data_4NXA
#
_model_server_result.job_id            gKRWluDpnywjQ5NXY2G8Iw 
_model_server_result.datetime_utc      '2024-11-28 23:19:45' 
_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          4nxa 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":201}' 
#
_entry.id    4NXA 
#
_exptl.entry_id    4NXA 
_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          104.48 
_cell.angle_gamma         90 
_cell.entry_id            4NXA 
_cell.length_a            35.37 
_cell.length_b            30.717 
_cell.length_c            63.583 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4NXA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M 
_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
metalc ? metalc1 A ND1 HIS 37 A HIS 36 1_555 C ZN ZN . A ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? 
metalc ? metalc2 A OE2 GLU 39 A GLU 38 1_555 C ZN ZN . A ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.73 ? 
metalc ? metalc3 A OE2 GLU 60 A GLU 59 1_555 D ZN ZN . A ZN 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.854 ? 
metalc ? metalc4 A NZ LYS 63 A LYS 62 1_555 D ZN ZN . A ZN 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? 
metalc ? metalc5 A NE2 HIS 94 A HIS 93 1_555 B FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? 
metalc ? metalc6 B FE HEM . A HEM 201 1_555 M O HOH . A HOH 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? 
#
_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 116 n n 
CHA C4D HEM doub 117 n n 
CHA HHA HEM sing 118 n n 
CHB C4A HEM sing 119 n n 
CHB C1B HEM doub 120 n n 
CHB HHB HEM sing 121 n n 
CHC C4B HEM sing 122 n n 
CHC C1C HEM doub 123 n n 
CHC HHC HEM sing 124 n n 
CHD C4C HEM doub 125 n n 
CHD C1D HEM sing 126 n n 
CHD HHD HEM sing 127 n n 
C1A C2A HEM doub 128 n y 
C1A NA HEM sing 129 n y 
C2A C3A HEM sing 130 n y 
C2A CAA HEM sing 131 n n 
C3A C4A HEM doub 132 n y 
C3A CMA HEM sing 133 n n 
C4A NA HEM sing 134 n y 
CMA HMA HEM sing 135 n n 
CMA HMAA HEM sing 136 n n 
CMA HMAB HEM sing 137 n n 
CAA CBA HEM sing 138 n n 
CAA HAA HEM sing 139 n n 
CAA HAAA HEM sing 140 n n 
CBA CGA HEM sing 141 n n 
CBA HBA HEM sing 142 n n 
CBA HBAA HEM sing 143 n n 
CGA O1A HEM doub 144 n n 
CGA O2A HEM sing 145 n n 
C1B C2B HEM sing 146 n n 
C1B NB HEM sing 147 n n 
C2B C3B HEM doub 148 n n 
C2B CMB HEM sing 149 n n 
C3B C4B HEM sing 150 n n 
C3B CAB HEM sing 151 n n 
C4B NB HEM doub 152 n n 
CMB HMB HEM sing 153 n n 
CMB HMBA HEM sing 154 n n 
CMB HMBB HEM sing 155 n n 
CAB CBB HEM doub 156 n n 
CAB HAB HEM sing 157 n n 
CBB HBB HEM sing 158 n n 
CBB HBBA HEM sing 159 n n 
C1C C2C HEM sing 160 n y 
C1C NC HEM sing 161 n y 
C2C C3C HEM doub 162 n y 
C2C CMC HEM sing 163 n n 
C3C C4C HEM sing 164 n y 
C3C CAC HEM sing 165 n n 
C4C NC HEM sing 166 n y 
CMC HMC HEM sing 167 n n 
CMC HMCA HEM sing 168 n n 
CMC HMCB HEM sing 169 n n 
CAC CBC HEM doub 170 n n 
CAC HAC HEM sing 171 n n 
CBC HBC HEM sing 172 n n 
CBC HBCA HEM sing 173 n n 
C1D C2D HEM sing 174 n n 
C1D ND HEM doub 175 n n 
C2D C3D HEM doub 176 n n 
C2D CMD HEM sing 177 n n 
C3D C4D HEM sing 178 n n 
C3D CAD HEM sing 179 n n 
C4D ND HEM sing 180 n n 
CMD HMD HEM sing 181 n n 
CMD HMDA HEM sing 182 n n 
CMD HMDB HEM sing 183 n n 
CAD CBD HEM sing 184 n n 
CAD HAD HEM sing 185 n n 
CAD HADA HEM sing 186 n n 
CBD CGD HEM sing 187 n n 
CBD HBD HEM sing 188 n n 
CBD HBDA HEM sing 189 n n 
CGD O1D HEM doub 190 n n 
CGD O2D HEM sing 191 n n 
O2A H2A HEM sing 192 n n 
O2D H2D HEM sing 193 n n 
FE NA HEM sing 194 n n 
FE NB HEM sing 195 n n 
FE NC HEM sing 196 n n 
FE ND HEM sing 197 n n 
#
_atom_sites.entry_id                     4NXA 
_atom_sites.fract_transf_matrix[1][1]    0.028272 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.007302 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.032555 
_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]    0.016244 
_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 1 201 160 HEM HEM . 
