data_4NY4
#
_model_server_result.job_id            kKAlENNFqDyWMYVH5QLwsg 
_model_server_result.datetime_utc      '2024-12-23 05:39:55' 
_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          4ny4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":601}' 
#
_entry.id    4NY4 
#
_exptl.entry_id    4NY4 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            4NY4 
_cell.length_a            78.548 
_cell.length_b            101.692 
_cell.length_c            132.422 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4NY4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 2 2' 
#
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 
PISA tetrameric 4 software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C 1 1 
A,B,C 2 1,2,3,4 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_455 -x-1,-y,z -1 0 0 0 -1 0 0 0 1 -78.548 0 0 
3 'crystal symmetry operation' 3_455 -x-1,y,-z -1 0 0 0 1 0 0 0 -1 -78.548 0 0 
4 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 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 SG CYS 419 A CYS 442 1_555 B FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? 
metalc ? metalc2 B FE HEM . A HEM 601 1_555 C N32 2QH . A 2QH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.581 ? 
#
_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 189 n n 
CHA C4D HEM doub 190 n n 
CHA HHA HEM sing 191 n n 
CHB C4A HEM sing 192 n n 
CHB C1B HEM doub 193 n n 
CHB HHB HEM sing 194 n n 
CHC C4B HEM sing 195 n n 
CHC C1C HEM doub 196 n n 
CHC HHC HEM sing 197 n n 
CHD C4C HEM doub 198 n n 
CHD C1D HEM sing 199 n n 
CHD HHD HEM sing 200 n n 
C1A C2A HEM doub 201 n y 
C1A NA HEM sing 202 n y 
C2A C3A HEM sing 203 n y 
C2A CAA HEM sing 204 n n 
C3A C4A HEM doub 205 n y 
C3A CMA HEM sing 206 n n 
C4A NA HEM sing 207 n y 
CMA HMA HEM sing 208 n n 
CMA HMAA HEM sing 209 n n 
CMA HMAB HEM sing 210 n n 
CAA CBA HEM sing 211 n n 
CAA HAA HEM sing 212 n n 
CAA HAAA HEM sing 213 n n 
CBA CGA HEM sing 214 n n 
CBA HBA HEM sing 215 n n 
CBA HBAA HEM sing 216 n n 
CGA O1A HEM doub 217 n n 
CGA O2A HEM sing 218 n n 
C1B C2B HEM sing 219 n n 
C1B NB HEM sing 220 n n 
C2B C3B HEM doub 221 n n 
C2B CMB HEM sing 222 n n 
C3B C4B HEM sing 223 n n 
C3B CAB HEM sing 224 n n 
C4B NB HEM doub 225 n n 
CMB HMB HEM sing 226 n n 
CMB HMBA HEM sing 227 n n 
CMB HMBB HEM sing 228 n n 
CAB CBB HEM doub 229 n n 
CAB HAB HEM sing 230 n n 
CBB HBB HEM sing 231 n n 
CBB HBBA HEM sing 232 n n 
C1C C2C HEM sing 233 n y 
C1C NC HEM sing 234 n y 
C2C C3C HEM doub 235 n y 
C2C CMC HEM sing 236 n n 
C3C C4C HEM sing 237 n y 
C3C CAC HEM sing 238 n n 
C4C NC HEM sing 239 n y 
CMC HMC HEM sing 240 n n 
CMC HMCA HEM sing 241 n n 
CMC HMCB HEM sing 242 n n 
CAC CBC HEM doub 243 n n 
CAC HAC HEM sing 244 n n 
CBC HBC HEM sing 245 n n 
CBC HBCA HEM sing 246 n n 
C1D C2D HEM sing 247 n n 
C1D ND HEM doub 248 n n 
C2D C3D HEM doub 249 n n 
C2D CMD HEM sing 250 n n 
C3D C4D HEM sing 251 n n 
C3D CAD HEM sing 252 n n 
C4D ND HEM sing 253 n n 
CMD HMD HEM sing 254 n n 
CMD HMDA HEM sing 255 n n 
CMD HMDB HEM sing 256 n n 
CAD CBD HEM sing 257 n n 
CAD HAD HEM sing 258 n n 
CAD HADA HEM sing 259 n n 
CBD CGD HEM sing 260 n n 
CBD HBD HEM sing 261 n n 
CBD HBDA HEM sing 262 n n 
CGD O1D HEM doub 263 n n 
CGD O2D HEM sing 264 n n 
O2A H2A HEM sing 265 n n 
O2D H2D HEM sing 266 n n 
FE NA HEM sing 267 n n 
FE NB HEM sing 268 n n 
FE NC HEM sing 269 n n 
FE ND HEM sing 270 n n 
#
_atom_sites.entry_id                     4NY4 
_atom_sites.fract_transf_matrix[1][1]    0.012731 
_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]    0.009834 
_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]    0.007552 
_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 1 601 500 HEM HEM . 
C 3 2QH A 1 602 1 2QH 2QH . 
