data_5VEU
#
_model_server_result.job_id            tpqcREB5yh6n6rimsswoKQ 
_model_server_result.datetime_utc      '2024-11-23 19:37:18' 
_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":"Y","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 . . . Y 2 -92.514 -18.468 25.467 1 46.2 ? CHA HEM 601 J 1 
HETATM 2 C CHB HEM . . . Y 2 -96.581 -18.591 28.126 1 46.47 ? CHB HEM 601 J 1 
HETATM 3 C CHC HEM . . . Y 2 -97.123 -23.289 27.054 1 49.2 ? CHC HEM 601 J 1 
HETATM 4 C CHD HEM . . . Y 2 -93.04 -23.188 24.432 1 49.53 ? CHD HEM 601 J 1 
HETATM 5 C C1A HEM . . . Y 2 -93.56 -18.09 26.281 1 44.62 ? C1A HEM 601 J 1 
HETATM 6 C C2A HEM . . . Y 2 -93.776 -16.77 26.835 1 43.1 ? C2A HEM 601 J 1 
HETATM 7 C C3A HEM . . . Y 2 -94.893 -16.802 27.563 1 43.15 ? C3A HEM 601 J 1 
HETATM 8 C C4A HEM . . . Y 2 -95.433 -18.147 27.503 1 45.62 ? C4A HEM 601 J 1 
HETATM 9 C CMA HEM . . . Y 2 -95.49 -15.643 28.319 1 38.08 ? CMA HEM 601 J 1 
HETATM 10 C CAA HEM . . . Y 2 -92.874 -15.538 26.616 1 42.43 ? CAA HEM 601 J 1 
HETATM 11 C CBA HEM . . . Y 2 -93.345 -14.799 25.369 1 46.48 ? CBA HEM 601 J 1 
HETATM 12 C CGA HEM . . . Y 2 -92.579 -13.511 25.226 1 49.7 ? CGA HEM 601 J 1 
HETATM 13 O O1A HEM . . . Y 2 -93.019 -12.641 24.432 1 48.38 ? O1A HEM 601 J 1 
HETATM 14 O O2A HEM . . . Y 2 -91.536 -13.352 25.911 1 56.35 ? O2A HEM 601 J 1 
HETATM 15 C C1B HEM . . . Y 2 -97.123 -19.854 28.017 1 46.04 ? C1B HEM 601 J 1 
HETATM 16 C C2B HEM . . . Y 2 -98.43 -20.267 28.486 1 46.13 ? C2B HEM 601 J 1 
HETATM 17 C C3B HEM . . . Y 2 -98.582 -21.573 28.19 1 45.77 ? C3B HEM 601 J 1 
HETATM 18 C C4B HEM . . . Y 2 -97.372 -22.016 27.524 1 47.43 ? C4B HEM 601 J 1 
HETATM 19 C CMB HEM . . . Y 2 -99.396 -19.337 29.179 1 47.69 ? CMB HEM 601 J 1 
HETATM 20 C CAB HEM . . . Y 2 -99.778 -22.526 28.459 1 44.8 ? CAB HEM 601 J 1 
HETATM 21 C CBB HEM . . . Y 2 -100.926 -22.18 29.056 1 38.78 ? CBB HEM 601 J 1 
HETATM 22 C C1C HEM . . . Y 2 -96.089 -23.67 26.223 1 46.63 ? C1C HEM 601 J 1 
HETATM 23 C C2C HEM . . . Y 2 -95.934 -24.965 25.589 1 46.55 ? C2C HEM 601 J 1 
HETATM 24 C C3C HEM . . . Y 2 -94.802 -24.938 24.858 1 42.94 ? C3C HEM 601 J 1 
HETATM 25 C C4C HEM . . . Y 2 -94.211 -23.624 25.016 1 46.48 ? C4C HEM 601 J 1 
HETATM 26 C CMC HEM . . . Y 2 -96.919 -26.095 25.764 1 47.83 ? CMC HEM 601 J 1 
HETATM 27 C CAC HEM . . . Y 2 -94.148 -26.039 23.981 1 41.52 ? CAC HEM 601 J 1 
HETATM 28 C CBC HEM . . . Y 2 -94.609 -27.289 23.848 1 44.1 ? CBC HEM 601 J 1 
HETATM 29 C C1D HEM . . . Y 2 -92.524 -21.913 24.508 1 47.49 ? C1D HEM 601 J 1 
HETATM 30 C C2D HEM . . . Y 2 -91.264 -21.465 23.95 1 52.59 ? C2D HEM 601 J 1 
HETATM 31 C C3D HEM . . . Y 2 -91.118 -20.168 24.236 1 49.98 ? C3D HEM 601 J 1 
HETATM 32 C C4D HEM . . . Y 2 -92.282 -19.74 24.986 1 40.21 ? C4D HEM 601 J 1 
HETATM 33 C CMD HEM . . . Y 2 -90.291 -22.322 23.185 1 43.48 ? CMD HEM 601 J 1 
HETATM 34 C CAD HEM . . . Y 2 -89.926 -19.271 23.838 1 47.04 ? CAD HEM 601 J 1 
HETATM 35 C CBD HEM . . . Y 2 -90.105 -18.805 22.397 1 47.59 ? CBD HEM 601 J 1 
HETATM 36 C CGD HEM . . . Y 2 -88.95 -17.927 21.995 1 46.53 ? CGD HEM 601 J 1 
HETATM 37 O O1D HEM . . . Y 2 -88.79 -17.674 20.774 1 46.34 ? O1D HEM 601 J 1 
HETATM 38 O O2D HEM . . . Y 2 -88.186 -17.485 22.891 1 45.85 ? O2D HEM 601 J 1 
HETATM 39 N NA HEM . . . Y 2 -94.591 -18.905 26.71 1 40.69 ? NA HEM 601 J 1 
HETATM 40 N NB HEM . . . Y 2 -96.507 -20.944 27.437 1 48.61 ? NB HEM 601 J 1 
HETATM 41 N NC HEM . . . Y 2 -95.02 -22.881 25.851 1 43.2 ? NC HEM 601 J 1 
HETATM 42 N ND HEM . . . Y 2 -93.118 -20.832 25.133 1 46.7 ? ND HEM 601 J 1 
HETATM 43 FE FE HEM . . . Y 2 -94.783 -20.91 26.315 1 45.08 3 FE HEM 601 J 1 
#
_model_server_stats.io_time_ms              26 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    40 
_model_server_stats.query_time_ms           226 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           43 
#