C 3 ZN A 1 202 170 ZN ZN . 
D 3 ZN A 1 203 171 ZN ZN . 
E 4 SO4 A 1 204 172 SO4 SO4 . 
F 4 SO4 A 1 205 173 SO4 SO4 . 
G 4 SO4 A 1 206 174 SO4 SO4 . 
H 5 XE A 1 207 181 XE XE . 
I 5 XE A 1 208 182 XE XE . 
J 5 XE A 1 209 183 XE XE . 
K 5 XE A 1 210 184 XE XE . 
L 5 XE A 1 211 185 XE XE . 
M 6 HOH A 1 301 201 HOH HOH . 
M 6 HOH A 2 302 202 HOH HOH . 
M 6 HOH A 3 303 203 HOH HOH . 
M 6 HOH A 4 304 204 HOH HOH . 
M 6 HOH A 5 305 205 HOH HOH . 
M 6 HOH A 6 306 206 HOH HOH . 
M 6 HOH A 7 307 207 HOH HOH . 
M 6 HOH A 8 308 208 HOH HOH . 
M 6 HOH A 9 309 209 HOH HOH . 
M 6 HOH A 10 310 210 HOH HOH . 
M 6 HOH A 11 311 211 HOH HOH . 
M 6 HOH A 12 312 212 HOH HOH . 
M 6 HOH A 13 313 213 HOH HOH . 
M 6 HOH A 14 314 214 HOH HOH . 
M 6 HOH A 15 315 215 HOH HOH . 
M 6 HOH A 16 316 216 HOH HOH . 
M 6 HOH A 17 317 217 HOH HOH . 
M 6 HOH A 18 318 218 HOH HOH . 
M 6 HOH A 19 319 219 HOH HOH . 
M 6 HOH A 20 320 220 HOH HOH . 
M 6 HOH A 21 321 221 HOH HOH . 
M 6 HOH A 22 322 222 HOH HOH . 
M 6 HOH A 23 323 223 HOH HOH . 
M 6 HOH A 24 324 224 HOH HOH . 
M 6 HOH A 25 325 225 HOH HOH . 
M 6 HOH A 26 326 226 HOH HOH . 
M 6 HOH A 27 327 227 HOH HOH . 
M 6 HOH A 28 328 228 HOH HOH . 
M 6 HOH A 29 329 229 HOH HOH . 
M 6 HOH A 30 330 230 HOH HOH . 
M 6 HOH A 31 331 231 HOH HOH . 
M 6 HOH A 32 332 232 HOH HOH . 
M 6 HOH A 33 333 234 HOH HOH . 
M 6 HOH A 34 334 235 HOH HOH . 
M 6 HOH A 35 335 236 HOH HOH . 
M 6 HOH A 36 336 237 HOH HOH . 
M 6 HOH A 37 337 242 HOH HOH . 
M 6 HOH A 38 338 243 HOH HOH . 
M 6 HOH A 39 339 244 HOH HOH . 
M 6 HOH A 40 340 253 HOH HOH . 
M 6 HOH A 41 341 254 HOH HOH . 
M 6 HOH A 42 342 255 HOH HOH . 
M 6 HOH A 43 343 261 HOH HOH . 
M 6 HOH A 44 344 264 HOH HOH . 
M 6 HOH A 45 345 265 HOH HOH . 
M 6 HOH A 46 346 266 HOH HOH . 
M 6 HOH A 47 347 267 HOH HOH . 
M 6 HOH A 48 348 270 HOH HOH . 
M 6 HOH A 49 349 272 HOH HOH . 
M 6 HOH A 50 350 278 HOH HOH . 
M 6 HOH A 51 351 279 HOH HOH . 
M 6 HOH A 52 352 282 HOH HOH . 
M 6 HOH A 53 353 290 HOH HOH . 
M 6 HOH A 54 354 299 HOH HOH . 
M 6 HOH A 55 355 300 HOH HOH . 
