data_3ZJ4
#
_model_server_result.job_id            DmIMz3ekM849lEQH5ret0A 
_model_server_result.datetime_utc      '2024-11-25 13:47:02' 
_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          3zj4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":4000}' 
#
_entry.id    3ZJ4 
#
_exptl.entry_id    3ZJ4 
_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         82.08 
_cell.angle_beta          82.48 
_cell.angle_gamma         62.33 
_cell.entry_id            3ZJ4 
_cell.length_a            85.445 
_cell.length_b            88.207 
_cell.length_c            104.398 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3ZJ4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H 
_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 E N N 
? 2 F N N 
? 2 G N N 
? 2 H 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 OH TYR 416 A TYR 389 1_555 E FE HEM . A HEM 4000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? 
metalc ? metalc2 B OH TYR 416 B TYR 389 1_555 F FE HEM . B HEM 4000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? 
metalc ? metalc3 C OH TYR 416 C TYR 389 1_555 G FE HEM . C HEM 4000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? 
metalc ? metalc4 D OH TYR 416 D TYR 389 1_555 H FE HEM . D HEM 4000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? 
#
_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                     3ZJ4 
_atom_sites.fract_transf_matrix[1][1]    0.011703 
_atom_sites.fract_transf_matrix[1][2]    -0.006137 
_atom_sites.fract_transf_matrix[1][3]    -0.001011 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012801 
_atom_sites.fract_transf_matrix[2][3]    -0.001127 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.009699 
_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 4000 4000 HEM HEM . 
F 2 HEM B 1 4000 4000 HEM HEM . 
G 2 HEM C 1 4000 4000 HEM HEM . 
H 2 HEM D 1 4000 4000 HEM HEM . 
#
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 8.945 29.208 -75.235 1 18.96 ? CHA HEM 4000 C 1 
HETATM 2 C CHB HEM . . . G 2 9.196 33.727 -76.999 1 37 ? CHB HEM 4000 C 1 
HETATM 3 C CHC HEM . . . G 2 4.377 33.794 -77.417 1 26.35 ? CHC HEM 4000 C 1 
HETATM 4 C CHD HEM . . . G 2 4.1 29.825 -74.673 1 19.76 ? CHD HEM 4000 C 1 
HETATM 5 C C1A HEM . . . G 2 9.46 30.394 -75.722 1 25.09 ? C1A HEM 4000 C 1 
HETATM 6 C C2A HEM . . . G 2 10.859 30.736 -75.944 1 23.98 ? C2A HEM 4000 C 1 
HETATM 7 C C3A HEM . . . G 2 10.909 31.976 -76.429 1 24.37 ? C3A HEM 4000 C 1 
HETATM 8 C C4A HEM . . . G 2 9.558 32.48 -76.539 1 30.66 ? C4A HEM 4000 C 1 
HETATM 9 C CMA HEM . . . G 2 12.194 32.743 -76.807 1 26.97 ? CMA HEM 4000 C 1 
HETATM 10 C CAA HEM . . . G 2 12.122 29.881 -75.697 1 31.88 ? CAA HEM 4000 C 1 
