data_5DOQ
#
_model_server_result.job_id            -LfpN18vjKmTMO5-DtAdmg 
_model_server_result.datetime_utc      '2024-11-21 14:13:14' 
_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          5doq 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":503}' 
#
_entry.id    5DOQ 
#
_exptl.entry_id    5DOQ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              632.487 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'CIS-HEME D HYDROXYCHLORIN GAMMA-SPIROLACTONE' 
_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            5DOQ 
_cell.length_a            110.06 
_cell.length_b            120.86 
_cell.length_c            122.72 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5DOQ 
_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    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
_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                      5 
_struct_asym.id                             F 
_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 NE2 HIS 21 A HIS 21 1_555 E FE HEB . A HEB 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.782 ? 
metalc ? metalc2 A OE2 GLU 101 A GLU 101 1_555 E FE HEB . A HEB 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? 
metalc ? metalc3 A NE2 HIS 186 A HIS 186 1_555 D FE HEB . A HEB 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? 
metalc ? metalc4 A SD MET 325 A MET 325 1_555 D FE HEB . A HEB 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.581 ? 
metalc ? metalc5 A OE2 GLU 378 A GLU 378 1_555 F FE HDD . A HDD 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.726 ? 
#
_chem_comp.formula           'C34 H32 Fe N4 O5' 
_chem_comp.formula_weight    632.487 
_chem_comp.id                HDD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'CIS-HEME D HYDROXYCHLORIN GAMMA-SPIROLACTONE' 
_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
FE NA HDD sing 129 n n 
FE NB HDD sing 130 n n 
FE NC HDD sing 131 n n 
FE ND HDD sing 132 n n 
CHA C1A HDD sing 133 n n 
CHA C4D HDD doub 134 n n 
CHA HHA HDD sing 135 n n 
CHB C4A HDD sing 136 n n 
CHB C1B HDD doub 137 n n 
CHB HHB HDD sing 138 n n 
CHC C4B HDD doub 139 n n 
CHC C1C HDD sing 140 n n 
CHC HHC HDD sing 141 n n 
CHD C4C HDD sing 142 n n 
CHD C1D HDD doub 143 n n 
CHD HHD HDD sing 144 n n 
NA C1A HDD sing 145 n y 
NA C4A HDD sing 146 n y 
C1A C2A HDD doub 147 n y 
C2A C3A HDD sing 148 n y 
C2A CAA HDD sing 149 n n 
C3A C4A HDD doub 150 n y 
C3A CMA HDD sing 151 n n 
CMA HMA1 HDD sing 152 n n 
CMA HMA2 HDD sing 153 n n 
CMA HMA3 HDD sing 154 n n 
CAA CBA HDD sing 155 n n 
CAA HAA1 HDD sing 156 n n 
CAA HAA2 HDD sing 157 n n 
CBA CGA HDD sing 158 n n 
CBA HBA1 HDD sing 159 n n 