M 6 HOH A 56 356 301 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 8.874 -9.885 13.871 1 14.71 ? CHA HEM 201 A 1 
HETATM 2 C CHB HEM . . . B 2 5.212 -6.834 15.307 1 13.93 ? CHB HEM 201 A 1 
HETATM 3 C CHC HEM . . . B 2 8.431 -3.464 16.663 1 13.12 ? CHC HEM 201 A 1 
HETATM 4 C CHD HEM . . . B 2 12.109 -6.602 15.354 1 14.12 ? CHD HEM 201 A 1 
HETATM 5 C C1A HEM . . . B 2 7.57 -9.345 14.188 1 15 ? C1A HEM 201 A 1 
HETATM 6 C C2A HEM . . . B 2 6.321 -10.1 13.968 1 15.62 ? C2A HEM 201 A 1 
HETATM 7 C C3A HEM . . . B 2 5.231 -9.199 14.365 1 15.55 ? C3A HEM 201 A 1 
HETATM 8 C C4A HEM . . . B 2 5.926 -7.977 14.84 1 13.88 ? C4A HEM 201 A 1 
HETATM 9 C CMA HEM . . . B 2 3.744 -9.463 14.365 1 16.25 ? CMA HEM 201 A 1 
HETATM 10 C CAA HEM . . . B 2 6.225 -11.509 13.442 1 18.04 ? CAA HEM 201 A 1 
HETATM 11 C CBA HEM . . . B 2 5.932 -12.458 14.615 1 21.62 ? CBA HEM 201 A 1 
HETATM 12 C CGA HEM . . . B 2 6.943 -12.417 15.752 1 21.91 ? CGA HEM 201 A 1 
HETATM 13 O O1A HEM . . . B 2 6.548 -11.996 16.849 1 25.06 ? O1A HEM 201 A 1 
HETATM 14 O O2A HEM . . . B 2 8.123 -12.797 15.591 1 24.93 ? O2A HEM 201 A 1 
HETATM 15 C C1B HEM . . . B 2 5.803 -5.627 15.824 1 13.22 ? C1B HEM 201 A 1 
HETATM 16 C C2B HEM . . . B 2 4.934 -4.521 16.25 1 13.43 ? C2B HEM 201 A 1 
HETATM 17 C C3B HEM . . . B 2 5.895 -3.531 16.614 1 13.7 ? C3B HEM 201 A 1 
HETATM 18 C C4B HEM . . . B 2 7.19 -4.169 16.37 1 13.03 ? C4B HEM 201 A 1 
HETATM 19 C CMB HEM . . . B 2 3.438 -4.451 16.282 1 15.47 ? CMB HEM 201 A 1 
HETATM 20 C CAB HEM . . . B 2 5.593 -2.19 17.168 1 14.5 ? CAB HEM 201 A 1 
HETATM 21 C CBB HEM . . . B 2 4.792 -1.361 16.532 1 15.67 ? CBB HEM 201 A 1 
HETATM 22 C C1C HEM . . . B 2 9.74 -3.985 16.349 1 13.46 ? C1C HEM 201 A 1 
HETATM 23 C C2C HEM . . . B 2 10.992 -3.193 16.449 1 13.63 ? C2C HEM 201 A 1 
HETATM 24 C C3C HEM . . . B 2 12.034 -4.136 16.045 1 13.73 ? C3C HEM 201 A 1 
HETATM 25 C C4C HEM . . . B 2 11.383 -5.424 15.728 1 13.84 ? C4C HEM 201 A 1 
HETATM 26 C CMC HEM . . . B 2 11.13 -1.743 16.854 1 13.89 ? CMC HEM 201 A 1 
HETATM 27 C CAC HEM . . . B 2 13.488 -3.918 15.912 1 14.95 ? CAC HEM 201 A 1 
HETATM 28 C CBC HEM . . . B 2 14.032 -2.729 16.09 1 17.18 ? CBC HEM 201 A 1 
HETATM 29 C C1D HEM . . . B 2 11.501 -7.79 14.813 1 14.3 ? C1D HEM 201 A 1 
HETATM 30 C C2D HEM . . . B 2 12.392 -8.838 14.288 1 15.43 ? C2D HEM 201 A 1 
HETATM 31 C C3D HEM . . . B 2 11.427 -9.812 13.823 1 15.51 ? C3D HEM 201 A 1 
HETATM 32 C C4D HEM . . . B 2 10.128 -9.219 14.151 1 14.25 ? C4D HEM 201 A 1 
HETATM 33 C CMD HEM . . . B 2 13.882 -8.903 14.197 1 16.96 ? CMD HEM 201 A 1 
HETATM 34 C CAD HEM . . . B 2 11.705 -11.112 13.123 1 16.98 ? CAD HEM 201 A 1 
HETATM 35 C CBD HEM . . . B 2 11.672 -10.745 11.639 1 19.1 ? CBD HEM 201 A 1 
HETATM 36 C CGD HEM . . . B 2 11.976 -11.952 10.766 1 20.77 ? CGD HEM 201 A 1 
HETATM 37 O O1D HEM . . . B 2 13.156 -12.312 10.612 1 22.53 ? O1D HEM 201 A 1 
HETATM 38 O O2D HEM . . . B 2 11.031 -12.527 10.208 1 22.18 ? O2D HEM 201 A 1 
HETATM 39 N NA HEM . . . B 2 7.335 -7.989 14.65 1 14.05 ? NA HEM 201 A 1 
HETATM 40 N NB HEM . . . B 2 7.139 -5.426 15.866 1 13.52 ? NB HEM 201 A 1 
HETATM 41 N NC HEM . . . B 2 9.974 -5.337 15.874 1 13.38 ? NC HEM 201 A 1 
HETATM 42 N ND HEM . . . B 2 10.172 -8.002 14.727 1 14.16 ? ND HEM 201 A 1 
HETATM 43 FE FE HEM . . . B 2 8.666 -6.76 15.423 1 13.89 ? FE HEM 201 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           297 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           43 
#