data_5U3I
#
_model_server_result.job_id            7Iyrhl1rN0t_7HhRvdp65A 
_model_server_result.datetime_utc      '2025-03-05 22:02:45' 
_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          5u3i 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":201}' 
#
_entry.id    5U3I 
#
_exptl.entry_id    5U3I 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              616.487 
_entity.id                          3 
_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            5U3I 
_cell.length_a            57.385 
_cell.length_b            59.04 
_cell.length_c            172.637 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5U3I 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,N,O,P,Q 
_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
? 3 E N N 
? 3 H N N 
? 3 J N N 
? 3 L 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 NE2 HIS 87 A HIS 87 1_555 E FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? 
metalc ? metalc2 E FE HEM . A HEM 201 1_555 F O CMO . A CMO 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.761 ? 
metalc ? metalc3 B NE2 HIS 92 B HIS 92 1_555 H FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? 
metalc ? metalc4 C NE2 HIS 87 C HIS 87 1_555 J FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? 
metalc ? metalc5 J FE HEM . C HEM 201 1_555 K O CMO . C CMO 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.73 ? 
metalc ? metalc6 D NE2 HIS 92 D HIS 92 1_555 L FE HEM . D HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? 
metalc ? metalc7 L FE HEM . D HEM 201 1_555 M O CMO . D CMO 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? 
#
_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 178 n n 
CHA C4D HEM doub 179 n n 
CHA HHA HEM sing 180 n n 
CHB C4A HEM sing 181 n n 
CHB C1B HEM doub 182 n n 
CHB HHB HEM sing 183 n n 
CHC C4B HEM sing 184 n n 
CHC C1C HEM doub 185 n n 
CHC HHC HEM sing 186 n n 
CHD C4C HEM doub 187 n n 
CHD C1D HEM sing 188 n n 
CHD HHD HEM sing 189 n n 
C1A C2A HEM doub 190 n y 
C1A NA HEM sing 191 n y 
C2A C3A HEM sing 192 n y 
C2A CAA HEM sing 193 n n 
C3A C4A HEM doub 194 n y 
C3A CMA HEM sing 195 n n 
C4A NA HEM sing 196 n y 
CMA HMA HEM sing 197 n n 
CMA HMAA HEM sing 198 n n 
CMA HMAB HEM sing 199 n n 
CAA CBA HEM sing 200 n n 
CAA HAA HEM sing 201 n n 
CAA HAAA HEM sing 202 n n 
CBA CGA HEM sing 203 n n 
CBA HBA HEM sing 204 n n 
CBA HBAA HEM sing 205 n n 
CGA O1A HEM doub 206 n n 
CGA O2A HEM sing 207 n n 
C1B C2B HEM sing 208 n n 
C1B NB HEM sing 209 n n 
C2B C3B HEM doub 210 n n 
C2B CMB HEM sing 211 n n 
C3B C4B HEM sing 212 n n 
C3B CAB HEM sing 213 n n 
C4B NB HEM doub 214 n n 
CMB HMB HEM sing 215 n n 
CMB HMBA HEM sing 216 n n 
CMB HMBB HEM sing 217 n n 
CAB CBB HEM doub 218 n n 
CAB HAB HEM sing 219 n n 
CBB HBB HEM sing 220 n n 
CBB HBBA HEM sing 221 n n 
C1C C2C HEM sing 222 n y 
C1C NC HEM sing 223 n y 
C2C C3C HEM doub 224 n y 
C2C CMC HEM sing 225 n n 
C3C C4C HEM sing 226 n y 
C3C CAC HEM sing 227 n n 
C4C NC HEM sing 228 n y 
CMC HMC HEM sing 229 n n 
CMC HMCA HEM sing 230 n n 
CMC HMCB HEM sing 231 n n 
CAC CBC HEM doub 232 n n 
CAC HAC HEM sing 233 n n 
CBC HBC HEM sing 234 n n 
CBC HBCA HEM sing 235 n n 
C1D C2D HEM sing 236 n n 
C1D ND HEM doub 237 n n 
C2D C3D HEM doub 238 n n 
C2D CMD HEM sing 239 n n 
C3D C4D HEM sing 240 n n 
C3D CAD HEM sing 241 n n 
C4D ND HEM sing 242 n n 
CMD HMD HEM sing 243 n n 
CMD HMDA HEM sing 244 n n 
CMD HMDB HEM sing 245 n n 
CAD CBD HEM sing 246 n n 
CAD HAD HEM sing 247 n n 
CAD HADA HEM sing 248 n n 
CBD CGD HEM sing 249 n n 
CBD HBD HEM sing 250 n n 
CBD HBDA HEM sing 251 n n 
CGD O1D HEM doub 252 n n 
CGD O2D HEM sing 253 n n 
O2A H2A HEM sing 254 n n 
O2D H2D HEM sing 255 n n 
FE NA HEM sing 256 n n 
FE NB HEM sing 257 n n 
FE NC HEM sing 258 n n 
FE ND HEM sing 259 n n 
#
_atom_sites.entry_id                     5U3I 
_atom_sites.fract_transf_matrix[1][1]    0.017426 
_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]    0.016938 
_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]    0.005793 
_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 3 HEM A 1 201 142 HEM HEM . 