CBA HBA2 HDD sing 160 n n 
CGA O1A HDD doub 161 n n 
CGA O2A HDD sing 162 n n 
O2A H2A HDD sing 163 n n 
NB C1B HDD sing 164 n y 
NB C4B HDD sing 165 n y 
C1B C2B HDD sing 166 n y 
C2B C3B HDD doub 167 n y 
C2B CMB HDD sing 168 n n 
C3B C4B HDD sing 169 n y 
C3B CAB HDD sing 170 n n 
CMB HMB1 HDD sing 171 n n 
CMB HMB2 HDD sing 172 n n 
CMB HMB3 HDD sing 173 n n 
CAB CBB HDD doub 174 n n 
CAB HAB HDD sing 175 n n 
CBB HBB1 HDD sing 176 n n 
CBB HBB2 HDD sing 177 n n 
NC C1C HDD sing 178 n y 
NC C4C HDD sing 179 n y 
C1C C2C HDD doub 180 n y 
C2C C3C HDD sing 181 n y 
C2C CMC HDD sing 182 n n 
C3C C4C HDD doub 183 n y 
C3C CAC HDD sing 184 n n 
CMC HMC1 HDD sing 185 n n 
CMC HMC2 HDD sing 186 n n 
CMC HMC3 HDD sing 187 n n 
CAC CBC HDD doub 188 n n 
CAC HAC HDD sing 189 n n 
CBC HBC1 HDD sing 190 n n 
CBC HBC2 HDD sing 191 n n 
ND C1D HDD sing 192 n n 
ND C4D HDD sing 193 n n 
C1D C2D HDD sing 194 n n 
C2D C3D HDD sing 195 n n 
C2D CMD HDD sing 196 n n 
C2D OND HDD sing 197 n n 
C3D C4D HDD sing 198 n n 
C3D CAD HDD sing 199 n n 
C3D O1D HDD sing 200 n n 
CMD HMD1 HDD sing 201 n n 
CMD HMD2 HDD sing 202 n n 
CMD HMD3 HDD sing 203 n n 
CAD CBD HDD sing 204 n n 
CAD HAD1 HDD sing 205 n n 
CAD HAD2 HDD sing 206 n n 
CBD CGD HDD sing 207 n n 
CBD HBD1 HDD sing 208 n n 
CBD HBD2 HDD sing 209 n n 
CGD O1D HDD sing 210 n n 
CGD O2D HDD doub 211 n n 
OND HND HDD sing 212 n n 
#
_atom_sites.entry_id                     5DOQ 
_atom_sites.fract_transf_matrix[1][1]    0.009086 
_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]    0.008274 
_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]    0.008149 
_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
D 4 HEB A 1 501 903 HEB HEB . 
E 4 HEB A 1 502 904 HEB HEB . 
F 5 HDD A 1 503 1 HDD HDD . 
#
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 FE FE HDD . . . F 5 -12.986 1.501 59.516 1 113.41 ? FE HDD 503 A 1 
HETATM 2 C CHA HDD . . . F 5 -13.709 -0.286 56.893 1 113.41 ? CHA HDD 503 A 1 
HETATM 3 C CHB HDD . . . F 5 -10.74 -0.868 60.594 1 113.41 ? CHB HDD 503 A 1 
HETATM 4 C CHC HDD . . . F 5 -12.969 2.999 62.66 1 113.41 ? CHC HDD 503 A 1 
HETATM 5 C CHD HDD . . . F 5 -15.237 3.731 58.483 1 113.41 ? CHD HDD 503 A 1 
HETATM 6 N NA HDD . . . F 5 -12.283 -0.302 58.83 1 113.41 ? NA HDD 503 A 1 
HETATM 7 C C1A HDD . . . F 5 -12.709 -0.892 57.75 1 113.41 ? C1A HDD 503 A 1 
HETATM 8 C C2A HDD . . . F 5 -12.125 -2.183 57.429 1 113.41 ? C2A HDD 503 A 1 
HETATM 9 C C3A HDD . . . F 5 -11.217 -2.391 58.54 1 113.41 ? C3A HDD 503 A 1 
HETATM 10 C C4A HDD . . . F 5 -11.428 -1.16 59.339 1 113.41 ? C4A HDD 503 A 1 
HETATM 11 C CMA HDD . . . F 5 -10.304 -3.533 58.83 1 113.41 ? CMA HDD 503 A 1 
