data_3ZG3
#
_model_server_result.job_id            bP2MRDl2rQVAr7y7pXX2yg 
_model_server_result.datetime_utc      '2024-12-04 17:18:01' 
_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          3zg3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":490}' 
#
_entry.id    3ZG3 
#
_exptl.entry_id    3ZG3 
_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         120 
_cell.entry_id            3ZG3 
_cell.length_a            62.849 
_cell.length_b            62.849 
_cell.length_c            222.395 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3ZG3 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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                      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 395 A CYS 422 1_555 B FE HEM . A HEM 490 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.197 ? 
metalc ? metalc2 B FE HEM . A HEM 490 1_555 C NAV UDD . A UDD 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? 
#
_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 129 n n 
CHA C4D HEM doub 130 n n 
CHA HHA HEM sing 131 n n 
CHB C4A HEM sing 132 n n 
CHB C1B HEM doub 133 n n 
CHB HHB HEM sing 134 n n 
CHC C4B HEM sing 135 n n 
CHC C1C HEM doub 136 n n 
CHC HHC HEM sing 137 n n 
CHD C4C HEM doub 138 n n 
CHD C1D HEM sing 139 n n 
CHD HHD HEM sing 140 n n 
C1A C2A HEM doub 141 n y 
C1A NA HEM sing 142 n y 
C2A C3A HEM sing 143 n y 
C2A CAA HEM sing 144 n n 
C3A C4A HEM doub 145 n y 
C3A CMA HEM sing 146 n n 
C4A NA HEM sing 147 n y 
CMA HMA HEM sing 148 n n 
CMA HMAA HEM sing 149 n n 
CMA HMAB HEM sing 150 n n 
CAA CBA HEM sing 151 n n 
CAA HAA HEM sing 152 n n 
CAA HAAA HEM sing 153 n n 
CBA CGA HEM sing 154 n n 
CBA HBA HEM sing 155 n n 
CBA HBAA HEM sing 156 n n 
CGA O1A HEM doub 157 n n 
CGA O2A HEM sing 158 n n 
C1B C2B HEM sing 159 n n 
C1B NB HEM sing 160 n n 
C2B C3B HEM doub 161 n n 
C2B CMB HEM sing 162 n n 
C3B C4B HEM sing 163 n n 
C3B CAB HEM sing 164 n n 
C4B NB HEM doub 165 n n 
CMB HMB HEM sing 166 n n 
CMB HMBA HEM sing 167 n n 
CMB HMBB HEM sing 168 n n 
CAB CBB HEM doub 169 n n 
CAB HAB HEM sing 170 n n 
CBB HBB HEM sing 171 n n 
CBB HBBA HEM sing 172 n n 
C1C C2C HEM sing 173 n y 
C1C NC HEM sing 174 n y 
C2C C3C HEM doub 175 n y 
C2C CMC HEM sing 176 n n 
C3C C4C HEM sing 177 n y 
C3C CAC HEM sing 178 n n 
C4C NC HEM sing 179 n y 
CMC HMC HEM sing 180 n n 
CMC HMCA HEM sing 181 n n 
CMC HMCB HEM sing 182 n n 
CAC CBC HEM doub 183 n n 
CAC HAC HEM sing 184 n n 
CBC HBC HEM sing 185 n n 
CBC HBCA HEM sing 186 n n 
C1D C2D HEM sing 187 n n 
C1D ND HEM doub 188 n n 
C2D C3D HEM doub 189 n n 
C2D CMD HEM sing 190 n n 
C3D C4D HEM sing 191 n n 
C3D CAD HEM sing 192 n n 
C4D ND HEM sing 193 n n 
CMD HMD HEM sing 194 n n 
CMD HMDA HEM sing 195 n n 
CMD HMDB HEM sing 196 n n 
CAD CBD HEM sing 197 n n 
CAD HAD HEM sing 198 n n 
CAD HADA HEM sing 199 n n 
CBD CGD HEM sing 200 n n 
CBD HBD HEM sing 201 n n 
CBD HBDA HEM sing 202 n n 
CGD O1D HEM doub 203 n n 
CGD O2D HEM sing 204 n n 
O2A H2A HEM sing 205 n n 
O2D H2D HEM sing 206 n n 
FE NA HEM sing 207 n n 
FE NB HEM sing 208 n n 
FE NC HEM sing 209 n n 
FE ND HEM sing 210 n n 
#
_atom_sites.entry_id                     3ZG3 
_atom_sites.fract_transf_matrix[1][1]    0.015911 
_atom_sites.fract_transf_matrix[1][2]    0.009186 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018373 
_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]    0.004497 
_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 1 490 490 HEM HEM . 
C 3 UDD A 1 491 491 UDD UDD . 
D 4 HOH A 1 2001 2001 HOH HOH . 
D 4 HOH A 2 2002 2002 HOH HOH . 
D 4 HOH A 3 2003 2003 HOH HOH . 
D 4 HOH A 4 2004 2004 HOH HOH . 
D 4 HOH A 5 2005 2005 HOH HOH . 