#
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 -15.483 -20.206 -10.663 1 85.98 ? CHA HEM 601 A 1 
HETATM 2 C CHB HEM . . . B 2 -16.418 -22.923 -14.455 1 83.86 ? CHB HEM 601 A 1 
HETATM 3 C CHC HEM . . . B 2 -16.895 -26.722 -11.644 1 83.99 ? CHC HEM 601 A 1 
HETATM 4 C CHD HEM . . . B 2 -15.743 -24.048 -7.869 1 86.78 ? CHD HEM 601 A 1 
HETATM 5 C C1A HEM . . . B 2 -15.693 -20.635 -11.945 1 84.87 ? C1A HEM 601 A 1 
HETATM 6 C C2A HEM . . . B 2 -15.672 -19.793 -13.077 1 85.41 ? C2A HEM 601 A 1 
HETATM 7 C C3A HEM . . . B 2 -15.89 -20.566 -14.147 1 84.84 ? C3A HEM 601 A 1 
HETATM 8 C C4A HEM . . . B 2 -16.082 -21.87 -13.663 1 83.87 ? C4A HEM 601 A 1 
HETATM 9 C CMA HEM . . . B 2 -15.977 -20.105 -15.576 1 86.34 ? CMA HEM 601 A 1 
HETATM 10 C CAA HEM . . . B 2 -15.477 -18.301 -13.079 1 87.6 ? CAA HEM 601 A 1 
HETATM 11 C CBA HEM . . . B 2 -14.006 -17.923 -13.01 1 90.13 ? CBA HEM 601 A 1 
HETATM 12 C CGA HEM . . . B 2 -13.882 -16.481 -13.415 1 92.35 ? CGA HEM 601 A 1 
HETATM 13 O O1A HEM . . . B 2 -13.044 -16.167 -14.225 1 94.65 ? O1A HEM 601 A 1 
HETATM 14 O O2A HEM . . . B 2 -14.692 -15.541 -12.881 1 93.36 ? O2A HEM 601 A 1 
HETATM 15 C C1B HEM . . . B 2 -16.628 -24.212 -13.988 1 83.23 ? C1B HEM 601 A 1 
HETATM 16 C C2B HEM . . . B 2 -16.97 -25.28 -14.878 1 83.14 ? C2B HEM 601 A 1 
HETATM 17 C C3B HEM . . . B 2 -17.157 -26.367 -14.101 1 83.38 ? C3B HEM 601 A 1 
HETATM 18 C C4B HEM . . . B 2 -16.869 -25.887 -12.72 1 83.15 ? C4B HEM 601 A 1 
HETATM 19 C CMB HEM . . . B 2 -17.098 -25.151 -16.372 1 84.79 ? CMB HEM 601 A 1 
HETATM 20 C CAB HEM . . . B 2 -17.506 -27.77 -14.445 1 84.6 ? CAB HEM 601 A 1 
HETATM 21 C CBB HEM . . . B 2 -17.915 -28.185 -15.639 1 86.99 ? CBB HEM 601 A 1 
HETATM 22 C C1C HEM . . . B 2 -16.602 -26.323 -10.376 1 83.9 ? C1C HEM 601 A 1 
HETATM 23 C C2C HEM . . . B 2 -16.511 -27.218 -9.29 1 85.34 ? C2C HEM 601 A 1 
HETATM 24 C C3C HEM . . . B 2 -16.15 -26.47 -8.194 1 86.13 ? C3C HEM 601 A 1 
HETATM 25 C C4C HEM . . . B 2 -16.025 -25.118 -8.664 1 85.4 ? C4C HEM 601 A 1 
HETATM 26 C CMC HEM . . . B 2 -16.79 -28.699 -9.361 1 87.04 ? CMC HEM 601 A 1 
HETATM 27 C CAC HEM . . . B 2 -15.962 -26.914 -6.799 1 88.21 ? CAC HEM 601 A 1 
HETATM 28 C CBC HEM . . . B 2 -15.33 -28.041 -6.508 1 91.15 ? CBC HEM 601 A 1 
HETATM 29 C C1D HEM . . . B 2 -15.636 -22.754 -8.35 1 86.15 ? C1D HEM 601 A 1 
HETATM 30 C C2D HEM . . . B 2 -15.413 -21.61 -7.446 1 87.47 ? C2D HEM 601 A 1 
HETATM 31 C C3D HEM . . . B 2 -15.293 -20.542 -8.204 1 87.36 ? C3D HEM 601 A 1 
HETATM 32 C C4D HEM . . . B 2 -15.479 -21.043 -9.579 1 85.82 ? C4D HEM 601 A 1 
HETATM 33 C CMD HEM . . . B 2 -15.324 -21.667 -5.96 1 90.28 ? CMD HEM 601 A 1 
HETATM 34 C CAD HEM . . . B 2 -15.05 -19.115 -7.754 1 89.33 ? CAD HEM 601 A 1 
HETATM 35 C CBD HEM . . . B 2 -13.535 -18.877 -7.59 1 91.88 ? CBD HEM 601 A 1 
HETATM 36 C CGD HEM . . . B 2 -13.183 -17.614 -6.823 1 94.53 ? CGD HEM 601 A 1 
HETATM 37 O O1D HEM . . . B 2 -12.149 -17.555 -6.197 1 96.78 ? O1D HEM 601 A 1 
HETATM 38 O O2D HEM . . . B 2 -14.001 -16.548 -6.832 1 95.28 ? O2D HEM 601 A 1 
HETATM 39 N NA HEM . . . B 2 -15.932 -21.949 -12.296 1 84.15 ? NA HEM 601 A 1 
HETATM 40 N NB HEM . . . B 2 -16.539 -24.587 -12.7 1 83 ? NB HEM 601 A 1 
HETATM 41 N NC HEM . . . B 2 -16.243 -25.045 -10.016 1 84.23 ? NC HEM 601 A 1 
HETATM 42 N ND HEM . . . B 2 -15.695 -22.372 -9.615 1 85.07 ? ND HEM 601 A 1 
HETATM 43 FE FE HEM . . . B 2 -15.988 -23.51 -11.161 1 83.99 ? FE HEM 601 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           219 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           43 
#