data_1BGY
#
_model_server_result.job_id            ItVIaFxt744FAZUyxF54mw 
_model_server_result.datetime_utc      '2024-11-21 22:35:39' 
_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          1bgy 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"X","auth_seq_id":381}' 
#
_entry.id    1BGY 
#
_exptl.entry_id    1BGY 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              616.487 
_entity.id                          12 
_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         120 
_cell.entry_id            1BGY 
_cell.length_a            130.11 
_cell.length_b            130.11 
_cell.length_c            720.94 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1BGY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        170 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 65' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    22-meric 
_pdbx_struct_assembly.oligomeric_count      22 
_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,R,S,T,U,V,W,X,Y,Z,AA,BA,CA 
_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
? 12 W N N 
? 12 X N N 
? 12 Z N N 
? 12 AA 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
disulf ? disulf1 H SG CYS 24 H CYS 24 1_555 H SG CYS 68 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
disulf ? disulf2 H SG CYS 40 H CYS 40 1_555 H SG CYS 54 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? 
disulf ? disulf3 P SG CYS 144 Q CYS 144 1_555 P SG CYS 160 Q CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf4 S SG CYS 24 T CYS 24 1_555 S SG CYS 68 T CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf5 S SG CYS 40 T CYS 40 1_555 S SG CYS 54 T CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? 
covale ? covale1 D SG CYS 37 D CYS 37 1_555 Y CAB HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.843 ? 
covale ? covale2 D SG CYS 40 D CYS 40 1_555 Y CAC HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.838 ? 
covale ? covale3 O SG CYS 37 P CYS 37 1_555 BA CAB HEC . P HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.867 ? 
covale ? covale4 O SG CYS 40 P CYS 40 1_555 BA CAC HEC . P HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.856 ? 
metalc ? metalc1 C NE2 HIS 83 C HIS 83 1_555 W FE HEM . C HEM 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
metalc ? metalc2 C NE2 HIS 97 C HIS 97 1_555 X FE HEM . C HEM 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
metalc ? metalc3 C NE2 HIS 182 C HIS 182 1_555 W FE HEM . C HEM 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? 
metalc ? metalc4 C NE2 HIS 196 C HIS 196 1_555 X FE HEM . C HEM 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? 
metalc ? metalc5 D NE2 HIS 41 D HIS 41 1_555 Y FE HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.919 ? 
metalc ? metalc6 D SD MET 160 D MET 160 1_555 Y FE HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? 
metalc ? metalc7 N NE2 HIS 83 O HIS 83 1_555 Z FE HEM . O HEM 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? 
metalc ? metalc8 N NE2 HIS 97 O HIS 97 1_555 AA FE HEM . O HEM 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? 
metalc ? metalc9 N NE2 HIS 182 O HIS 182 1_555 Z FE HEM . O HEM 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
metalc ? metalc10 N NE2 HIS 196 O HIS 196 1_555 AA FE HEM . O HEM 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? 
metalc ? metalc11 O NE2 HIS 41 P HIS 41 1_555 BA FE HEC . P HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.961 ? 
metalc ? metalc12 O SD MET 160 P MET 160 1_555 BA FE HEC . P HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? 
metalc ? metalc13 P SG CYS 139 Q CYS 139 1_555 CA FE1 FES . Q FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? 
metalc ? metalc14 P ND1 HIS 141 Q HIS 141 1_555 CA FE2 FES . Q FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? 
metalc ? metalc15 P SG CYS 158 Q CYS 158 1_555 CA FE1 FES . Q FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? 
metalc ? metalc16 P ND1 HIS 161 Q HIS 161 1_555 CA FE2 FES . Q FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.139 ? 