F 4 CMO A 1 202 143 CMO CMO . 
G 5 7SJ A 1 203 1 7SJ GBT . 
H 3 HEM B 1 201 147 HEM HEM . 
I 4 CMO B 1 202 148 CMO CMO . 
J 3 HEM C 1 201 142 HEM HEM . 
K 4 CMO C 1 202 143 CMO CMO . 
L 3 HEM D 1 201 147 HEM HEM . 
M 4 CMO D 1 202 148 CMO CMO . 
N 6 HOH A 1 301 17 HOH HOH . 
N 6 HOH A 2 302 3 HOH HOH . 
N 6 HOH A 3 303 16 HOH HOH . 
N 6 HOH A 4 304 34 HOH HOH . 
N 6 HOH A 5 305 14 HOH HOH . 
N 6 HOH A 6 306 10 HOH HOH . 
N 6 HOH A 7 307 37 HOH HOH . 
N 6 HOH A 8 308 46 HOH HOH . 
N 6 HOH A 9 309 18 HOH HOH . 
N 6 HOH A 10 310 35 HOH HOH . 
N 6 HOH A 11 311 15 HOH HOH . 
N 6 HOH A 12 312 49 HOH HOH . 
O 6 HOH B 1 301 52 HOH HOH . 
O 6 HOH B 2 302 13 HOH HOH . 
O 6 HOH B 3 303 36 HOH HOH . 
O 6 HOH B 4 304 11 HOH HOH . 
O 6 HOH B 5 305 50 HOH HOH . 
O 6 HOH B 6 306 51 HOH HOH . 
O 6 HOH B 7 307 12 HOH HOH . 
O 6 HOH B 8 308 38 HOH HOH . 
P 6 HOH C 1 301 32 HOH HOH . 
P 6 HOH C 2 302 41 HOH HOH . 
P 6 HOH C 3 303 31 HOH HOH . 
P 6 HOH C 4 304 25 HOH HOH . 
P 6 HOH C 5 305 42 HOH HOH . 
P 6 HOH C 6 306 29 HOH HOH . 
P 6 HOH C 7 307 28 HOH HOH . 
P 6 HOH C 8 308 5 HOH HOH . 
P 6 HOH C 9 309 30 HOH HOH . 
P 6 HOH C 10 310 23 HOH HOH . 
P 6 HOH C 11 311 20 HOH HOH . 
P 6 HOH C 12 312 24 HOH HOH . 
P 6 HOH C 13 313 21 HOH HOH . 
P 6 HOH C 14 314 9 HOH HOH . 
P 6 HOH C 15 315 1 HOH HOH . 
P 6 HOH C 16 316 54 HOH HOH . 
P 6 HOH C 17 317 6 HOH HOH . 
P 6 HOH C 18 318 48 HOH HOH . 
P 6 HOH C 19 319 53 HOH HOH . 
P 6 HOH C 20 320 4 HOH HOH . 
P 6 HOH C 21 321 2 HOH HOH . 
P 6 HOH C 22 322 47 HOH HOH . 
Q 6 HOH D 1 301 22 HOH HOH . 
Q 6 HOH D 2 302 55 HOH HOH . 
Q 6 HOH D 3 303 33 HOH HOH . 
Q 6 HOH D 4 304 7 HOH HOH . 
Q 6 HOH D 5 305 8 HOH HOH . 
Q 6 HOH D 6 306 19 HOH HOH . 
Q 6 HOH D 7 307 39 HOH HOH . 
Q 6 HOH D 8 308 40 HOH HOH . 
Q 6 HOH D 9 309 26 HOH HOH . 
Q 6 HOH D 10 310 45 HOH HOH . 
Q 6 HOH D 11 311 27 HOH HOH . 
Q 6 HOH D 12 312 44 HOH HOH . 
