data_5M3L
#
_model_server_result.job_id            MJIpOhYRDFRpB_lxPkxmUg 
_model_server_result.datetime_utc      '2025-04-26 04:35:40' 
_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          5m3l 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"U","auth_seq_id":201}' 
#
_entry.id    5M3L 
#
_exptl.entry_id    5M3L 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              616.487 
_entity.id                          8 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PROTOPORPHYRIN IX CONTAINING FE' 
_entity.pdbx_number_of_molecules    12 
_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            5M3L 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               1 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5M3L 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    pentadecameric 
_pdbx_struct_assembly.oligomeric_count      15 
_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 
_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
? 8 P N N 
? 8 Q N N 
? 8 R N N 
? 8 S N N 
? 8 T N N 
? 8 U N N 
? 8 V N N 
? 8 W N N 
? 8 X N N 
? 8 Y N N 
? 8 Z N N 
? 8 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
metalc ? metalc1 A NE2 HIS 101 A HIS 101 1_555 P FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? 
metalc ? metalc2 B NE2 HIS 96 B HIS 96 1_555 Q FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? 
metalc ? metalc3 C NE2 HIS 102 C HIS 102 1_555 R FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.591 ? 
metalc ? metalc4 D NE2 HIS 94 D HIS 101 1_555 S FE HEM . D HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? 
metalc ? metalc5 E NE2 HIS 101 E HIS 101 1_555 T FE HEM . E HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.586 ? 
metalc ? metalc6 F NE2 HIS 96 F HIS 96 1_555 U FE HEM . F HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? 
metalc ? metalc7 G NE2 HIS 102 G HIS 102 1_555 V FE HEM . G HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.52 ? 
metalc ? metalc8 H NE2 HIS 94 H HIS 101 1_555 W FE HEM . H HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? 
metalc ? metalc9 I NE2 HIS 101 I HIS 101 1_555 X FE HEM . I HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.579 ? 
metalc ? metalc10 J NE2 HIS 96 J HIS 96 1_555 Y FE HEM . J HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? 
metalc ? metalc11 K NE2 HIS 102 K HIS 102 1_555 Z FE HEM . K HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.696 ? 
metalc ? metalc12 L NE2 HIS 94 L HIS 101 1_555 AA FE HEM . L HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? 
#
_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                     5M3L 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
P 8 HEM A 1 201 160 HEM HEM . 
Q 8 HEM B 1 201 160 HEM HEM . 
R 8 HEM C 1 201 160 HEM HEM . 
S 8 HEM D 1 201 160 HEM HEM . 
T 8 HEM E 1 201 160 HEM HEM . 
U 8 HEM F 1 201 160 HEM HEM . 
V 8 HEM G 1 201 160 HEM HEM . 
W 8 HEM H 1 201 160 HEM HEM . 
X 8 HEM I 1 201 160 HEM HEM . 
Y 8 HEM J 1 201 160 HEM HEM . 
Z 8 HEM K 1 201 160 HEM HEM . 
AA 8 HEM L 1 201 160 HEM HEM . 
#
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 . . . U 8 -37.03 108.774 27.355 1 56.49 ? CHA HEM 201 F 1 
HETATM 2 C CHB HEM . . . U 8 -36.537 106.909 31.777 1 51.94 ? CHB HEM 201 F 1 
HETATM 3 C CHC HEM . . . U 8 -39.02 102.941 30.498 1 47.44 ? CHC HEM 201 F 1 
