data_4NKZ
#
_model_server_result.job_id            4eeiUqPS13zhgkgNmtfBFQ 
_model_server_result.datetime_utc      '2024-10-12 06:20:20' 
_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          4nkz 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":600}' 
#
_entry.id    4NKZ 
#
_exptl.entry_id    4NKZ 
_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            4NKZ 
_cell.length_a            85.82 
_cell.length_b            151.093 
_cell.length_c            170.342 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4NKZ 
_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,M 1 1 
B,G,H,N 2 1 
C,I,J 3 1 
D,K,L,O 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 A SG CYS 424 A CYS 442 1_555 E FE HEM . A HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.697 ? 
metalc ? metalc2 B SG CYS 424 B CYS 442 1_555 G FE HEM . B HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.658 ? 
metalc ? metalc3 C SG CYS 424 C CYS 442 1_555 I FE HEM . C HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? 
metalc ? metalc4 D SG CYS 424 D CYS 442 1_555 K FE HEM . D HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? 
#
_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                     4NKZ 
_atom_sites.fract_transf_matrix[1][1]    0.011652 
_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]    0.006618 
_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]    0.005871 
_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 LZZ A 1 601 601 LZZ LZZ . 
G 2 HEM B 1 600 600 HEM HEM . 
H 3 LZZ B 1 601 601 LZZ LZZ . 
I 2 HEM C 1 600 600 HEM HEM . 
J 3 LZZ C 1 601 601 LZZ LZZ . 
K 2 HEM D 1 600 600 HEM HEM . 
L 3 LZZ D 1 601 601 LZZ LZZ . 
M 4 HOH A 1 701 3 HOH HOH . 
M 4 HOH A 2 702 8 HOH HOH . 
N 4 HOH B 1 701 2 HOH HOH . 
N 4 HOH B 2 702 4 HOH HOH . 
N 4 HOH B 3 703 5 HOH HOH . 
N 4 HOH B 4 704 9 HOH HOH . 
N 4 HOH B 5 705 10 HOH HOH . 
O 4 HOH D 1 701 7 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 . . . I 2 -13.797 10.623 233.864 1 57.93 ? CHA HEM 600 C 1 
HETATM 2 C CHB HEM . . . I 2 -12.314 9.796 238.36 1 67.26 ? CHB HEM 600 C 1 
HETATM 3 C CHC HEM . . . I 2 -11.715 5.079 237.353 1 64.8 ? CHC HEM 600 C 1 
HETATM 4 C CHD HEM . . . I 2 -13.296 5.837 232.827 1 56.61 ? CHD HEM 600 C 1 
HETATM 5 C C1A HEM . . . I 2 -13.374 10.823 235.146 1 60.72 ? C1A HEM 600 C 1 
HETATM 6 C C2A HEM . . . I 2 -13.191 12.112 235.787 1 61.51 ? C2A HEM 600 C 1 
HETATM 7 C C3A HEM . . . I 2 -12.768 11.871 237.032 1 53.71 ? C3A HEM 600 C 1 
HETATM 8 C C4A HEM . . . I 2 -12.686 10.44 237.21 1 62.1 ? C4A HEM 600 C 1 
HETATM 9 C CMA HEM . . . I 2 -12.434 12.91 238.108 1 59.31 ? CMA HEM 600 C 1 
