data_5VEU
#
_model_server_result.job_id            2pfLsIu2kECUUXiHoyLJYg 
_model_server_result.datetime_utc      '2024-11-27 13:26:08' 
_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          5veu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":601}' 
#
_entry.id    5VEU 
#
_exptl.entry_id    5VEU 
_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    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            5VEU 
_cell.length_a            148.988 
_cell.length_b            198.384 
_cell.length_c            234.881 
_cell.Z_PDB               48 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VEU 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
? monomeric 1 author_defined_assembly 5 
? monomeric 1 author_defined_assembly 6 
? monomeric 1 author_defined_assembly 7 
? monomeric 1 author_defined_assembly 8 
? monomeric 1 author_defined_assembly 9 
? monomeric 1 author_defined_assembly 10 
? monomeric 1 author_defined_assembly 11 
? monomeric 1 author_defined_assembly 12 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,M,N 1 1 
B,O,P 2 1 
C,Q 3 1 
D,R 4 1 
E,S 5 1 
F,T 6 1 
G,U 7 1 
H,V,W 8 1 
I,X 9 1 
J,Y 10 1 
K,Z 11 1 
L,AA 12 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
? 2 M N N 
? 2 O N N 
? 2 Q N N 
? 2 R N N 
? 2 S N N 
? 2 T N N 
? 2 U N N 
? 2 V N N 
? 2 X N N 
? 2 Y N N 
? 2 Z N N 
? 2 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 SG CYS 420 A CYS 441 1_555 M FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? 
metalc ? metalc2 M FE HEM . A HEM 601 1_555 N N5 RIT . A RIT 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? 
metalc ? metalc3 B SG CYS 420 B CYS 441 1_555 O FE HEM . B HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? 
metalc ? metalc4 O FE HEM . B HEM 601 1_555 P N5 RIT . B RIT 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? 
metalc ? metalc5 C SG CYS 420 C CYS 441 1_555 Q FE HEM . C HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? 
metalc ? metalc6 D SG CYS 420 D CYS 441 1_555 R FE HEM . D HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? 
metalc ? metalc7 E SG CYS 420 E CYS 441 1_555 S FE HEM . E HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? 
metalc ? metalc8 F SG CYS 420 F CYS 441 1_555 T FE HEM . F HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? 
metalc ? metalc9 G SG CYS 420 G CYS 441 1_555 U FE HEM . G HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? 
metalc ? metalc10 H SG CYS 420 H CYS 441 1_555 V FE HEM . H HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? 
metalc ? metalc11 V FE HEM . H HEM 601 1_555 W N5 RIT . H RIT 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? 
metalc ? metalc12 I SG CYS 420 I CYS 441 1_555 X FE HEM . I HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? 
metalc ? metalc13 J SG CYS 420 J CYS 441 1_555 Y FE HEM . J HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? 
metalc ? metalc14 K SG CYS 420 K CYS 441 1_555 Z FE HEM . K HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? 
metalc ? metalc15 L SG CYS 420 L CYS 441 1_555 AA FE HEM . L HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? 
#
_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                     5VEU 
_atom_sites.fract_transf_matrix[1][1]    0.006712 
_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]    0.005041 
_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]    0.004257 
_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 2 HEM A 1 601 500 HEM HEM . 
N 3 RIT A 1 602 501 RIT RIT . 
O 2 HEM B 1 601 500 HEM HEM . 
P 3 RIT B 1 602 501 RIT RIT . 
Q 2 HEM C 1 601 500 HEM HEM . 
R 2 HEM D 1 601 500 HEM HEM . 
S 2 HEM E 1 601 500 HEM HEM . 
T 2 HEM F 1 601 500 HEM HEM . 
U 2 HEM G 1 601 500 HEM HEM . 
V 2 HEM H 1 601 500 HEM HEM . 
W 3 RIT H 1 602 501 RIT RIT . 
X 2 HEM I 1 601 500 HEM HEM . 
Y 2 HEM J 1 601 500 HEM HEM . 
Z 2 HEM K 1 601 500 HEM HEM . 
