data_4NKZ
#
_model_server_result.job_id            EltEUa6PjCRZd-jnF5C-Lg 
_model_server_result.datetime_utc      '2024-10-12 06:17:11' 
_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":"K","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 . . . K 2 -13.578 21.185 192.132 1 61.43 ? CHA HEM 600 D 1 
HETATM 2 C CHB HEM . . . K 2 -12.022 21.989 187.63 1 68.24 ? CHB HEM 600 D 1 
HETATM 3 C CHC HEM . . . K 2 -11.48 26.666 188.652 1 61.46 ? CHC HEM 600 D 1 
HETATM 4 C CHD HEM . . . K 2 -13.302 26.014 193.064 1 59.36 ? CHD HEM 600 D 1 
HETATM 5 C C1A HEM . . . K 2 -13.149 20.972 190.841 1 67.62 ? C1A HEM 600 D 1 
HETATM 6 C C2A HEM . . . K 2 -13.012 19.677 190.179 1 67.64 ? C2A HEM 600 D 1 
HETATM 7 C C3A HEM . . . K 2 -12.57 19.922 188.94 1 53.64 ? C3A HEM 600 D 1 
HETATM 8 C C4A HEM . . . K 2 -12.436 21.349 188.77 1 61.41 ? C4A HEM 600 D 1 
HETATM 9 C CMA HEM . . . K 2 -12.268 18.873 187.863 1 60.41 ? CMA HEM 600 D 1 
HETATM 10 C CAA HEM . . . K 2 -13.291 18.281 190.826 1 64.12 ? CAA HEM 600 D 1 
HETATM 11 C CBA HEM . . . K 2 -14.558 17.611 190.286 1 63.44 ? CBA HEM 600 D 1 
HETATM 12 C CGA HEM . . . K 2 -14.786 16.209 190.833 1 69.62 ? CGA HEM 600 D 1 
HETATM 13 O O1A HEM . . . K 2 -15.823 15.592 190.445 1 66.15 ? O1A HEM 600 D 1 
HETATM 14 O O2A HEM . . . K 2 -13.955 15.705 191.643 1 66.43 ? O2A HEM 600 D 1 
HETATM 15 C C1B HEM . . . K 2 -11.77 23.331 187.501 1 65.91 ? C1B HEM 600 D 1 
HETATM 16 C C2B HEM . . . K 2 -11.394 24.015 186.276 1 67.24 ? C2B HEM 600 D 1 
HETATM 17 C C3B HEM . . . K 2 -11.253 25.319 186.573 1 69.76 ? C3B HEM 600 D 1 
HETATM 18 C C4B HEM . . . K 2 -11.528 25.477 187.98 1 67.65 ? C4B HEM 600 D 1 
HETATM 19 C CMB HEM . . . K 2 -11.229 23.266 184.927 1 57.15 ? CMB HEM 600 D 1 
HETATM 20 C CAB HEM . . . K 2 -10.861 26.548 185.716 1 61.04 ? CAB HEM 600 D 1 
HETATM 21 C CBB HEM . . . K 2 -10.501 26.511 184.436 1 64.19 ? CBB HEM 600 D 1 
HETATM 22 C C1C HEM . . . K 2 -12 26.924 189.889 1 64.84 ? C1C HEM 600 D 1 
HETATM 23 C C2C HEM . . . K 2 -12.235 28.243 190.435 1 70.42 ? C2C HEM 600 D 1 
HETATM 24 C C3C HEM . . . K 2 -12.745 28.113 191.662 1 68.43 ? C3C HEM 600 D 1 
HETATM 25 C C4C HEM . . . K 2 -12.847 26.672 191.937 1 62.37 ? C4C HEM 600 D 1 
HETATM 26 C CMC HEM . . . K 2 -11.94 29.559 189.686 1 68.36 ? CMC HEM 600 D 1 
HETATM 27 C CAC HEM . . . K 2 -13.11 29.34 192.533 1 64.47 ? CAC HEM 600 D 1 
HETATM 28 C CBC HEM . . . K 2 -13.764 29.247 193.69 1 71.07 ? CBC HEM 600 D 1 
HETATM 29 C C1D HEM . . . K 2 -13.454 24.641 193.238 1 69.21 ? C1D HEM 600 D 1 
HETATM 30 C C2D HEM . . . K 2 -13.746 24.017 194.515 1 64.38 ? C2D HEM 600 D 1 
HETATM 31 C C3D HEM . . . K 2 -13.843 22.516 194.245 1 56.38 ? C3D HEM 600 D 1 
HETATM 32 C C4D HEM . . . K 2 -13.595 22.375 192.82 1 57.42 ? C4D HEM 600 D 1 
HETATM 33 C CMD HEM . . . K 2 -13.933 24.723 195.863 1 66.15 ? CMD HEM 600 D 1 
HETATM 34 C CAD HEM . . . K 2 -14.138 21.418 195.286 1 57.02 ? CAD HEM 600 D 1 
HETATM 35 C CBD HEM . . . K 2 -15.597 20.979 195.167 1 58.93 ? CBD HEM 600 D 1 
HETATM 36 C CGD HEM . . . K 2 -15.894 19.792 196.055 1 69.69 ? CGD HEM 600 D 1 
