data_2F9Q # _model_server_result.job_id TBg6AGOkGMxQTyqPVq-JXQ _model_server_result.datetime_utc '2024-10-14 15:14:08' _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 2f9q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":600}' # _entry.id 2F9Q # _exptl.entry_id 2F9Q _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 2F9Q _cell.length_a 145.066 _cell.length_b 155.495 _cell.length_c 95.801 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2F9Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N 1 1 B,C,F,G,H,I,L,M 2 1 A,D,E,J,K,N 2 2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_444 -x-1/2,y-1/2,-z-1 -1 0 0 0 1 0 0 0 -1 -72.533 -77.7475 -95.801 # 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 H N N ? 2 I N N ? 2 J 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 A SG CYS 421 A CYS 443 1_555 E FE HEM . A HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.431 ? metalc ? metalc2 B SG CYS 421 B CYS 443 1_555 H FE HEM . B HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.435 ? metalc ? metalc3 C SG CYS 421 C CYS 443 1_555 I FE HEM . C HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? metalc ? metalc4 D SG CYS 421 D CYS 443 1_555 J FE HEM . D HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? # _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 129 n n CHA C4D HEM doub 130 n n CHA HHA HEM sing 131 n n CHB C4A HEM sing 132 n n CHB C1B HEM doub 133 n n CHB HHB HEM sing 134 n n CHC C4B HEM sing 135 n n CHC C1C HEM doub 136 n n CHC HHC HEM sing 137 n n CHD C4C HEM doub 138 n n CHD C1D HEM sing 139 n n CHD HHD HEM sing 140 n n C1A C2A HEM doub 141 n y C1A NA HEM sing 142 n y C2A C3A HEM sing 143 n y C2A CAA HEM sing 144 n n C3A C4A HEM doub 145 n y C3A CMA HEM sing 146 n n C4A NA HEM sing 147 n y CMA HMA HEM sing 148 n n CMA HMAA HEM sing 149 n n CMA HMAB HEM sing 150 n n CAA CBA HEM sing 151 n n CAA HAA HEM sing 152 n n CAA HAAA HEM sing 153 n n CBA CGA HEM sing 154 n n CBA HBA HEM sing 155 n n CBA HBAA HEM sing 156 n n CGA O1A HEM doub 157 n n CGA O2A HEM sing 158 n n C1B C2B HEM sing 159 n n C1B NB HEM sing 160 n n C2B C3B HEM doub 161 n n C2B CMB HEM sing 162 n n C3B C4B HEM sing 163 n n C3B CAB HEM sing 164 n n C4B NB HEM doub 165 n n CMB HMB HEM sing 166 n n CMB HMBA HEM sing 167 n n CMB HMBB HEM sing 168 n n CAB CBB HEM doub 169 n n CAB HAB HEM sing 170 n n CBB HBB HEM sing 171 n n CBB HBBA HEM sing 172 n n C1C C2C HEM sing 173 n y C1C NC HEM sing 174 n y C2C C3C HEM doub 175 n y C2C CMC HEM sing 176 n n C3C C4C HEM sing 177 n y C3C CAC HEM sing 178 n n C4C NC HEM sing 179 n y CMC HMC HEM sing 180 n n CMC HMCA HEM sing 181 n n CMC HMCB HEM sing 182 n n CAC CBC HEM doub 183 n n CAC HAC HEM sing 184 n n CBC HBC HEM sing 185 n n CBC HBCA HEM sing 186 n n C1D C2D HEM sing 187 n n C1D ND HEM doub 188 n n C2D C3D HEM doub 189 n n C2D CMD HEM sing 190 n n C3D C4D HEM sing 191 n n C3D CAD HEM sing 192 n n C4D ND HEM sing 193 n n CMD HMD HEM sing 194 n n CMD HMDA HEM sing 195 n n CMD HMDB HEM sing 196 n n CAD CBD HEM sing 197 n n CAD HAD HEM sing 198 n n CAD HADA HEM sing 199 n n CBD CGD HEM sing 200 n n CBD HBD HEM sing 201 n n CBD HBDA HEM sing 202 n n CGD O1D HEM doub 203 n n CGD O2D HEM sing 204 n n O2A H2A HEM sing 205 n n O2D H2D HEM sing 206 n n FE NA HEM sing 207 n n FE NB HEM sing 208 n n FE NC HEM sing 209 n n FE ND HEM sing 210 n n # _atom_sites.entry_id 2F9Q _atom_sites.fract_transf_matrix[1][1] 0.006893 _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] 0.006431 _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] 0.010438 _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 SO4 B 1 2000 2000 SO4 SO4 . G 3 SO4 B 1 2001 2001 SO4 SO4 . H 2 HEM B 1 600 600 HEM HEM . I 2 HEM C 1 600 600 HEM HEM . J 2 HEM D 1 600 600 HEM HEM . K 4 HOH A 1 