETATM 11 C CBA HEM . . . G 2 -19.839 -1.423 -24.377 0.86 59.44 ? CBA HEM 501 B 1 HETATM 12 C CGA HEM . . . G 2 -21.105 -1.577 -25.165 0.86 62.43 ? CGA HEM 501 B 1 HETATM 13 O O1A HEM . . . G 2 -22.212 -1.337 -24.59 0.86 60.52 ? O1A HEM 501 B 1 HETATM 14 O O2A HEM . . . G 2 -20.965 -1.959 -26.356 0.86 62.73 ? O2A HEM 501 B 1 HETATM 15 C C1B HEM . . . G 2 -22.081 -7.423 -21.489 0.86 52.8 ? C1B HEM 501 B 1 HETATM 16 C C2B HEM . . . G 2 -22.704 -8.727 -21.523 0.86 52.56 ? C2B HEM 501 B 1 HETATM 17 C C3B HEM . . . G 2 -22.968 -9.101 -20.251 0.86 51.31 ? C3B HEM 501 B 1 HETATM 18 C C4B HEM . . . G 2 -22.523 -8.033 -19.392 0.86 51.67 ? C4B HEM 501 B 1 HETATM 19 C CMB HEM . . . G 2 -22.958 -9.473 -22.852 0.86 48.89 ? CMB HEM 501 B 1 HETATM 20 C CAB HEM . . . G 2 -23.628 -10.381 -19.688 0.86 51.6 ? CAB HEM 501 B 1 HETATM 21 C CBB HEM . . . G 2 -24.137 -11.341 -20.471 0.86 53 ? CBB HEM 501 B 1 HETATM 22 C C1C HEM . . . G 2 -22.313 -6.887 -17.265 0.86 53.34 ? C1C HEM 501 B 1 HETATM 23 C C2C HEM . . . G 2 -22.821 -6.651 -15.938 0.86 55.46 ? C2C HEM 501 B 1 HETATM 24 C C3C HEM . . . G 2 -22.354 -5.476 -15.493 0.86 53.4 ? C3C HEM 501 B 1 HETATM 25 C C4C HEM . . . G 2 -21.482 -4.91 -16.536 0.86 54.23 ? C4C HEM 501 B 1 HETATM 26 C CMC HEM . . . G 2 -23.772 -7.621 -15.209 0.86 53.47 ? CMC HEM 501 B 1 HETATM 27 C CAC HEM . . . G 2 -22.712 -4.917 -14.098 0.86 49.97 ? CAC HEM 501 B 1 HETATM 28 C CBC HEM . . . G 2 -22.803 -3.603 -13.89 0.86 50.56 ? CBC HEM 501 B 1 HETATM 29 C C1D HEM . . . G 2 -20.258 -2.988 -17.608 0.86 51.02 ? C1D HEM 501 B 1 HETATM 30 C C2D HEM . . . G 2 -19.672 -1.64 -17.61 0.86 50.77 ? C2D HEM 501 B 1 HETATM 31 C C3D HEM . . . G 2 -19.385 -1.315 -18.881 0.86 50.77 ? C3D HEM 501 B 1 HETATM 32 C C4D HEM . . . G 2 -19.77 -2.421 -19.748 0.86 51.18 ? C4D HEM 501 B 1 HETATM 33 C CMD HEM . . . G 2 -19.41 -0.717 -16.391 0.86 48.52 ? CMD HEM 501 B 1 HETATM 34 C CAD HEM . . . G 2 -18.752 0.015 -19.346 0.86 49.99 ? CAD HEM 501 B 1 HETATM 35 C CBD HEM . . . G 2 -17.303 -0.2 -19.78 0.86 46.94 ? CBD HEM 501 B 1 HETATM 36 C CGD HEM . . . G 2 -16.513 -0.081 -18.512 0.86 48.89 ? CGD HEM 501 B 1 HETATM 37 O O1D HEM . . . G 2 -15.633 -0.938 -18.273 0.86 49.06 ? O1D HEM 501 B 1 HETATM 38 O O2D HEM . . . G 2 -16.801 0.853 -17.72 0.86 57.15 ? O2D HEM 501 B 1 HETATM 39 N NA HEM . . . G 2 -20.767 -4.642 -21.505 0.86 51.24 ? NA HEM 501 B 1 HETATM 40 N NB HEM . . . G 2 -21.986 -7.037 -20.178 0.86 53.98 ? NB HEM 501 B 1 HETATM 41 N NC HEM . . . G 2 -21.498 -5.811 -17.603 0.86 54.02 ? NC HEM 501 B 1 HETATM 42 N ND HEM . . . G 2 -20.296 -3.414 -18.934 0.86 53.73 ? ND HEM 501 B 1 HETATM 43 FE FE HEM . . . G 2 -21.066 -5.3 -19.63 0.86 50.82 ? FE HEM 501 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 542 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #