data_3W9C
#
_model_server_result.job_id            Y1lMb0l8dxGJiSyVfbK3VQ 
_model_server_result.datetime_utc      '2024-11-26 02:17:04' 
_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          3w9c 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
#
_entry.id    3W9C 
#
_exptl.entry_id    3W9C 
_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    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          95.57 
_cell.angle_gamma         90 
_cell.entry_id            3W9C 
_cell.length_a            101.717 
_cell.length_b            77.991 
_cell.length_c            60.016 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3W9C 
_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    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_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 
_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                      3 
_struct_asym.id                             C 
_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 359 A CYS 357 1_555 C FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? 
metalc ? metalc2 B SG CYS 41 B CYS 39 1_555 H FE1 FES . B FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.218 ? 
metalc ? metalc3 B SG CYS 47 B CYS 45 1_555 H FE1 FES . B FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? 
metalc ? metalc4 B SG CYS 50 B CYS 48 1_555 H FE2 FES . B FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? 
metalc ? metalc5 B SG CYS 88 B CYS 86 1_555 H FE2 FES . B FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? 
#
_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 146 n n 
CHA C4D HEM doub 147 n n 
CHA HHA HEM sing 148 n n 
CHB C4A HEM sing 149 n n 
CHB C1B HEM doub 150 n n 
CHB HHB HEM sing 151 n n 
CHC C4B HEM sing 152 n n 
CHC C1C HEM doub 153 n n 
CHC HHC HEM sing 154 n n 
CHD C4C HEM doub 155 n n 
CHD C1D HEM sing 156 n n 
CHD HHD HEM sing 157 n n 
C1A C2A HEM doub 158 n y 
C1A NA HEM sing 159 n y 
C2A C3A HEM sing 160 n y 
C2A CAA HEM sing 161 n n 
C3A C4A HEM doub 162 n y 
C3A CMA HEM sing 163 n n 
C4A NA HEM sing 164 n y 
CMA HMA HEM sing 165 n n 
CMA HMAA HEM sing 166 n n 
CMA HMAB HEM sing 167 n n 
CAA CBA HEM sing 168 n n 
CAA HAA HEM sing 169 n n 
CAA HAAA HEM sing 170 n n 
CBA CGA HEM sing 171 n n 
CBA HBA HEM sing 172 n n 
CBA HBAA HEM sing 173 n n 
CGA O1A HEM doub 174 n n 
CGA O2A HEM sing 175 n n 
C1B C2B HEM sing 176 n n 
C1B NB HEM sing 177 n n 
C2B C3B HEM doub 178 n n 
C2B CMB HEM sing 179 n n 
C3B C4B HEM sing 180 n n 
C3B CAB HEM sing 181 n n 
C4B NB HEM doub 182 n n 
CMB HMB HEM sing 183 n n 
CMB HMBA HEM sing 184 n n 
CMB HMBB HEM sing 185 n n 
CAB CBB HEM doub 186 n n 
CAB HAB HEM sing 187 n n 
CBB HBB HEM sing 188 n n 
CBB HBBA HEM sing 189 n n 
C1C C2C HEM sing 190 n y 
C1C NC HEM sing 191 n y 
C2C C3C HEM doub 192 n y 
C2C CMC HEM sing 193 n n 
C3C C4C HEM sing 194 n y 
C3C CAC HEM sing 195 n n 
C4C NC HEM sing 196 n y 
CMC HMC HEM sing 197 n n 
CMC HMCA HEM sing 198 n n 
CMC HMCB HEM sing 199 n n 
CAC CBC HEM doub 200 n n 
CAC HAC HEM sing 201 n n 
CBC HBC HEM sing 202 n n 
CBC HBCA HEM sing 203 n n 
C1D C2D HEM sing 204 n n 
C1D ND HEM doub 205 n n 
C2D C3D HEM doub 206 n n 
C2D CMD HEM sing 207 n n 
C3D C4D HEM sing 208 n n 
C3D CAD HEM sing 209 n n 
C4D ND HEM sing 210 n n 
CMD HMD HEM sing 211 n n 
CMD HMDA HEM sing 212 n n 
CMD HMDB HEM sing 213 n n 
CAD CBD HEM sing 214 n n 
CAD HAD HEM sing 215 n n 
CAD HADA HEM sing 216 n n 
CBD CGD HEM sing 217 n n 
CBD HBD HEM sing 218 n n 
CBD HBDA HEM sing 219 n n 
CGD O1D HEM doub 220 n n 
CGD O2D HEM sing 221 n n 
O2A H2A HEM sing 222 n n 
O2D H2D HEM sing 223 n n 
FE NA HEM sing 224 n n 
FE NB HEM sing 225 n n 
FE NC HEM sing 226 n n 
FE ND HEM sing 227 n n 
#
_atom_sites.entry_id                     3W9C 
_atom_sites.fract_transf_matrix[1][1]    0.009831 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000959 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012822 
_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]    0.016741 
_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
C 3 HEM A 1 501 415 HEM HEM . 
D 4 SO4 A 1 502 501 SO4 SO4 . 
E 4 SO4 A 1 503 503 SO4 SO4 . 
F 4 SO4 A 1 504 504 SO4 SO4 . 
G 5 GOL A 1 505 601 GOL GOL . 
H 6 FES B 1 201 109 FES FES . 
I 4 SO4 B 1 202 502 SO4 SO4 . 
J 7 HOH A 1 601 1 HOH HOH . 
J 7 HOH A 2 602 2 HOH HOH . 
J 7 HOH A 3 603 4 HOH HOH . 
J 7 HOH A 4 604 5 HOH HOH . 
J 7 HOH A 5 605 6 HOH HOH . 
J 7 HOH A 6 606 8 HOH HOH . 
J 7 HOH A 7 607 9 HOH HOH . 
J 7 HOH A 8 608 10 HOH HOH . 
J 7 HOH A 9 609 11 HOH HOH . 
J 7 HOH A 10 610 12 HOH HOH . 
J 7 HOH A 11 611 13 HOH HOH . 
J 7 HOH A 12 612 14 HOH HOH . 
J 7 HOH A 13 613 15 HOH HOH . 
J 7 HOH A 14 614 16 HOH HOH . 
J 7 HOH A 15 615 17 HOH HOH . 
J 7 HOH A 16 616 20 HOH HOH . 
J 7 HOH A 17 617 21 HOH HOH . 
J 7 HOH A 18 618 22 HOH HOH . 
J 7 HOH A 19 619 24 HOH HOH . 
J 7 HOH A 20 620 25 HOH HOH . 
J 7 HOH A 21 621 27 HOH HOH . 
J 7 HOH A 22 622 28 HOH HOH . 
J 7 HOH A 23 623 30 HOH HOH . 
J 7 HOH A 24 624 33 HOH HOH . 
J 7 HOH A 25 625 34 HOH HOH . 
J 7 HOH A 26 626 35 HOH HOH . 
K 7 HOH B 1 301 3 HOH HOH . 
K 7 HOH B 2 302 7 HOH HOH . 
K 7 HOH B 3 303 18 HOH HOH . 
K 7 HOH B 4 304 19 HOH HOH . 
K 7 HOH B 5 305 23 HOH HOH . 
K 7 HOH B 6 306 26 HOH HOH . 
K 7 HOH B 7 307 29 HOH HOH . 
K 7 HOH B 8 308 31 HOH HOH . 
K 7 HOH B 9 309 32 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 . . . C 3 18.082 -5.563 19.988 1 15.04 ? CHA HEM 501 A 1 
HETATM 2 C CHB HEM . . . C 3 17.284 -2.03 16.822 1 11.82 ? CHB HEM 501 A 1 
HETATM 3 C CHC HEM . . . C 3 14.573 0.258 20.079 1 13.28 ? CHC HEM 501 A 1 
HETATM 4 C CHD HEM . . . C 3 15.683 -3.046 23.409 1 18.22 ? CHD HEM 501 A 1 
HETATM 5 C C1A HEM . . . C 3 18.013 -4.838 18.85 1 16.34 ? C1A HEM 501 A 1 
HETATM 6 C C2A HEM . . . C 3 18.47 -5.33 17.574 1 18.43 ? C2A HEM 501 A 1 
HETATM 7 C C3A HEM . . . C 3 18.251 -4.368 16.673 1 16.38 ? C3A HEM 501 A 1 
HETATM 8 C C4A HEM . . . C 3 17.652 -3.238 17.384 1 15.17 ? C4A HEM 501 A 1 
HETATM 9 C CMA HEM . . . C 3 18.606 -4.374 15.17 1 15.53 ? CMA HEM 501 A 1 
HETATM 10 C CAA HEM . . . C 3 19.041 -6.754 17.422 1 17.52 ? CAA HEM 501 A 1 
HETATM 11 C CBA HEM . . . C 3 20.543 -6.805 17.298 1 23.3 ? CBA HEM 501 A 1 
HETATM 12 C CGA HEM . . . C 3 20.975 -8.202 16.865 1 23.94 ? CGA HEM 501 A 1 
HETATM 13 O O1A HEM . . . C 3 20.338 -8.966 16.072 1 22.87 ? O1A HEM 501 A 1 
HETATM 14 O O2A HEM . . . C 3 22.031 -8.567 17.383 1 27.36 ? O2A HEM 501 A 1 