1002 1002 HOH HOH . K 4 HOH A 2 1004 1004 HOH HOH . K 4 HOH A 3 1008 1008 HOH HOH . K 4 HOH A 4 1010 1010 HOH HOH . L 4 HOH B 1 1000 1000 HOH HOH . L 4 HOH B 2 1003 1003 HOH HOH . L 4 HOH B 3 1009 1009 HOH HOH . M 4 HOH C 1 1001 1001 HOH HOH . M 4 HOH C 2 1006 1006 HOH HOH . N 4 HOH D 1 1005 1005 HOH HOH . N 4 HOH D 2 1007 1007 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 . . . J 2 -35.769 73.16 -48.058 1 51.81 ? CHA HEM 600 D 1 HETATM 2 C CHB HEM . . . J 2 -40.264 71.442 -48.323 1 51.4 ? CHB HEM 600 D 1 HETATM 3 C CHC HEM . . . J 2 -39.979 71.217 -53.131 1 53.01 ? CHC HEM 600 D 1 HETATM 4 C CHD HEM . . . J 2 -35.46 72.828 -52.848 1 53.19 ? CHD HEM 600 D 1 HETATM 5 C C1A HEM . . . J 2 -37.001 72.693 -47.706 1 51.27 ? C1A HEM 600 D 1 HETATM 6 C C2A HEM . . . J 2 -37.486 72.564 -46.358 1 51.36 ? C2A HEM 600 D 1 HETATM 7 C C3A HEM . . . J 2 -38.72 72.074 -46.435 1 50.42 ? C3A HEM 600 D 1 HETATM 8 C C4A HEM . . . J 2 -39.061 71.898 -47.827 1 50.31 ? C4A HEM 600 D 1 HETATM 9 C CMA HEM . . . J 2 -39.654 71.778 -45.251 1 51.06 ? CMA HEM 600 D 1 HETATM 10 C CAA HEM . . . J 2 -36.687 72.889 -45.077 1 52.16 ? CAA HEM 600 D 1 HETATM 11 C CBA HEM . . . J 2 -36.433 74.376 -44.866 1 55.03 ? CBA HEM 600 D 1 HETATM 12 C CGA HEM . . . J 2 -35.917 74.597 -43.453 1 55.92 ? CGA HEM 600 D 1 HETATM 13 O O1A HEM . . . J 2 -34.719 74.24 -43.195 1 55.8 ? O1A HEM 600 D 1 HETATM 14 O O2A HEM . . . J 2 -36.703 75.108 -42.589 1 54.79 ? O2A HEM 600 D 1 HETATM 15 C C1B HEM . . . J 2 -40.578 71.203 -49.652 1 52.34 ? C1B HEM 600 D 1 HETATM 16 C C2B HEM . . . J 2 -41.805 70.576 -50.154 1 53.53 ? C2B HEM 600 D 1 HETATM 17 C C3B HEM . . . J 2 -41.714 70.52 -51.49 1 52.17 ? C3B HEM 600 D 1 HETATM 18 C C4B HEM . . . J 2 -40.426 71.086 -51.845 1 52.41 ? C4B HEM 600 D 1 HETATM 19 C CMB HEM . . . J 2 -42.986 70.077 -49.27 1 52.9 ? CMB HEM 600 D 1 HETATM 20 C CAB HEM . . . J 2 -42.702 69.978 -52.565 1 50.17 ? CAB HEM 600 D 1 HETATM 21 C CBB HEM . . . J 2 -44.16 69.955 -52.104 1 48.8 ? CBB HEM 600 D 1 HETATM 22 C C1C HEM . . . J 2 -38.752 71.671 -53.462 1 53.95 ? C1C HEM 600 D 1 HETATM 23 C C2C HEM . . . J 2 -38.225 71.688 -54.805 1 55.21 ? C2C HEM 600 D 1 HETATM 24 C C3C HEM . . . J 2 -37.01 72.279 -54.723 1 55.08 ? C3C HEM 600 D 1 HETATM 25 C C4C HEM . . . J 2 -36.674 72.401 -53.313 1 53.95 ? C4C HEM 600 D 1 HETATM 26 C CMC HEM . . . J 2 -39.13 71.533 -56.072 1 55 ? CMC HEM 600 D 1 HETATM 27 C CAC HEM . . . J 2 -36.005 72.647 -55.853 1 54.44 ? CAC HEM 600 D 1 HETATM 28 C CBC HEM . . . J 2 -36.554 72.26 -57.233 1 56.47 ? CBC HEM 600 D 1 HETATM 29 C C1D HEM . . . J 2 -35.101 73.064 -51.562 1 52.18 ? C1D HEM 600 D 1 HETATM 30 C C2D HEM . . . J 2 -33.797 73.528 -51.137 1 51.34 ? C2D HEM 600 D 1 HETATM 31 C C3D HEM . . . J 2 -33.88 73.632 -49.626 1 52.21 ? C3D HEM 600 D 1 HETATM 32 C C4D HEM . . . J 2 -35.241 73.226 -49.323 1 52.89 ? C4D HEM 600 D 1 HETATM 33 C CMD HEM . . . J 2 -32.554 73.867 -51.993 1 51.17 ? CMD HEM 600 D 1 HETATM 34 C CAD HEM . . . J 2 -32.756 74.099 -48.666 1 52.73 ? CAD HEM 600 D 1 HETATM 35 C CBD HEM . . . J 2 -33.033 75.545 -48.267 1 53.6 ? CBD HEM 600 D 1 HETATM 36 C CGD HEM . . . J 2 -31.773 76.163 -47.755 1 54.18 ? CGD HEM 600 D 1 HETATM 37 O O1D HEM . . . J 2 -31.533 77.377 -47.93 1 53.95 ? O1D HEM 600 D 1 HETATM 38 O O2D HEM . . . J 2 -30.989 75.415 -47.154 1 54.78 ? O2D HEM 600 D 1 HETATM 39 N NA HEM . . . J 2 -37.981 72.289 -48.575 1 51.3 ? NA HEM 600 D 1 HETATM 40 N NB HEM . . . J 2 -39.755 71.486 -50.719 1 51.67 ? NB HEM 600 D 1 HETATM 41 N NC HEM . . . J 2 -37.77 72.028 -52.565 1 53.64 ? NC HEM 600 D 1 HETATM 42 N ND HEM . . . J 2 -35.927 72.897 -50.483 1 52.59 ? ND HEM 600 D 1 HETATM 43 FE FE HEM . . . J 2 -37.954 72.258 -50.599 1 53.66 ? FE HEM 600 D 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 43 #