data_1NP4
#
_model_server_result.job_id            cbg8MyyXW_A9TCOBrdB5_A 
_model_server_result.datetime_utc      '2025-01-10 16:32:11' 
_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          1np4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":185}' 
#
_entry.id    1NP4 
#
_exptl.entry_id    1NP4 
_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    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          94.19 
_cell.angle_gamma         90 
_cell.entry_id            1NP4 
_cell.length_a            70.54 
_cell.length_b            43.65 
_cell.length_c            53.12 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1NP4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 2 A CYS 2 1_555 A SG CYS 122 A CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? 
disulf ? disulf2 A SG CYS 41 A CYS 41 1_555 A SG CYS 171 A CYS 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
metalc ? metalc1 A NE2 HIS 59 A HIS 59 1_555 B FE HEM . A HEM 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? 
metalc ? metalc2 B FE HEM . A HEM 185 1_555 C N NH3 . A NH3 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? 
#
_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                     1NP4 
_atom_sites.fract_transf_matrix[1][1]    0.014176 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001038 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.022909 
_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]    0.018876 
_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
B 2 HEM A 1 185 185 HEM HEM . 
C 3 NH3 A 1 262 262 NH3 NH3 . 
D 4 HOH A 1 186 186 HOH HOH . 
D 4 HOH A 2 187 187 HOH HOH . 
D 4 HOH A 3 188 188 HOH HOH . 
D 4 HOH A 4 189 189 HOH HOH . 
D 4 HOH A 5 190 190 HOH HOH . 
D 4 HOH A 6 191 191 HOH HOH . 
D 4 HOH A 7 192 192 HOH HOH . 
D 4 HOH A 8 193 193 HOH HOH . 
D 4 HOH A 9 194 194 HOH HOH . 
D 4 HOH A 10 195 195 HOH HOH . 
D 4 HOH A 11 196 196 HOH HOH . 
D 4 HOH A 12 197 197 HOH HOH . 
D 4 HOH A 13 198 198 HOH HOH . 
D 4 HOH A 14 199 199 HOH HOH . 
D 4 HOH A 15 200 200 HOH HOH . 
D 4 HOH A 16 201 201 HOH HOH . 
D 4 HOH A 17 202 202 HOH HOH . 
D 4 HOH A 18 203 203 HOH HOH . 
D 4 HOH A 19 204 204 HOH HOH . 
D 4 HOH A 20 205 205 HOH HOH . 
D 4 HOH A 21 206 206 HOH HOH . 
D 4 HOH A 22 207 207 HOH HOH . 
D 4 HOH A 23 208 208 HOH HOH . 
D 4 HOH A 24 209 209 HOH HOH . 
D 4 HOH A 25 210 210 HOH HOH . 
D 4 HOH A 26 211 211 HOH HOH . 
D 4 HOH A 27 212 212 HOH HOH . 
D 4 HOH A 28 213 213 HOH HOH . 
D 4 HOH A 29 214 214 HOH HOH . 
D 4 HOH A 30 215 215 HOH HOH . 
D 4 HOH A 31 216 216 HOH HOH . 
D 4 HOH A 32 217 217 HOH HOH . 
D 4 HOH A 33 218 218 HOH HOH . 
D 4 HOH A 34 219 219 HOH HOH . 
D 4 HOH A 35 220 220 HOH HOH . 
D 4 HOH A 36 221 221 HOH HOH . 
D 4 HOH A 37 222 222 HOH HOH . 
D 4 HOH A 38 223 223 HOH HOH . 
D 4 HOH A 39 224 224 HOH HOH . 
D 4 HOH A 40 225 225 HOH HOH . 
D 4 HOH A 41 226 226 HOH HOH . 
D 4 HOH A 42 227 227 HOH HOH . 
D 4 HOH A 43 228 228 HOH HOH . 
D 4 HOH A 44 229 229 HOH HOH . 