HETATM 10 C CAA HEM . . . I 2 -13.417 13.488 235.103 1 61.55 ? CAA HEM 600 C 1 
HETATM 11 C CBA HEM . . . I 2 -14.722 14.159 235.534 1 64.65 ? CBA HEM 600 C 1 
HETATM 12 C CGA HEM . . . I 2 -14.926 15.492 234.833 1 62.37 ? CGA HEM 600 C 1 
HETATM 13 O O1A HEM . . . I 2 -15.895 16.219 235.196 1 60.18 ? O1A HEM 600 C 1 
HETATM 14 O O2A HEM . . . I 2 -14.128 15.827 233.916 1 48.96 ? O2A HEM 600 C 1 
HETATM 15 C C1B HEM . . . I 2 -12.034 8.455 238.496 1 66.5 ? C1B HEM 600 C 1 
HETATM 16 C C2B HEM . . . I 2 -11.592 7.804 239.706 1 64.7 ? C2B HEM 600 C 1 
HETATM 17 C C3B HEM . . . I 2 -11.406 6.498 239.453 1 65.07 ? C3B HEM 600 C 1 
HETATM 18 C C4B HEM . . . I 2 -11.749 6.264 238.056 1 66.39 ? C4B HEM 600 C 1 
HETATM 19 C CMB HEM . . . I 2 -11.363 8.534 241.056 1 50.79 ? CMB HEM 600 C 1 
HETATM 20 C CAB HEM . . . I 2 -10.932 5.491 240.538 1 64.01 ? CAB HEM 600 C 1 
HETATM 21 C CBB HEM . . . I 2 -10.435 4.283 240.265 1 71.24 ? CBB HEM 600 C 1 
HETATM 22 C C1C HEM . . . I 2 -12.121 4.857 236.061 1 61.02 ? C1C HEM 600 C 1 
HETATM 23 C C2C HEM . . . I 2 -12.197 3.567 235.42 1 64.86 ? C2C HEM 600 C 1 
HETATM 24 C C3C HEM . . . I 2 -12.633 3.742 234.176 1 67.04 ? C3C HEM 600 C 1 
HETATM 25 C C4C HEM . . . I 2 -12.856 5.172 233.961 1 66.87 ? C4C HEM 600 C 1 
HETATM 26 C CMC HEM . . . I 2 -11.837 2.226 236.093 1 65.06 ? CMC HEM 600 C 1 
HETATM 27 C CAC HEM . . . I 2 -12.827 2.563 233.211 1 61.78 ? CAC HEM 600 C 1 
HETATM 28 C CBC HEM . . . I 2 -13.495 2.676 232.065 1 69.31 ? CBC HEM 600 C 1 
HETATM 29 C C1D HEM . . . I 2 -13.518 7.195 232.684 1 63.23 ? C1D HEM 600 C 1 
HETATM 30 C C2D HEM . . . I 2 -13.864 7.84 231.43 1 58.82 ? C2D HEM 600 C 1 
HETATM 31 C C3D HEM . . . I 2 -14.025 9.319 231.765 1 59.56 ? C3D HEM 600 C 1 
HETATM 32 C C4D HEM . . . I 2 -13.757 9.431 233.179 1 64.8 ? C4D HEM 600 C 1 
HETATM 33 C CMD HEM . . . I 2 -14.044 7.186 230.053 1 63.67 ? CMD HEM 600 C 1 
HETATM 34 C CAD HEM . . . I 2 -14.399 10.466 230.821 1 61.36 ? CAD HEM 600 C 1 
HETATM 35 C CBD HEM . . . I 2 -15.891 10.763 230.951 1 53.06 ? CBD HEM 600 C 1 
HETATM 36 C CGD HEM . . . I 2 -16.208 11.817 229.916 1 62.22 ? CGD HEM 600 C 1 
HETATM 37 O O1D HEM . . . I 2 -17.315 11.778 229.309 1 53.27 ? O1D HEM 600 C 1 
HETATM 38 O O2D HEM . . . I 2 -15.328 12.692 229.681 1 63.8 ? O2D HEM 600 C 1 
HETATM 39 N NA HEM . . . I 2 -13.069 9.824 236.039 1 69.38 ? NA HEM 600 C 1 
HETATM 40 N NB HEM . . . I 2 -12.119 7.485 237.522 1 62.97 ? NB HEM 600 C 1 
HETATM 41 N NC HEM . . . I 2 -12.532 5.808 235.152 1 66.95 ? NC HEM 600 C 1 
HETATM 42 N ND HEM . . . I 2 -13.459 8.164 233.695 1 70.94 ? ND HEM 600 C 1 