HETATM 12 C CAA HDD . . . F 5 -12.494 -2.959 56.217 1 113.41 ? CAA HDD 503 A 1 
HETATM 13 C CBA HDD . . . F 5 -11.762 -4.261 56.012 1 113.41 ? CBA HDD 503 A 1 
HETATM 14 C CGA HDD . . . F 5 -12.363 -4.84 54.762 1 113.41 ? CGA HDD 503 A 1 
HETATM 15 O O1A HDD . . . F 5 -11.69 -4.961 53.727 1 113.41 ? O1A HDD 503 A 1 
HETATM 16 O O2A HDD . . . F 5 -13.556 -5.166 54.804 1 113.41 ? O2A HDD 503 A 1 
HETATM 17 N NB HDD . . . F 5 -12.053 1.125 61.324 1 113.41 ? NB HDD 503 A 1 
HETATM 18 C C1B HDD . . . F 5 -11.172 0.146 61.561 1 113.41 ? C1B HDD 503 A 1 
HETATM 19 C C2B HDD . . . F 5 -10.64 0.114 62.916 1 113.41 ? C2B HDD 503 A 1 
HETATM 20 C C3B HDD . . . F 5 -11.296 1.262 63.536 1 113.41 ? C3B HDD 503 A 1 
HETATM 21 C C4B HDD . . . F 5 -12.13 1.816 62.472 1 113.41 ? C4B HDD 503 A 1 
HETATM 22 C CMB HDD . . . F 5 -9.669 -0.878 63.452 1 113.41 ? CMB HDD 503 A 1 
HETATM 23 C CAB HDD . . . F 5 -11.133 1.71 64.929 1 113.41 ? CAB HDD 503 A 1 
HETATM 24 C CBB HDD . . . F 5 -12.132 1.922 65.752 1 113.41 ? CBB HDD 503 A 1 
HETATM 25 N NC HDD . . . F 5 -13.902 3.115 60.428 1 113.41 ? NC HDD 503 A 1 
HETATM 26 C C1C HDD . . . F 5 -13.843 3.59 61.662 1 113.41 ? C1C HDD 503 A 1 
HETATM 27 C C2C HDD . . . F 5 -14.713 4.763 61.95 1 113.41 ? C2C HDD 503 A 1 
HETATM 28 C C3C HDD . . . F 5 -15.356 4.937 60.674 1 113.41 ? C3C HDD 503 A 1 
HETATM 29 C C4C HDD . . . F 5 -14.805 3.88 59.856 1 113.41 ? C4C HDD 503 A 1 
HETATM 30 C CMC HDD . . . F 5 -14.907 5.596 63.18 1 113.41 ? CMC HDD 503 A 1 
HETATM 31 C CAC HDD . . . F 5 -16.358 5.924 60.218 1 113.41 ? CAC HDD 503 A 1 
HETATM 32 C CBC HDD . . . F 5 -16.181 7.21 60.368 1 113.41 ? CBC HDD 503 A 1 
HETATM 33 N ND HDD . . . F 5 -14.052 1.75 58.02 1 113.41 ? ND HDD 503 A 1 
HETATM 34 C C1D HDD . . . F 5 -14.799 2.801 57.68 1 113.41 ? C1D HDD 503 A 1 
HETATM 35 C C2D HDD . . . F 5 -14.45 3.247 56.296 1 113.41 ? C2D HDD 503 A 1 
HETATM 36 C C3D HDD . . . F 5 -14.004 1.887 55.78 1 113.41 ? C3D HDD 503 A 1 
HETATM 37 C C4D HDD . . . F 5 -14.119 0.973 56.966 1 113.41 ? C4D HDD 503 A 1 
HETATM 38 C CMD HDD . . . F 5 -13.449 4.373 56.421 1 113.41 ? CMD HDD 503 A 1 
HETATM 39 C CAD HDD . . . F 5 -12.616 1.801 55.197 1 113.41 ? CAD HDD 503 A 1 
HETATM 40 C CBD HDD . . . F 5 -12.582 0.545 54.352 1 113.41 ? CBD HDD 503 A 1 
HETATM 41 C CGD HDD . . . F 5 -14.032 0.449 53.999 1 113.41 ? CGD HDD 503 A 1 
HETATM 42 O O1D HDD . . . F 5 -14.833 1.314 54.813 1 113.41 ? O1D HDD 503 A 1 
HETATM 43 O O2D HDD . . . F 5 -14.488 -0.261 53.135 1 113.41 ? O2D HDD 503 A 1 
HETATM 44 O OND HDD . . . F 5 -15.499 3.887 55.584 1 113.41 ? OND HDD 503 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           274 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           44 
#