HETATM 15 C C1B HEM . . . C 3 16.466 -1.107 17.389 1 12.81 ? C1B HEM 501 A 1 
HETATM 16 C C2B HEM . . . C 3 15.912 0.1 16.784 1 13.73 ? C2B HEM 501 A 1 
HETATM 17 C C3B HEM . . . C 3 15.168 0.739 17.704 1 13.62 ? C3B HEM 501 A 1 
HETATM 18 C C4B HEM . . . C 3 15.244 -0.052 18.916 1 14.52 ? C4B HEM 501 A 1 
HETATM 19 C CMB HEM . . . C 3 16.21 0.569 15.345 1 14.15 ? CMB HEM 501 A 1 
HETATM 20 C CAB HEM . . . C 3 14.363 2.084 17.619 1 13.12 ? CAB HEM 501 A 1 
HETATM 21 C CBB HEM . . . C 3 14.434 3.006 16.64 1 9.25 ? CBB HEM 501 A 1 
HETATM 22 C C1C HEM . . . C 3 14.589 -0.446 21.251 1 14.86 ? C1C HEM 501 A 1 
HETATM 23 C C2C HEM . . . C 3 13.847 -0.13 22.462 1 14.75 ? C2C HEM 501 A 1 
HETATM 24 C C3C HEM . . . C 3 14.176 -1.034 23.366 1 15.49 ? C3C HEM 501 A 1 
HETATM 25 C C4C HEM . . . C 3 15.127 -1.949 22.796 1 15.63 ? C4C HEM 501 A 1 
HETATM 26 C CMC HEM . . . C 3 12.837 0.997 22.683 1 8.53 ? CMC HEM 501 A 1 
HETATM 27 C CAC HEM . . . C 3 13.618 -1.108 24.778 1 18.24 ? CAC HEM 501 A 1 
HETATM 28 C CBC HEM . . . C 3 14.477 -0.869 25.757 1 22.18 ? CBC HEM 501 A 1 
HETATM 29 C C1D HEM . . . C 3 16.439 -4.015 22.783 1 18.85 ? C1D HEM 501 A 1 
HETATM 30 C C2D HEM . . . C 3 17.025 -5.141 23.469 1 21.64 ? C2D HEM 501 A 1 
HETATM 31 C C3D HEM . . . C 3 17.802 -5.917 22.403 1 20.13 ? C3D HEM 501 A 1 
HETATM 32 C C4D HEM . . . C 3 17.59 -5.187 21.193 1 18.39 ? C4D HEM 501 A 1 
HETATM 33 C CMD HEM . . . C 3 16.89 -5.433 24.973 1 19.53 ? CMD HEM 501 A 1 
HETATM 34 C CAD HEM . . . C 3 18.59 -7.216 22.535 1 24.49 ? CAD HEM 501 A 1 
HETATM 35 C CBD HEM . . . C 3 17.619 -8.242 21.96 1 29.97 ? CBD HEM 501 A 1 
HETATM 36 C CGD HEM . . . C 3 18.286 -9.569 21.747 1 33.43 ? CGD HEM 501 A 1 
HETATM 37 O O1D HEM . . . C 3 17.593 -10.602 21.997 1 33.92 ? O1D HEM 501 A 1 
HETATM 38 O O2D HEM . . . C 3 19.48 -9.603 21.316 1 35.78 ? O2D HEM 501 A 1 
HETATM 39 N NA HEM . . . C 3 17.494 -3.589 18.697 1 14.47 ? NA HEM 501 A 1 
HETATM 40 N NB HEM . . . C 3 16.05 -1.159 18.685 1 14.72 ? NB HEM 501 A 1 
HETATM 41 N NC HEM . . . C 3 15.36 -1.571 21.508 1 15.51 ? NC HEM 501 A 1 
HETATM 42 N ND HEM . . . C 3 16.804 -4.074 21.447 1 16.94 ? ND HEM 501 A 1 
HETATM 43 FE FE HEM . . . C 3 16.454 -2.645 20.061 1 18.26 ? FE HEM 501 A 1 
#
_model_server_stats.io_time_ms              63 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           258 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           43 
#