D 4 HOH A 45 230 230 HOH HOH . 
D 4 HOH A 46 231 231 HOH HOH . 
D 4 HOH A 47 232 232 HOH HOH . 
D 4 HOH A 48 233 233 HOH HOH . 
D 4 HOH A 49 234 234 HOH HOH . 
D 4 HOH A 50 235 235 HOH HOH . 
D 4 HOH A 51 236 236 HOH HOH . 
D 4 HOH A 52 237 237 HOH HOH . 
D 4 HOH A 53 238 238 HOH HOH . 
D 4 HOH A 54 239 239 HOH HOH . 
D 4 HOH A 55 240 240 HOH HOH . 
D 4 HOH A 56 241 241 HOH HOH . 
D 4 HOH A 57 242 242 HOH HOH . 
D 4 HOH A 58 243 243 HOH HOH . 
D 4 HOH A 59 244 244 HOH HOH . 
D 4 HOH A 60 245 245 HOH HOH . 
D 4 HOH A 61 246 246 HOH HOH . 
D 4 HOH A 62 247 247 HOH HOH . 
D 4 HOH A 63 248 248 HOH HOH . 
D 4 HOH A 64 249 249 HOH HOH . 
D 4 HOH A 65 250 250 HOH HOH . 
D 4 HOH A 66 251 251 HOH HOH . 
D 4 HOH A 67 252 252 HOH HOH . 
D 4 HOH A 68 253 253 HOH HOH . 
D 4 HOH A 69 254 254 HOH HOH . 
D 4 HOH A 70 255 255 HOH HOH . 
D 4 HOH A 71 256 256 HOH HOH . 
D 4 HOH A 72 257 257 HOH HOH . 
D 4 HOH A 73 258 258 HOH HOH . 
D 4 HOH A 74 259 259 HOH HOH . 
D 4 HOH A 75 260 260 HOH HOH . 
D 4 HOH A 76 261 261 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 . . . B 2 11.58 23.264 35.182 1 15.85 ? CHA HEM 185 A 1 
HETATM 2 C CHB HEM . . . B 2 7.702 20.538 36.289 1 15.16 ? CHB HEM 185 A 1 
HETATM 3 C CHC HEM . . . B 2 10.638 17.481 38.697 1 14.28 ? CHC HEM 185 A 1 
HETATM 4 C CHD HEM . . . B 2 14.476 19.678 36.728 1 14.92 ? CHD HEM 185 A 1 
HETATM 5 C C1A HEM . . . B 2 10.272 22.86 35.445 1 15.5 ? C1A HEM 185 A 1 
HETATM 6 C C2A HEM . . . B 2 9.086 23.643 35.069 1 14.4 ? C2A HEM 185 A 1 
HETATM 7 C C3A HEM . . . B 2 8.003 22.854 35.347 1 13.78 ? C3A HEM 185 A 1 
HETATM 8 C C4A HEM . . . B 2 8.513 21.593 35.855 1 13.72 ? C4A HEM 185 A 1 
HETATM 9 C CMA HEM . . . B 2 6.544 23.236 35.189 1 13.87 ? CMA HEM 185 A 1 
HETATM 10 C CAA HEM . . . B 2 9.096 25.073 34.502 1 15.12 ? CAA HEM 185 A 1 
HETATM 11 C CBA HEM . . . B 2 8.974 26.063 35.653 1 16.33 ? CBA HEM 185 A 1 
HETATM 12 C CGA HEM . . . B 2 8.998 27.515 35.206 1 17.32 ? CGA HEM 185 A 1 
HETATM 13 O O1A HEM . . . B 2 9.714 27.833 34.233 1 18.51 ? O1A HEM 185 A 1 
HETATM 14 O O2A HEM . . . B 2 8.297 28.34 35.833 1 18.36 ? O2A HEM 185 A 1 
HETATM 15 C C1B HEM . . . B 2 8.182 19.438 37.014 1 17.11 ? C1B HEM 185 A 1 