#
_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 217 n n 
CHA C4D HEM doub 218 n n 
CHA HHA HEM sing 219 n n 
CHB C4A HEM sing 220 n n 
CHB C1B HEM doub 221 n n 
CHB HHB HEM sing 222 n n 
CHC C4B HEM sing 223 n n 
CHC C1C HEM doub 224 n n 
CHC HHC HEM sing 225 n n 
CHD C4C HEM doub 226 n n 
CHD C1D HEM sing 227 n n 
CHD HHD HEM sing 228 n n 
C1A C2A HEM doub 229 n y 
C1A NA HEM sing 230 n y 
C2A C3A HEM sing 231 n y 
C2A CAA HEM sing 232 n n 
C3A C4A HEM doub 233 n y 
C3A CMA HEM sing 234 n n 
C4A NA HEM sing 235 n y 
CMA HMA HEM sing 236 n n 
CMA HMAA HEM sing 237 n n 
CMA HMAB HEM sing 238 n n 
CAA CBA HEM sing 239 n n 
CAA HAA HEM sing 240 n n 
CAA HAAA HEM sing 241 n n 
CBA CGA HEM sing 242 n n 
CBA HBA HEM sing 243 n n 
CBA HBAA HEM sing 244 n n 
CGA O1A HEM doub 245 n n 
CGA O2A HEM sing 246 n n 
C1B C2B HEM sing 247 n n 
C1B NB HEM sing 248 n n 
C2B C3B HEM doub 249 n n 
C2B CMB HEM sing 250 n n 
C3B C4B HEM sing 251 n n 
C3B CAB HEM sing 252 n n 
C4B NB HEM doub 253 n n 
CMB HMB HEM sing 254 n n 
CMB HMBA HEM sing 255 n n 
CMB HMBB HEM sing 256 n n 
CAB CBB HEM doub 257 n n 
CAB HAB HEM sing 258 n n 
CBB HBB HEM sing 259 n n 
CBB HBBA HEM sing 260 n n 
C1C C2C HEM sing 261 n y 
C1C NC HEM sing 262 n y 
C2C C3C HEM doub 263 n y 
C2C CMC HEM sing 264 n n 
C3C C4C HEM sing 265 n y 
C3C CAC HEM sing 266 n n 
C4C NC HEM sing 267 n y 
CMC HMC HEM sing 268 n n 
CMC HMCA HEM sing 269 n n 
CMC HMCB HEM sing 270 n n 
CAC CBC HEM doub 271 n n 
CAC HAC HEM sing 272 n n 
CBC HBC HEM sing 273 n n 
CBC HBCA HEM sing 274 n n 
C1D C2D HEM sing 275 n n 
C1D ND HEM doub 276 n n 
C2D C3D HEM doub 277 n n 
C2D CMD HEM sing 278 n n 
C3D C4D HEM sing 279 n n 
C3D CAD HEM sing 280 n n 
C4D ND HEM sing 281 n n 
CMD HMD HEM sing 282 n n 
CMD HMDA HEM sing 283 n n 
CMD HMDB HEM sing 284 n n 
CAD CBD HEM sing 285 n n 
CAD HAD HEM sing 286 n n 
CAD HADA HEM sing 287 n n 
CBD CGD HEM sing 288 n n 
CBD HBD HEM sing 289 n n 
CBD HBDA HEM sing 290 n n 
CGD O1D HEM doub 291 n n 
CGD O2D HEM sing 292 n n 
O2A H2A HEM sing 293 n n 
O2D H2D HEM sing 294 n n 
FE NA HEM sing 295 n n 
FE NB HEM sing 296 n n 
FE NC HEM sing 297 n n 
FE ND HEM sing 298 n n 
#
_atom_sites.entry_id                     1BGY 
_atom_sites.fract_transf_matrix[1][1]    0.007686 
_atom_sites.fract_transf_matrix[1][2]    0.004437 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008875 
_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]    0.001387 
_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
W 12 HEM C 1 380 1 HEM HEM . 
X 12 HEM C 1 381 2 HEM HEM . 
Y 13 HEC D 1 242 3 HEC HEC . 
Z 12 HEM O 1 380 1 HEM HEM . 
AA 12 HEM O 1 381 2 HEM HEM . 
BA 13 HEC P 1 242 3 HEC HEC . 
CA 14 FES Q 1 197 4 FES FES . 