HETATM 43 FE FE HEM . . . I 2 -12.949 7.805 235.683 1 53.02 ? FE HEM 600 C 1 
HETATM 44 H HHB HEM . . . I 2 -12.24 10.345 239.169 1 80.71 ? HHB HEM 600 C 1 
HETATM 45 H HHC HEM . . . I 2 -11.359 4.303 237.833 1 77.76 ? HHC HEM 600 C 1 
HETATM 46 H HHD HEM . . . I 2 -13.47 5.283 232.038 1 67.94 ? HHD HEM 600 C 1 
HETATM 47 H HMA HEM . . . I 2 -11.711 13.49 237.789 1 71.18 ? HMA HEM 600 C 1 
HETATM 48 H HMAA HEM . . . I 2 -12.149 12.453 238.926 1 71.18 ? HMAA HEM 600 C 1 
HETATM 49 H HMAB HEM . . . I 2 -13.228 13.452 238.297 1 71.18 ? HMAB HEM 600 C 1 
HETATM 50 H HAA HEM . . . I 2 -13.434 13.36 234.142 1 73.86 ? HAA HEM 600 C 1 
HETATM 51 H HAAA HEM . . . I 2 -12.676 14.073 235.328 1 73.86 ? HAAA HEM 600 C 1 
HETATM 52 H HBA HEM . . . I 2 -14.701 14.306 236.492 1 77.58 ? HBA HEM 600 C 1 
HETATM 53 H HBAA HEM . . . I 2 -15.465 13.572 235.32 1 77.58 ? HBAA HEM 600 C 1 
HETATM 54 H HMB HEM . . . I 2 -10.686 9.219 240.943 1 60.95 ? HMB HEM 600 C 1 
HETATM 55 H HMBA HEM . . . I 2 -11.068 7.894 241.723 1 60.95 ? HMBA HEM 600 C 1 
HETATM 56 H HMBB HEM . . . I 2 -12.193 8.944 241.346 1 60.95 ? HMBB HEM 600 C 1 
HETATM 57 H HAB HEM . . . I 2 -11.001 5.754 241.459 1 76.81 ? HAB HEM 600 C 1 
HETATM 58 H HBB HEM . . . I 2 -10.161 3.697 240.988 1 85.49 ? HBB HEM 600 C 1 
HETATM 59 H HBBA HEM . . . I 2 -10.353 3.988 239.345 1 85.49 ? HBBA HEM 600 C 1 
HETATM 60 H HMC HEM . . . I 2 -10.909 2.244 236.375 1 78.07 ? HMC HEM 600 C 1 
HETATM 61 H HMCA HEM . . . I 2 -11.969 1.502 235.461 1 78.07 ? HMCA HEM 600 C 1 
HETATM 62 H HMCB HEM . . . I 2 -12.408 2.089 236.865 1 78.07 ? HMCB HEM 600 C 1 
HETATM 63 H HAC HEM . . . I 2 -12.452 1.711 233.443 1 74.13 ? HAC HEM 600 C 1 
HETATM 64 H HBC HEM . . . I 2 -13.598 1.904 231.486 1 83.17 ? HBC HEM 600 C 1 
HETATM 65 H HBCA HEM . . . I 2 -13.881 3.528 231.811 1 83.17 ? HBCA HEM 600 C 1 
HETATM 66 H HMD HEM . . . I 2 -14.277 7.872 229.393 1 76.41 ? HMD HEM 600 C 1 
HETATM 67 H HMDA HEM . . . I 2 -14.761 6.52 230.1 1 76.41 ? HMDA HEM 600 C 1 
HETATM 68 H HMDB HEM . . . I 2 -13.208 6.748 229.788 1 76.41 ? HMDB HEM 600 C 1 
HETATM 69 H HAD HEM . . . I 2 -14.198 10.212 229.907 1 73.63 ? HAD HEM 600 C 1 
HETATM 70 H HADA HEM . . . I 2 -13.89 11.258 231.056 1 73.63 ? HADA HEM 600 C 1 
HETATM 71 H HBD HEM . . . I 2 -16.087 11.099 231.839 1 63.68 ? HBD HEM 600 C 1 
HETATM 72 H HBDA HEM . . . I 2 -16.406 9.96 230.777 1 63.68 ? HBDA HEM 600 C 1 
HETATM 73 H HHA HEM . . . I 2 -14.221 11.381 233.412 1 69.52 ? HHA HEM 600 C 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    31 
_model_server_stats.query_time_ms           314 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           73 
#