HETATM 11 C CBA HEM . . . G 2 12.209 29.289 -74.296 1 32.53 ? CBA HEM 4000 C 1 
HETATM 12 C CGA HEM . . . G 2 13.613 28.767 -74.138 1 28.51 ? CGA HEM 4000 C 1 
HETATM 13 O O1A HEM . . . G 2 13.875 27.979 -73.192 1 19.99 ? O1A HEM 4000 C 1 
HETATM 14 O O2A HEM . . . G 2 14.471 29.142 -74.978 1 30.74 ? O2A HEM 4000 C 1 
HETATM 15 C C1B HEM . . . G 2 7.906 34.17 -77.186 1 35.46 ? C1B HEM 4000 C 1 
HETATM 16 C C2B HEM . . . G 2 7.502 35.535 -77.455 1 28.9 ? C2B HEM 4000 C 1 
HETATM 17 C C3B HEM . . . G 2 6.162 35.561 -77.576 1 37.36 ? C3B HEM 4000 C 1 
HETATM 18 C C4B HEM . . . G 2 5.689 34.206 -77.381 1 29.2 ? C4B HEM 4000 C 1 
HETATM 19 C CMB HEM . . . G 2 8.505 36.701 -77.571 1 34.84 ? CMB HEM 4000 C 1 
HETATM 20 C CAB HEM . . . G 2 5.201 36.747 -77.859 1 30.62 ? CAB HEM 4000 C 1 
HETATM 21 C CBB HEM . . . G 2 5.575 38.026 -77.983 1 36.48 ? CBB HEM 4000 C 1 
HETATM 22 C C1C HEM . . . G 2 3.866 32.795 -76.622 1 22.6 ? C1C HEM 4000 C 1 
HETATM 23 C C2C HEM . . . G 2 2.49 32.651 -76.19 1 24.38 ? C2C HEM 4000 C 1 
HETATM 24 C C3C HEM . . . G 2 2.408 31.544 -75.427 1 23.2 ? C3C HEM 4000 C 1 
HETATM 25 C C4C HEM . . . G 2 3.742 30.966 -75.355 1 21.88 ? C4C HEM 4000 C 1 
HETATM 26 C CMC HEM . . . G 2 1.366 33.638 -76.586 1 32.33 ? CMC HEM 4000 C 1 
HETATM 27 C CAC HEM . . . G 2 1.181 30.921 -74.705 1 34.07 ? CAC HEM 4000 C 1 
HETATM 28 C CBC HEM . . . G 2 -0.043 31.46 -74.651 1 29.58 ? CBC HEM 4000 C 1 
HETATM 29 C C1D HEM . . . G 2 5.357 29.257 -74.609 1 25.92 ? C1D HEM 4000 C 1 
HETATM 30 C C2D HEM . . . G 2 5.648 27.977 -74.007 1 34.02 ? C2D HEM 4000 C 1 
HETATM 31 C C3D HEM . . . G 2 7.161 27.778 -74.176 1 20.86 ? C3D HEM 4000 C 1 
HETATM 32 C C4D HEM . . . G 2 7.635 28.96 -74.868 1 19.56 ? C4D HEM 4000 C 1 
HETATM 33 C CMD HEM . . . G 2 4.64 27.023 -73.33 1 22.12 ? CMD HEM 4000 C 1 
HETATM 34 C CAD HEM . . . G 2 7.988 26.564 -73.701 1 24.04 ? CAD HEM 4000 C 1 
HETATM 35 C CBD HEM . . . G 2 8.903 27 -72.562 1 18.87 ? CBD HEM 4000 C 1 
HETATM 36 C CGD HEM . . . G 2 9.34 25.793 -71.776 1 22.49 ? CGD HEM 4000 C 1 
HETATM 37 O O1D HEM . . . G 2 9.935 25.983 -70.684 1 34.93 ? O1D HEM 4000 C 1 
HETATM 38 O O2D HEM . . . G 2 9.09 24.648 -72.237 1 24.58 ? O2D HEM 4000 C 1 
HETATM 39 N NA HEM . . . G 2 8.7 31.488 -76.1 1 25.62 ? NA HEM 4000 C 1 
HETATM 40 N NB HEM . . . G 2 6.775 33.386 -77.145 1 29.92 ? NB HEM 4000 C 1 
HETATM 41 N NC HEM . . . G 2 4.598 31.754 -76.095 1 24.52 ? NC HEM 4000 C 1 
HETATM 42 N ND HEM . . . G 2 6.545 29.796 -75.103 1 22.33 ? ND HEM 4000 C 1 
HETATM 43 FE FE HEM . . . G 2 6.637 31.55 -76.235 1 28.02 ? FE HEM 4000 C 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           249 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           43 
#