data_5X2S
#
_model_server_result.job_id            gmGCsOryqT01s1tCX2rxng 
_model_server_result.datetime_utc      '2024-10-31 06:21:17' 
_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          5x2s 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"X","auth_seq_id":201}' 
#
_entry.id    5X2S 
#
_exptl.entry_id    5X2S 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              616.487 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PROTOPORPHYRIN IX CONTAINING FE' 
_entity.pdbx_number_of_molecules    6 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          103.18 
_cell.angle_gamma         90 
_cell.entry_id            5X2S 
_cell.length_a            228.603 
_cell.length_b            54.598 
_cell.length_c            138.444 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5X2S 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? tetrameric 4 author_defined_assembly 1 
? tetrameric 4 author_defined_assembly 2 
? tetrameric 4 author_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,M,N,O,P,Z,AA,BA 1 1 
E,F,G,H,Q,R,S,T,CA,DA,EA,FA 2 1 
I,J,K,L,U,V,W,X,Y,GA,HA,IA,JA 3 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
? 4 N N N 
? 4 O N N 
? 4 R N N 
? 4 S N N 
? 4 W N N 
? 4 X 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 87 A HIS 87 1_555 M NI HNI . A HNI 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? 
metalc ? metalc2 B NE2 HIS 92 B HIS 92 1_555 N FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? 
metalc ? metalc3 C NE2 HIS 87 C HIS 87 1_555 O FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? 
metalc ? metalc4 D NE2 HIS 92 D HIS 92 1_555 P NI HNI . D HNI 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? 
metalc ? metalc5 F NE2 HIS 92 F HIS 92 1_555 R FE HEM . F HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.224 ? 
metalc ? metalc6 G NE2 HIS 87 G HIS 87 1_555 S FE HEM . G HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? 
metalc ? metalc7 H NE2 HIS 92 H HIS 92 1_555 T NI HNI . H HNI 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
metalc ? metalc8 J NE2 HIS 92 J HIS 92 1_555 W FE HEM . J HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? 
metalc ? metalc9 L NE2 HIS 92 L HIS 92 1_555 Y NI HNI . L HNI 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.741 ? 
#
_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                     5X2S 
_atom_sites.fract_transf_matrix[1][1]    0.004374 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001024 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018316 
_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]    0.007419 
_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
M 3 HNI A 1 201 142 HNI HNI . 
N 4 HEM B 1 201 147 HEM HEM . 
O 4 HEM C 1 201 142 HEM HEM . 
P 3 HNI D 1 201 147 HNI HNI . 
Q 3 HNI E 1 201 142 HNI HNI . 
R 4 HEM F 1 201 147 HEM HEM . 
S 4 HEM G 1 201 142 HEM HEM . 
T 3 HNI H 1 201 147 HNI HNI . 
U 3 HNI I 1 201 142 HNI HNI . 
V 5 PEM I 1 202 1 PEM PEM . 
W 4 HEM J 1 201 147 HEM HEM . 
X 4 HEM K 1 201 142 HEM HEM . 
Y 3 HNI L 1 201 147 HNI HNI . 
Z 6 HOH A 1 301 51 HOH HOH . 
Z 6 HOH A 2 302 1 HOH HOH . 
AA 6 HOH B 1 301 10 HOH HOH . 
AA 6 HOH B 2 302 9 HOH HOH . 
BA 6 HOH D 1 301 24 HOH HOH . 
BA 6 HOH D 2 302 34 HOH HOH . 
BA 6 HOH D 3 303 53 HOH HOH . 
CA 6 HOH E 1 301 17 HOH HOH . 
CA 6 HOH E 2 302 64 HOH HOH . 
CA 6 HOH E 3 303 47 HOH HOH . 
DA 6 HOH F 1 301 48 HOH HOH . 
DA 6 HOH F 2 302 60 HOH HOH . 
EA 6 HOH G 1 301 8 HOH HOH . 
EA 6 HOH G 2 302 65 HOH HOH . 
EA 6 HOH G 3 303 21 HOH HOH . 
FA 6 HOH H 1 301 55 HOH HOH . 
FA 6 HOH H 2 302 68 HOH HOH . 
FA 6 HOH H 3 303 63 HOH HOH . 
GA 6 HOH I 1 301 7 HOH HOH . 
GA 6 HOH I 2 302 43 HOH HOH . 
GA 6 HOH I 3 303 40 HOH HOH . 
GA 6 HOH I 4 304 5 HOH HOH . 
HA 6 HOH J 1 301 15 HOH HOH . 
HA 6 HOH J 2 302 18 HOH HOH . 
HA 6 HOH J 3 303 31 HOH HOH . 
HA 6 HOH J 4 304 2 HOH HOH . 
HA 6 HOH J 5 305 66 HOH HOH . 
IA 6 HOH K 1 301 57 HOH HOH . 
IA 6 HOH K 2 302 32 HOH HOH . 
IA 6 HOH K 3 303 20 HOH HOH . 
IA 6 HOH K 4 304 12 HOH HOH . 
IA 6 HOH K 5 305 37 HOH HOH . 
JA 6 HOH L 1 301 44 HOH HOH . 
JA 6 HOH L 2 302 45 HOH HOH . 
JA 6 HOH L 3 303 33 HOH HOH . 