HETATM 16 C C2B HEM . . . B 2 7.339 18.429 37.611 1 16.59 ? C2B HEM 185 A 1 
HETATM 17 C C3B HEM . . . B 2 8.143 17.591 38.331 1 16.32 ? C3B HEM 185 A 1 
HETATM 18 C C4B HEM . . . B 2 9.503 18.109 38.195 1 15.78 ? C4B HEM 185 A 1 
HETATM 19 C CMB HEM . . . B 2 5.823 18.328 37.464 1 18.34 ? CMB HEM 185 A 1 
HETATM 20 C CAB HEM . . . B 2 7.733 16.386 38.873 1 17.32 ? CAB HEM 185 A 1 
HETATM 21 C CBB HEM . . . B 2 7.95 15.999 40.162 1 22.23 ? CBB HEM 185 A 1 
HETATM 22 C C1C HEM . . . B 2 11.932 17.834 38.364 1 14.9 ? C1C HEM 185 A 1 
HETATM 23 C C2C HEM . . . B 2 13.104 17.05 38.755 1 17.2 ? C2C HEM 185 A 1 
HETATM 24 C C3C HEM . . . B 2 14.144 17.554 38.056 1 16.92 ? C3C HEM 185 A 1 
HETATM 25 C C4C HEM . . . B 2 13.661 18.749 37.368 1 16.86 ? C4C HEM 185 A 1 
HETATM 26 C CMC HEM . . . B 2 13.175 15.917 39.788 1 17 ? CMC HEM 185 A 1 
HETATM 27 C CAC HEM . . . B 2 15.311 16.866 37.824 1 19.41 ? CAC HEM 185 A 1 
HETATM 28 C CBC HEM . . . B 2 16.481 17.25 38.407 1 22.31 ? CBC HEM 185 A 1 
HETATM 29 C C1D HEM . . . B 2 13.999 20.841 36.136 1 18.27 ? C1D HEM 185 A 1 
HETATM 30 C C2D HEM . . . B 2 14.835 21.81 35.478 1 18.71 ? C2D HEM 185 A 1 
HETATM 31 C C3D HEM . . . B 2 14.038 22.815 35.074 1 20.55 ? C3D HEM 185 A 1 
HETATM 32 C C4D HEM . . . B 2 12.686 22.472 35.449 1 17.89 ? C4D HEM 185 A 1 
HETATM 33 C CMD HEM . . . B 2 16.323 21.682 35.198 1 20.44 ? CMD HEM 185 A 1 
HETATM 34 C CAD HEM . . . B 2 14.498 24.067 34.356 1 24.5 ? CAD HEM 185 A 1 
HETATM 35 C CBD HEM . . . B 2 14.36 23.917 32.853 1 31.56 ? CBD HEM 185 A 1 
HETATM 36 C CGD HEM . . . B 2 14.527 25.235 32.124 1 35.15 ? CGD HEM 185 A 1 
HETATM 37 O O1D HEM . . . B 2 15.384 25.304 31.22 1 39.17 ? O1D HEM 185 A 1 
HETATM 38 O O2D HEM . . . B 2 13.804 26.2 32.452 1 35.19 ? O2D HEM 185 A 1 
HETATM 39 N NA HEM . . . B 2 9.916 21.613 35.973 1 14.4 ? NA HEM 185 A 1 
HETATM 40 N NB HEM . . . B 2 9.522 19.229 37.363 1 14.76 ? NB HEM 185 A 1 
HETATM 41 N NC HEM . . . B 2 12.278 18.88 37.521 1 14.76 ? NC HEM 185 A 1 
HETATM 42 N ND HEM . . . B 2 12.658 21.231 36.087 1 16.4 ? ND HEM 185 A 1 
HETATM 43 FE FE HEM . . . B 2 11.098 20.226 36.753 1 14.97 ? FE HEM 185 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           43 
#