HETATM 4 C CHD HEM . . . U 8 -39.793 105.027 26.177 1 54.48 ? CHD HEM 201 F 1 
HETATM 5 C C1A HEM . . . U 8 -36.672 108.598 28.651 1 60.17 ? C1A HEM 201 F 1 
HETATM 6 C C2A HEM . . . U 8 -35.809 109.423 29.384 1 67.59 ? C2A HEM 201 F 1 
HETATM 7 C C3A HEM . . . U 8 -35.672 108.883 30.625 1 61.28 ? C3A HEM 201 F 1 
HETATM 8 C C4A HEM . . . U 8 -36.455 107.735 30.691 1 57.85 ? C4A HEM 201 F 1 
HETATM 9 C CMA HEM . . . U 8 -34.856 109.433 31.764 1 62.83 ? CMA HEM 201 F 1 
HETATM 10 C CAA HEM . . . U 8 -35.085 110.657 28.928 1 83.41 ? CAA HEM 201 F 1 
HETATM 11 C CBA HEM . . . U 8 -35.892 111.708 28.188 1 102.46 ? CBA HEM 201 F 1 
HETATM 12 C CGA HEM . . . U 8 -34.962 112.816 27.778 1 126.21 ? CGA HEM 201 F 1 
HETATM 13 O O1A HEM . . . U 8 -33.723 112.817 28.029 1 144.05 ? O1A HEM 201 F 1 
HETATM 14 O O2A HEM . . . U 8 -35.48 113.767 27.159 1 154.92 ? O2A HEM 201 F 1 
HETATM 15 C C1B HEM . . . U 8 -37.154 105.659 31.767 1 51.96 ? C1B HEM 201 F 1 
HETATM 16 C C2B HEM . . . U 8 -37.119 104.794 32.884 1 53.79 ? C2B HEM 201 F 1 
HETATM 17 C C3B HEM . . . U 8 -37.819 103.661 32.541 1 52.36 ? C3B HEM 201 F 1 
HETATM 18 C C4B HEM . . . U 8 -38.274 103.876 31.17 1 49.2 ? C4B HEM 201 F 1 
HETATM 19 C CMB HEM . . . U 8 -36.437 105.078 34.213 1 56.38 ? CMB HEM 201 F 1 
HETATM 20 C CAB HEM . . . U 8 -38.087 102.428 33.324 1 54.89 ? CAB HEM 201 F 1 
HETATM 21 C CBB HEM . . . U 8 -37.64 102.188 34.561 1 56.78 ? CBB HEM 201 F 1 
HETATM 22 C C1C HEM . . . U 8 -39.457 103.164 29.212 1 55.46 ? C1C HEM 201 F 1 
HETATM 23 C C2C HEM . . . U 8 -40.08 102.227 28.398 1 60.23 ? C2C HEM 201 F 1 
HETATM 24 C C3C HEM . . . U 8 -40.3 102.83 27.144 1 61.42 ? C3C HEM 201 F 1 
HETATM 25 C C4C HEM . . . U 8 -39.801 104.143 27.206 1 57.18 ? C4C HEM 201 F 1 
HETATM 26 C CMC HEM . . . U 8 -40.451 100.831 28.834 1 61.57 ? CMC HEM 201 F 1 
HETATM 27 C CAC HEM . . . U 8 -40.901 102.273 25.916 1 66.6 ? CAC HEM 201 F 1 
HETATM 28 C CBC HEM . . . U 8 -41.158 100.978 25.724 1 73.18 ? CBC HEM 201 F 1 
HETATM 29 C C1D HEM . . . U 8 -39.086 106.202 26.184 1 59.14 ? C1D HEM 201 F 1 
HETATM 30 C C2D HEM . . . U 8 -38.991 107.046 24.981 1 68.22 ? C2D HEM 201 F 1 
HETATM 31 C C3D HEM . . . U 8 -38.227 108.092 25.318 1 74.92 ? C3D HEM 201 F 1 
HETATM 32 C C4D HEM . . . U 8 -37.842 107.876 26.714 1 61.83 ? C4D HEM 201 F 1 
HETATM 33 C CMD HEM . . . U 8 -39.609 106.872 23.601 1 67.67 ? CMD HEM 201 F 1 
HETATM 34 C CAD HEM . . . U 8 -37.81 109.181 24.358 1 91.44 ? CAD HEM 201 F 1 
HETATM 35 C CBD HEM . . . U 8 -38.872 110.19 23.954 1 117.08 ? CBD HEM 201 F 1 
HETATM 36 C CGD HEM . . . U 8 -38.362 110.995 22.764 1 142.98 ? CGD HEM 201 F 1 
HETATM 37 O O1D HEM . . . U 8 -37.247 110.745 22.225 1 153.3 ? O1D HEM 201 F 1 
HETATM 38 O O2D HEM . . . U 8 -39.065 111.926 22.291 1 170.26 ? O2D HEM 201 F 1 
HETATM 39 N NA HEM . . . U 8 -37.028 107.551 29.472 1 62.31 ? NA HEM 201 F 1 
HETATM 40 N NB HEM . . . U 8 -37.849 105.087 30.784 1 54.08 ? NB HEM 201 F 1 
HETATM 41 N NC HEM . . . U 8 -39.249 104.284 28.44 1 60.2 ? NC HEM 201 F 1 
HETATM 42 N ND HEM . . . U 8 -38.407 106.748 27.178 1 59.02 ? ND HEM 201 F 1 
HETATM 43 FE FE HEM . . . U 8 -38.128 106 28.869 1 72.3 ? FE HEM 201 F 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    28 
_model_server_stats.query_time_ms           303 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           43 
#