Q 6 HOH D 13 313 43 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 . . . L 3 -4.452 -10.508 -19.215 1 104.62 ? CHA HEM 201 D 1 
HETATM 2 C CHB HEM . . . L 3 -3.801 -8.092 -23.351 1 94.47 ? CHB HEM 201 D 1 
HETATM 3 C CHC HEM . . . L 3 0.969 -7.857 -22.483 1 76.44 ? CHC HEM 201 D 1 
HETATM 4 C CHD HEM . . . L 3 0.315 -10.52 -18.469 1 95.88 ? CHD HEM 201 D 1 
HETATM 5 C C1A HEM . . . L 3 -4.676 -9.902 -20.428 1 105.96 ? C1A HEM 201 D 1 
HETATM 6 C C2A HEM . . . L 3 -5.946 -9.845 -21.119 1 111.04 ? C2A HEM 201 D 1 
HETATM 7 C C3A HEM . . . L 3 -5.771 -9.178 -22.256 1 106.54 ? C3A HEM 201 D 1 
HETATM 8 C C4A HEM . . . L 3 -4.38 -8.79 -22.328 1 101.08 ? C4A HEM 201 D 1 
HETATM 9 C CMA HEM . . . L 3 -6.854 -8.878 -23.311 1 105.09 ? CMA HEM 201 D 1 
HETATM 10 C CAA HEM . . . L 3 -7.268 -10.462 -20.625 1 119.15 ? CAA HEM 201 D 1 
HETATM 11 C CBA HEM . . . L 3 -8.108 -9.391 -19.95 1 127.58 ? CBA HEM 201 D 1 
HETATM 12 C CGA HEM . . . L 3 -9.107 -10.094 -19.069 1 136.73 ? CGA HEM 201 D 1 
HETATM 13 O O1A HEM . . . L 3 -9.083 -11.353 -19.028 1 141.08 ? O1A HEM 201 D 1 
HETATM 14 O O2A HEM . . . L 3 -9.916 -9.393 -18.41 1 136.45 ? O2A HEM 201 D 1 
HETATM 15 C C1B HEM . . . L 3 -2.469 -7.806 -23.453 1 85.44 ? C1B HEM 201 D 1 
HETATM 16 C C2B HEM . . . L 3 -1.877 -7.013 -24.505 1 82.84 ? C2B HEM 201 D 1 
HETATM 17 C C3B HEM . . . L 3 -0.569 -6.941 -24.286 1 78.89 ? C3B HEM 201 D 1 
HETATM 18 C C4B HEM . . . L 3 -0.268 -7.677 -23.066 1 78.58 ? C4B HEM 201 D 1 
HETATM 19 C CMB HEM . . . L 3 -2.62 -6.359 -25.69 1 87.64 ? CMB HEM 201 D 1 
HETATM 20 C CAB HEM . . . L 3 0.38 -6.161 -25.216 1 71.9 ? CAB HEM 201 D 1 
HETATM 21 C CBB HEM . . . L 3 1.675 -6.077 -24.927 1 77.22 ? CBB HEM 201 D 1 
HETATM 22 C C1C HEM . . . L 3 1.225 -8.634 -21.372 1 85.23 ? C1C HEM 201 D 1 
HETATM 23 C C2C HEM . . . L 3 2.524 -9.094 -20.899 1 79.81 ? C2C HEM 201 D 1 
HETATM 24 C C3C HEM . . . L 3 2.317 -9.818 -19.786 1 83.23 ? C3C HEM 201 D 1 
HETATM 25 C C4C HEM . . . L 3 0.897 -9.858 -19.528 1 90.51 ? C4C HEM 201 D 1 
HETATM 26 C CMC HEM . . . L 3 3.898 -8.782 -21.551 1 65.6 ? CMC HEM 201 D 1 
HETATM 27 C CAC HEM . . . L 3 3.347 -10.539 -18.885 1 79.36 ? CAC HEM 201 D 1 
HETATM 28 C CBC HEM . . . L 3 4.644 -10.606 -19.198 1 79.69 ? CBC HEM 201 D 1 
HETATM 29 C C1D HEM . . . L 3 -1.022 -10.794 -18.337 1 98.19 ? C1D HEM 201 D 1 
HETATM 30 C C2D HEM . . . L 3 -1.622 -11.665 -17.351 1 98.21 ? C2D HEM 201 D 1 
HETATM 31 C C3D HEM . . . L 3 -2.94 -11.652 -17.546 1 100.68 ? C3D HEM 201 D 1 
HETATM 32 C C4D HEM . . . L 3 -3.22 -10.789 -18.679 1 97.63 ? C4D HEM 201 D 1 
HETATM 33 C CMD HEM . . . L 3 -0.874 -12.452 -16.249 1 97.58 ? CMD HEM 201 D 1 
HETATM 34 C CAD HEM . . . L 3 -3.959 -12.468 -16.718 1 108.35 ? CAD HEM 201 D 1 
HETATM 35 C CBD HEM . . . L 3 -3.455 -13.91 -16.726 1 111.64 ? CBD HEM 201 D 1 
HETATM 36 C CGD HEM . . . L 3 -4.306 -14.815 -15.886 1 119.67 ? CGD HEM 201 D 1 
HETATM 37 O O1D HEM . . . L 3 -5.492 -15.019 -16.261 1 124.14 ? O1D HEM 201 D 1 
HETATM 38 O O2D HEM . . . L 3 -3.772 -15.329 -14.865 1 123.34 ? O2D HEM 201 D 1 
HETATM 39 N NA HEM . . . L 3 -3.731 -9.247 -21.198 1 101.75 ? NA HEM 201 D 1 
HETATM 40 N NB HEM . . . L 3 -1.463 -8.199 -22.592 1 86.91 ? NB HEM 201 D 1 
HETATM 41 N NC HEM . . . L 3 0.257 -9.124 -20.508 1 92.92 ? NC HEM 201 D 1 
HETATM 42 N ND HEM . . . L 3 -2.025 -10.282 -19.132 1 98.36 ? ND HEM 201 D 1 
HETATM 43 FE FE HEM . . . L 3 -1.728 -9.3 -20.867 1 87.44 ? FE HEM 201 D 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    156 
_model_server_stats.query_time_ms           360 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           43 
#