#
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 . . . X 12 10.456 98.264 21.688 1 7.22 ? CHA HEM 381 C 1 
HETATM 2 C CHB HEM . . . X 12 15.031 99.386 22.534 1 2.16 ? CHB HEM 381 C 1 
HETATM 3 C CHC HEM . . . X 12 15.131 96.419 26.233 1 5.68 ? CHC HEM 381 C 1 
HETATM 4 C CHD HEM . . . X 12 10.957 94.61 24.839 1 5.79 ? CHD HEM 381 C 1 
HETATM 5 C C1A HEM . . . X 12 11.672 98.917 21.636 1 6.65 ? C1A HEM 381 C 1 
HETATM 6 C C2A HEM . . . X 12 11.975 100.126 20.897 1 6.33 ? C2A HEM 381 C 1 
HETATM 7 C C3A HEM . . . X 12 13.248 100.452 21.12 1 5.74 ? C3A HEM 381 C 1 
HETATM 8 C C4A HEM . . . X 12 13.832 99.436 21.983 1 2.16 ? C4A HEM 381 C 1 
HETATM 9 C CMA HEM . . . X 12 14.109 101.609 20.601 1 4.26 ? CMA HEM 381 C 1 
HETATM 10 C CAA HEM . . . X 12 10.869 100.837 20.09 1 5.21 ? CAA HEM 381 C 1 
HETATM 11 C CBA HEM . . . X 12 10.026 101.85 20.878 1 9.28 ? CBA HEM 381 C 1 
HETATM 12 C CGA HEM . . . X 12 9.183 101.492 22.05 1 7.04 ? CGA HEM 381 C 1 
HETATM 13 O O1A HEM . . . X 12 9.445 101.964 23.19 1 12.08 ? O1A HEM 381 C 1 
HETATM 14 O O2A HEM . . . X 12 8.201 100.731 21.987 1 2.22 ? O2A HEM 381 C 1 
HETATM 15 C C1B HEM . . . X 12 15.542 98.693 23.569 1 4.75 ? C1B HEM 381 C 1 
HETATM 16 C C2B HEM . . . X 12 16.866 98.742 24.129 1 2.16 ? C2B HEM 381 C 1 
HETATM 17 C C3B HEM . . . X 12 16.885 97.919 25.188 1 5.88 ? C3B HEM 381 C 1 
HETATM 18 C C4B HEM . . . X 12 15.581 97.3 25.274 1 5.51 ? C4B HEM 381 C 1 
HETATM 19 C CMB HEM . . . X 12 17.983 99.676 23.622 1 2.16 ? CMB HEM 381 C 1 
HETATM 20 C CAB HEM . . . X 12 17.987 97.57 26.186 1 6.07 ? CAB HEM 381 C 1 
HETATM 21 C CBB HEM . . . X 12 19.181 97.11 25.842 1 8.66 ? CBB HEM 381 C 1 
HETATM 22 C C1C HEM . . . X 12 13.975 95.666 26.249 1 6.15 ? C1C HEM 381 C 1 
HETATM 23 C C2C HEM . . . X 12 13.636 94.591 27.222 1 2.16 ? C2C HEM 381 C 1 
HETATM 24 C C3C HEM . . . X 12 12.507 94.036 26.71 1 2.16 ? C3C HEM 381 C 1 
HETATM 25 C C4C HEM . . . X 12 12.087 94.852 25.58 1 6.01 ? C4C HEM 381 C 1 
HETATM 26 C CMC HEM . . . X 12 14.515 94.213 28.398 1 7.42 ? CMC HEM 381 C 1 
HETATM 27 C CAC HEM . . . X 12 11.604 92.987 27.311 1 4.81 ? CAC HEM 381 C 1 
HETATM 28 C CBC HEM . . . X 12 12.044 91.941 27.982 1 2.8 ? CBC HEM 381 C 1 
HETATM 29 C C1D HEM . . . X 12 10.449 95.453 23.891 1 5.93 ? C1D HEM 381 C 1 
HETATM 30 C C2D HEM . . . X 12 9.172 95.281 23.263 1 2.16 ? C2D HEM 381 C 1 
HETATM 31 C C3D HEM . . . X 12 8.988 96.305 22.39 1 6.28 ? C3D HEM 381 C 1 
HETATM 32 C C4D HEM . . . X 12 10.188 97.12 22.417 1 6.05 ? C4D HEM 381 C 1 
HETATM 33 C CMD HEM . . . X 12 8.148 94.167 23.542 1 6.78 ? CMD HEM 381 C 1 
HETATM 34 C CAD HEM . . . X 12 7.774 96.606 21.467 1 2.16 ? CAD HEM 381 C 1 
HETATM 35 C CBD HEM . . . X 12 6.528 97.27 22.047 1 2.16 ? CBD HEM 381 C 1 
HETATM 36 C CGD HEM . . . X 12 5.482 97.78 21.172 1 4.71 ? CGD HEM 381 C 1 
HETATM 37 O O1D HEM . . . X 12 5.677 98.855 20.596 1 2.16 ? O1D HEM 381 C 1 
HETATM 38 O O2D HEM . . . X 12 4.441 97.088 21.05 1 2.52 ? O2D HEM 381 C 1 
HETATM 39 N NA HEM . . . X 12 12.822 98.533 22.306 1 4.53 ? NA HEM 381 C 1 
HETATM 40 N NB HEM . . . X 12 14.763 97.784 24.272 1 6.68 ? NB HEM 381 C 1 
HETATM 41 N NC HEM . . . X 12 12.941 95.884 25.306 1 2.16 ? NC HEM 381 C 1 
HETATM 42 N ND HEM . . . X 12 11.032 96.586 23.361 1 2.16 ? ND HEM 381 C 1 
HETATM 43 FE FE HEM . . . X 12 12.874 97.258 23.824 1 2.58 ? FE HEM 381 C 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    35 
_model_server_stats.query_time_ms           397 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           43 
#