JA 6 HOH L 4 304 3 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 . . . X 4 21.869 -1.211 104.279 1 64.69 ? CHA HEM 201 K 1 
HETATM 2 C CHB HEM . . . X 4 19.392 2.536 102.713 1 62.29 ? CHB HEM 201 K 1 
HETATM 3 C CHC HEM . . . X 4 18.206 0.104 98.729 1 60.19 ? CHC HEM 201 K 1 
HETATM 4 C CHD HEM . . . X 4 20.239 -3.765 100.57 1 62.52 ? CHD HEM 201 K 1 
HETATM 5 C C1A HEM . . . X 4 21.328 0.034 104.169 1 63.75 ? C1A HEM 201 K 1 
HETATM 6 C C2A HEM . . . X 4 21.512 1.058 105.134 1 64.82 ? C2A HEM 201 K 1 
HETATM 7 C C3A HEM . . . X 4 20.814 2.127 104.697 1 64.13 ? C3A HEM 201 K 1 
HETATM 8 C C4A HEM . . . X 4 20.215 1.74 103.454 1 62.6 ? C4A HEM 201 K 1 
HETATM 9 C CMA HEM . . . X 4 20.738 3.483 105.405 1 65.93 ? CMA HEM 201 K 1 
HETATM 10 C CAA HEM . . . X 4 22.335 0.986 106.425 1 67.59 ? CAA HEM 201 K 1 
HETATM 11 C CBA HEM . . . X 4 23.704 1.61 106.122 1 69.66 ? CBA HEM 201 K 1 
HETATM 12 C CGA HEM . . . X 4 24.537 1.979 107.343 1 72.46 ? CGA HEM 201 K 1 
HETATM 13 O O1A HEM . . . X 4 25.51 1.301 107.644 1 74.79 ? O1A HEM 201 K 1 
HETATM 14 O O2A HEM . . . X 4 24.204 3.073 108.083 1 73.65 ? O2A HEM 201 K 1 
HETATM 15 C C1B HEM . . . X 4 18.844 2.159 101.485 1 61.11 ? C1B HEM 201 K 1 
HETATM 16 C C2B HEM . . . X 4 18.116 3.114 100.691 1 60.79 ? C2B HEM 201 K 1 
HETATM 17 C C3B HEM . . . X 4 17.863 2.5 99.523 1 60.45 ? C3B HEM 201 K 1 
HETATM 18 C C4B HEM . . . X 4 18.386 1.095 99.677 1 60.08 ? C4B HEM 201 K 1 
HETATM 19 C CMB HEM . . . X 4 17.776 4.544 101.067 1 62.79 ? CMB HEM 201 K 1 
HETATM 20 C CAB HEM . . . X 4 17.132 3.079 98.385 1 61.13 ? CAB HEM 201 K 1 
HETATM 21 C CBB HEM . . . X 4 15.834 3.397 98.563 1 66.36 ? CBB HEM 201 K 1 
HETATM 22 C C1C HEM . . . X 4 18.626 -1.184 98.893 1 59.76 ? C1C HEM 201 K 1 
HETATM 23 C C2C HEM . . . X 4 18.247 -2.276 98.06 1 60.12 ? C2C HEM 201 K 1 
HETATM 24 C C3C HEM . . . X 4 18.822 -3.403 98.614 1 60.74 ? C3C HEM 201 K 1 
HETATM 25 C C4C HEM . . . X 4 19.513 -2.956 99.774 1 60.97 ? C4C HEM 201 K 1 
HETATM 26 C CMC HEM . . . X 4 17.408 -2.193 96.788 1 60.97 ? CMC HEM 201 K 1 
HETATM 27 C CAC HEM . . . X 4 18.796 -4.817 98.137 1 61.85 ? CAC HEM 201 K 1 
HETATM 28 C CBC HEM . . . X 4 17.765 -5.348 97.5 1 63.49 ? CBC HEM 201 K 1 
HETATM 29 C C1D HEM . . . X 4 20.908 -3.334 101.707 1 62.84 ? C1D HEM 201 K 1 
HETATM 30 C C2D HEM . . . X 4 21.719 -4.287 102.511 1 64.38 ? C2D HEM 201 K 1 
HETATM 31 C C3D HEM . . . X 4 22.186 -3.553 103.533 1 65.07 ? C3D HEM 201 K 1 
HETATM 32 C C4D HEM . . . X 4 21.647 -2.203 103.347 1 63.8 ? C4D HEM 201 K 1 
HETATM 33 C CMD HEM . . . X 4 21.953 -5.759 102.192 1 66.47 ? CMD HEM 201 K 1 
HETATM 34 C CAD HEM . . . X 4 23.043 -3.991 104.686 1 67.48 ? CAD HEM 201 K 1 
HETATM 35 C CBD HEM . . . X 4 22.319 -4.984 105.607 1 69.17 ? CBD HEM 201 K 1 
HETATM 36 C CGD HEM . . . X 4 23.099 -5.138 106.926 1 72.1 ? CGD HEM 201 K 1 
HETATM 37 O O1D HEM . . . X 4 23.581 -4.175 107.54 1 73.17 ? O1D HEM 201 K 1 
HETATM 38 O O2D HEM . . . X 4 23.257 -6.371 107.435 1 74.08 ? O2D HEM 201 K 1 
HETATM 39 N NA HEM . . . X 4 20.542 0.446 103.09 1 62.58 ? NA HEM 201 K 1 
HETATM 40 N NB HEM . . . X 4 19.028 0.966 100.861 1 60.43 ? NB HEM 201 K 1 
HETATM 41 N NC HEM . . . X 4 19.371 -1.617 99.977 1 60.52 ? NC HEM 201 K 1 
HETATM 42 N ND HEM . . . X 4 20.913 -2.109 102.216 1 62.45 ? ND HEM 201 K 1 
HETATM 43 FE FE HEM . . . X 4 20.078 -0.554 101.452 1 61.38 ? FE HEM 201 K 1 
#
_model_server_stats.io_time_ms              32 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    24 
_model_server_stats.query_time_ms           333 
_model_server_stats.encode_time_ms          12 
_model_server_stats.element_count           43 
#