HETATM 37 O O1D HEM . . . K 2 -17.05 19.699 196.547 1 69.02 ? O1D HEM 600 D 1 
HETATM 38 O O2D HEM . . . K 2 -14.993 18.933 196.278 1 69.04 ? O2D HEM 600 D 1 
HETATM 39 N NA HEM . . . K 2 -12.804 21.961 189.947 1 67.86 ? NA HEM 600 D 1 
HETATM 40 N NB HEM . . . K 2 -11.846 24.253 188.512 1 62.81 ? NB HEM 600 D 1 
HETATM 41 N NC HEM . . . K 2 -12.383 25.989 190.821 1 65.23 ? NC HEM 600 D 1 
HETATM 42 N ND HEM . . . K 2 -13.374 23.632 192.263 1 64.37 ? ND HEM 600 D 1 
HETATM 43 FE FE HEM . . . K 2 -12.769 23.955 190.237 1 58.04 ? FE HEM 600 D 1 
HETATM 44 H HHB HEM . . . K 2 -11.893 21.434 186.832 1 81.88 ? HHB HEM 600 D 1 
HETATM 45 H HHC HEM . . . K 2 -11.026 27.409 188.202 1 73.75 ? HHC HEM 600 D 1 
HETATM 46 H HHD HEM . . . K 2 -13.547 26.578 193.827 1 71.23 ? HHD HEM 600 D 1 
HETATM 47 H HMA HEM . . . K 2 -11.57 18.266 188.186 1 72.5 ? HMA HEM 600 D 1 
HETATM 48 H HMAA HEM . . . K 2 -11.959 19.322 187.048 1 72.5 ? HMAA HEM 600 D 1 
HETATM 49 H HMAB HEM . . . K 2 -13.081 18.362 187.667 1 72.5 ? HMAB HEM 600 D 1 
HETATM 50 H HAA HEM . . . K 2 -13.384 18.395 191.785 1 76.95 ? HAA HEM 600 D 1 
HETATM 51 H HAAA HEM . . . K 2 -12.534 17.7 190.653 1 76.95 ? HAAA HEM 600 D 1 
HETATM 52 H HBA HEM . . . K 2 -14.493 17.56 189.319 1 76.12 ? HBA HEM 600 D 1 
HETATM 53 H HBAA HEM . . . K 2 -15.322 18.162 190.517 1 76.12 ? HBAA HEM 600 D 1 
HETATM 54 H HMB HEM . . . K 2 -10.54 22.589 185.015 1 68.58 ? HMB HEM 600 D 1 
HETATM 55 H HMBA HEM . . . K 2 -10.976 23.897 184.235 1 68.58 ? HMBA HEM 600 D 1 
HETATM 56 H HMBB HEM . . . K 2 -12.069 22.843 184.687 1 68.58 ? HMBB HEM 600 D 1 
HETATM 57 H HAB HEM . . . K 2 -10.878 27.407 186.144 1 73.25 ? HAB HEM 600 D 1 
HETATM 58 H HBB HEM . . . K 2 -10.275 27.332 183.971 1 77.03 ? HBB HEM 600 D 1 
HETATM 59 H HBBA HEM . . . K 2 -10.47 25.663 183.965 1 77.03 ? HBBA HEM 600 D 1 
HETATM 60 H HMC HEM . . . K 2 -10.996 29.602 189.468 1 82.03 ? HMC HEM 600 D 1 
HETATM 61 H HMCA HEM . . . K 2 -12.177 30.312 190.249 1 82.03 ? HMCA HEM 600 D 1 
HETATM 62 H HMCB HEM . . . K 2 -12.462 29.589 188.869 1 82.03 ? HMCB HEM 600 D 1 
HETATM 63 H HAC HEM . . . K 2 -12.852 30.211 192.224 1 77.37 ? HAC HEM 600 D 1 
HETATM 64 H HBC HEM . . . K 2 -13.964 30.048 194.2 1 85.29 ? HBC HEM 600 D 1 
HETATM 65 H HBCA HEM . . . K 2 -14.037 28.379 194.025 1 85.29 ? HBCA HEM 600 D 1 
HETATM 66 H HMD HEM . . . K 2 -14.121 24.058 196.557 1 79.38 ? HMD HEM 600 D 1 
HETATM 67 H HMDA HEM . . . K 2 -14.683 25.352 195.801 1 79.38 ? HMDA HEM 600 D 1 
HETATM 68 H HMDB HEM . . . K 2 -13.115 25.212 196.091 1 79.38 ? HMDB HEM 600 D 1 
HETATM 69 H HAD HEM . . . K 2 -13.977 21.765 196.177 1 68.43 ? HAD HEM 600 D 1 
HETATM 70 H HADA HEM . . . K 2 -13.558 20.657 195.126 1 68.43 ? HADA HEM 600 D 1 
HETATM 71 H HBD HEM . . . K 2 -15.781 20.74 194.246 1 70.72 ? HBD HEM 600 D 1 
HETATM 72 H HBDA HEM . . . K 2 -16.171 21.718 195.424 1 70.72 ? HBDA HEM 600 D 1 
HETATM 73 H HHA HEM . . . K 2 -13.907 20.398 192.616 1 73.72 ? HHA HEM 600 D 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    48 
_model_server_stats.query_time_ms           310 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           73 
#