AA 2 HEM L 1 601 500 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 . . . M 2 -9.823 -40.645 28.126 1 35.04 ? CHA HEM 601 A 1 
HETATM 2 C CHB HEM . . . M 2 -11.901 -38.807 24.138 1 32.09 ? CHB HEM 601 A 1 
HETATM 3 C CHC HEM . . . M 2 -7.594 -37.118 22.656 1 35.43 ? CHC HEM 601 A 1 
HETATM 4 C CHD HEM . . . M 2 -5.536 -38.855 26.692 1 36.16 ? CHD HEM 601 A 1 
HETATM 5 C C1A HEM . . . M 2 -10.764 -40.305 27.177 1 30.48 ? C1A HEM 601 A 1 
HETATM 6 C C2A HEM . . . M 2 -12.176 -40.63 27.216 1 36.32 ? C2A HEM 601 A 1 
HETATM 7 C C3A HEM . . . M 2 -12.748 -40.125 26.118 1 35.1 ? C3A HEM 601 A 1 
HETATM 8 C C4A HEM . . . M 2 -11.72 -39.458 25.341 1 34.88 ? C4A HEM 601 A 1 
HETATM 9 C CMA HEM . . . M 2 -14.205 -40.224 25.74 1 30.51 ? CMA HEM 601 A 1 
HETATM 10 C CAA HEM . . . M 2 -12.882 -41.423 28.338 1 30.75 ? CAA HEM 601 A 1 
HETATM 11 C CBA HEM . . . M 2 -13.568 -40.442 29.285 1 37.2 ? CBA HEM 601 A 1 
HETATM 12 C CGA HEM . . . M 2 -14.164 -41.179 30.454 1 37.25 ? CGA HEM 601 A 1 
HETATM 13 O O1A HEM . . . M 2 -14.882 -40.539 31.266 1 37.75 ? O1A HEM 601 A 1 
HETATM 14 O O2A HEM . . . M 2 -13.923 -42.407 30.576 1 42 ? O2A HEM 601 A 1 
HETATM 15 C C1B HEM . . . M 2 -10.928 -38.143 23.417 1 34.93 ? C1B HEM 601 A 1 
HETATM 16 C C2B HEM . . . M 2 -11.152 -37.322 22.242 1 34.51 ? C2B HEM 601 A 1 
HETATM 17 C C3B HEM . . . M 2 -9.961 -36.849 21.828 1 38.72 ? C3B HEM 601 A 1 
HETATM 18 C C4B HEM . . . M 2 -8.95 -37.366 22.732 1 37.06 ? C4B HEM 601 A 1 
HETATM 19 C CMB HEM . . . M 2 -12.521 -37.084 21.655 1 33.78 ? CMB HEM 601 A 1 
HETATM 20 C CAB HEM . . . M 2 -9.61 -35.93 20.626 1 38.12 ? CAB HEM 601 A 1 
HETATM 21 C CBB HEM . . . M 2 -10.475 -35.485 19.707 1 36.81 ? CBB HEM 601 A 1 
HETATM 22 C C1C HEM . . . M 2 -6.658 -37.414 23.625 1 37.05 ? C1C HEM 601 A 1 
HETATM 23 C C2C HEM . . . M 2 -5.26 -37.028 23.617 1 36.32 ? C2C HEM 601 A 1 
HETATM 24 C C3C HEM . . . M 2 -4.688 -37.51 24.738 1 36.72 ? C3C HEM 601 A 1 
HETATM 25 C C4C HEM . . . M 2 -5.712 -38.215 25.483 1 36.15 ? C4C HEM 601 A 1 
HETATM 26 C CMC HEM . . . M 2 -4.631 -36.224 22.507 1 36.26 ? CMC HEM 601 A 1 
HETATM 27 C CAC HEM . . . M 2 -3.226 -37.399 25.245 1 38.27 ? CAC HEM 601 A 1 
HETATM 28 C CBC HEM . . . M 2 -2.237 -36.758 24.613 1 40.91 ? CBC HEM 601 A 1 
HETATM 29 C C1D HEM . . . M 2 -6.5 -39.546 27.396 1 35.39 ? C1D HEM 601 A 1 
HETATM 30 C C2D HEM . . . M 2 -6.273 -40.379 28.559 1 37.5 ? C2D HEM 601 A 1 
HETATM 31 C C3D HEM . . . M 2 -7.448 -40.874 28.955 1 37.67 ? C3D HEM 601 A 1 
HETATM 32 C C4D HEM . . . M 2 -8.471 -40.37 28.06 1 35.74 ? C4D HEM 601 A 1 
HETATM 33 C CMD HEM . . . M 2 -4.931 -40.636 29.192 1 38.9 ? CMD HEM 601 A 1 
HETATM 34 C CAD HEM . . . M 2 -7.689 -41.812 30.159 1 30.58 ? CAD HEM 601 A 1 
HETATM 35 C CBD HEM . . . M 2 -7.656 -40.999 31.452 1 37.47 ? CBD HEM 601 A 1 
HETATM 36 C CGD HEM . . . M 2 -7.978 -41.877 32.634 1 44.65 ? CGD HEM 601 A 1 
HETATM 37 O O1D HEM . . . M 2 -7.801 -41.421 33.794 1 42.51 ? O1D HEM 601 A 1 
HETATM 38 O O2D HEM . . . M 2 -8.411 -43.038 32.416 1 41.36 ? O2D HEM 601 A 1 
HETATM 39 N NA HEM . . . M 2 -10.521 -39.588 26.018 1 31.46 ? NA HEM 601 A 1 
HETATM 40 N NB HEM . . . M 2 -9.574 -38.149 23.686 1 35.79 ? NB HEM 601 A 1 
HETATM 41 N NC HEM . . . M 2 -6.896 -38.136 24.777 1 36.78 ? NC HEM 601 A 1 
HETATM 42 N ND HEM . . . M 2 -7.855 -39.562 27.121 1 32.84 ? ND HEM 601 A 1 
HETATM 43 FE FE HEM . . . M 2 -8.698 -38.838 25.403 1 36.13 3 FE HEM 601 A 1 
#
_model_server_stats.io_time_ms              25 
_model_server_stats.parse_time_ms           25 
_model_server_stats.create_model_time_ms    79 
_model_server_stats.query_time_ms           286 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           43 
#