D 4 HOH A 6 2006 2006 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 . . . B 2 22 8.832 -23.287 1 64.29 ? CHA HEM 490 A 1 
HETATM 2 C CHB HEM . . . B 2 22.959 4.47 -21.617 1 56.87 ? CHB HEM 490 A 1 
HETATM 3 C CHC HEM . . . B 2 27.506 5.773 -21.019 1 54.67 ? CHC HEM 490 A 1 
HETATM 4 C CHD HEM . . . B 2 26.157 10.286 -21.513 1 65.61 ? CHD HEM 490 A 1 
HETATM 5 C C1A HEM . . . B 2 21.909 7.527 -22.91 1 67.41 ? C1A HEM 490 A 1 
HETATM 6 C C2A HEM . . . B 2 20.753 6.764 -23.014 1 64.32 ? C2A HEM 490 A 1 
HETATM 7 C C3A HEM . . . B 2 21.036 5.546 -22.551 1 59.67 ? C3A HEM 490 A 1 
HETATM 8 C C4A HEM . . . B 2 22.347 5.538 -22.153 1 54.44 ? C4A HEM 490 A 1 
HETATM 9 C CMA HEM . . . B 2 20.118 4.38 -22.479 1 66.03 ? CMA HEM 490 A 1 
HETATM 10 C CAA HEM . . . B 2 19.436 7.21 -23.566 1 64.74 ? CAA HEM 490 A 1 
HETATM 11 C CBA HEM . . . B 2 18.678 8.109 -22.595 1 59.48 ? CBA HEM 490 A 1 
HETATM 12 C CGA HEM . . . B 2 17.255 8.281 -23.027 1 66.45 ? CGA HEM 490 A 1 
HETATM 13 O O1A HEM . . . B 2 16.952 8.217 -24.212 1 56.99 ? O1A HEM 490 A 1 
HETATM 14 O O2A HEM . . . B 2 16.369 8.497 -22.198 1 58.19 ? O2A HEM 490 A 1 
HETATM 15 C C1B HEM . . . B 2 24.297 4.503 -21.373 1 57.81 ? C1B HEM 490 A 1 
HETATM 16 C C2B HEM . . . B 2 24.966 3.343 -21.009 1 60.38 ? C2B HEM 490 A 1 
HETATM 17 C C3B HEM . . . B 2 26.245 3.684 -20.832 1 58.83 ? C3B HEM 490 A 1 
HETATM 18 C C4B HEM . . . B 2 26.323 5.1 -21.117 1 61.84 ? C4B HEM 490 A 1 
HETATM 19 C CMB HEM . . . B 2 24.354 1.992 -20.845 1 48.51 ? CMB HEM 490 A 1 
HETATM 20 C CAB HEM . . . B 2 27.346 2.83 -20.44 1 52.37 ? CAB HEM 490 A 1 
HETATM 21 C CBB HEM . . . B 2 27.131 1.536 -20.373 1 66.79 ? CBB HEM 490 A 1 
HETATM 22 C C1C HEM . . . B 2 27.52 7.131 -21.061 1 67.68 ? C1C HEM 490 A 1 
HETATM 23 C C2C HEM . . . B 2 28.613 7.937 -20.805 1 69.47 ? C2C HEM 490 A 1 
HETATM 24 C C3C HEM . . . B 2 28.199 9.222 -20.957 1 74.06 ? C3C HEM 490 A 1 
HETATM 25 C C4C HEM . . . B 2 26.864 9.179 -21.299 1 73.2 ? C4C HEM 490 A 1 
HETATM 26 C CMC HEM . . . B 2 29.988 7.492 -20.443 1 58.06 ? CMC HEM 490 A 1 
HETATM 27 C CAC HEM . . . B 2 28.969 10.444 -20.805 1 69.33 ? CAC HEM 490 A 1 
HETATM 28 C CBC HEM . . . B 2 30.207 10.347 -20.371 1 84.58 ? CBC HEM 490 A 1 
HETATM 29 C C1D HEM . . . B 2 24.927 10.183 -22.087 1 75.67 ? C1D HEM 490 A 1 
HETATM 30 C C2D HEM . . . B 2 24.268 11.374 -22.525 1 74.15 ? C2D HEM 490 A 1 
HETATM 31 C C3D HEM . . . B 2 23.116 11.016 -23.021 1 64.41 ? C3D HEM 490 A 1 
HETATM 32 C C4D HEM . . . B 2 23.072 9.571 -22.887 1 60.55 ? C4D HEM 490 A 1 
HETATM 33 C CMD HEM . . . B 2 24.791 12.763 -22.438 1 77.9 ? CMD HEM 490 A 1 
HETATM 34 C CAD HEM . . . B 2 22.186 12.031 -23.587 1 66.59 ? CAD HEM 490 A 1 
HETATM 35 C CBD HEM . . . B 2 20.701 11.753 -23.479 1 72.98 ? CBD HEM 490 A 1 
HETATM 36 C CGD HEM . . . B 2 20.046 12.814 -24.311 1 85.33 ? CGD HEM 490 A 1 
HETATM 37 O O1D HEM . . . B 2 19.114 13.503 -23.871 1 76.53 ? O1D HEM 490 A 1 
HETATM 38 O O2D HEM . . . B 2 20.455 13.01 -25.462 1 84.84 ? O2D HEM 490 A 1 
HETATM 39 N NA HEM . . . B 2 22.856 6.759 -22.327 1 64.68 ? NA HEM 490 A 1 
HETATM 40 N NB HEM . . . B 2 25.119 5.513 -21.432 1 59.02 ? NB HEM 490 A 1 
HETATM 41 N NC HEM . . . B 2 26.465 7.907 -21.331 1 57.58 ? NC HEM 490 A 1 
HETATM 42 N ND HEM . . . B 2 24.181 9.133 -22.311 1 73.26 ? ND HEM 490 A 1 
HETATM 43 FE FE HEM . . . B 2 24.607 7.416 -21.933 1 62.07 ? FE HEM 490 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           296 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           43 
#