data_2OYY
#
_model_server_result.job_id            8dYQzahvbHcWM0VMdh4oKQ 
_model_server_result.datetime_utc      '2025-09-04 17:53:07' 
_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          2oyy 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"V","auth_seq_id":201}' 
#
_entry.id    2OYY 
#
_exptl.entry_id    2OYY 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              616.487 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PROTOPORPHYRIN IX CONTAINING FE' 
_entity.pdbx_number_of_molecules    8 
_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            2OYY 
_cell.length_a            173.71 
_cell.length_b            173.71 
_cell.length_c            45.88 
_cell.Z_PDB               72 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2OYY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        146 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'H 3' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? hexameric 6 author_defined_assembly 1 
PISA hexameric 6 author_and_software_defined_assembly 2 
PISA 24-meric 24 software_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,I,J,K,L,M 1 1,2,3 
C,D,E,F,G,H,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA 2 1 
A,B,I,J,K,L,M 3 4,5,6 
C,D,E,F,G,H,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA 3 1,7,8 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 
3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 
4 'crystal symmetry operation' 4_455 x-1/3,y+1/3,z+1/3 1 0 0 0 1 0 0 0 1 -86.855 50.145758 15.293333 
5 'crystal symmetry operation' 5_455 -y-1/3,x-y+1/3,z+1/3 -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -86.855 50.145758 15.293333 
6 'crystal symmetry operation' 6_455 -x+y-1/3,-x+1/3,z+1/3 -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -86.855 50.145758 15.293333 
7 'crystal symmetry operation' 2_565 -y,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -86.855 150.437273 0 
8 'crystal symmetry operation' 3_455 -x+y-1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -173.71 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 J N N 
? 3 M N N 
? 3 P N N 
? 3 S N N 
? 3 V N N 
? 3 X N N 
? 3 Z N N 
? 3 BA 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 OH TYR 46 A TYR 43 1_555 J FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
metalc ? metalc2 B OH TYR 46 B TYR 43 1_555 M FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? 
metalc ? metalc3 C OH TYR 46 C TYR 43 1_555 P FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? 
metalc ? metalc4 D OH TYR 46 D TYR 43 1_555 S FE HEM . D HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.091 ? 
metalc ? metalc5 E OH TYR 46 E TYR 43 1_555 V FE HEM . E HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? 
metalc ? metalc6 F OH TYR 46 F TYR 43 1_555 X FE HEM . F HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.218 ? 
metalc ? metalc7 G OH TYR 46 G TYR 43 1_555 Z FE HEM . G HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
metalc ? metalc8 H OH TYR 46 H TYR 43 1_555 BA FE HEM . H HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.986 ? 
#
_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 116 n n 
CHA C4D HEM doub 117 n n 
CHA HHA HEM sing 118 n n 
CHB C4A HEM sing 119 n n 
CHB C1B HEM doub 120 n n 
CHB HHB HEM sing 121 n n 
CHC C4B HEM sing 122 n n 
CHC C1C HEM doub 123 n n 
CHC HHC HEM sing 124 n n 
CHD C4C HEM doub 125 n n 
CHD C1D HEM sing 126 n n 
CHD HHD HEM sing 127 n n 
C1A C2A HEM doub 128 n y 
C1A NA HEM sing 129 n y 
C2A C3A HEM sing 130 n y 
C2A CAA HEM sing 131 n n 
C3A C4A HEM doub 132 n y 
C3A CMA HEM sing 133 n n 
C4A NA HEM sing 134 n y 
CMA HMA HEM sing 135 n n 
CMA HMAA HEM sing 136 n n 
CMA HMAB HEM sing 137 n n 
CAA CBA HEM sing 138 n n 
CAA HAA HEM sing 139 n n 
CAA HAAA HEM sing 140 n n 
CBA CGA HEM sing 141 n n 
CBA HBA HEM sing 142 n n 
CBA HBAA HEM sing 143 n n 
CGA O1A HEM doub 144 n n 
CGA O2A HEM sing 145 n n 
C1B C2B HEM sing 146 n n 
C1B NB HEM sing 147 n n 
C2B C3B HEM doub 148 n n 
C2B CMB HEM sing 149 n n 
C3B C4B HEM sing 150 n n 
C3B CAB HEM sing 151 n n 
C4B NB HEM doub 152 n n 
CMB HMB HEM sing 153 n n 
CMB HMBA HEM sing 154 n n 
CMB HMBB HEM sing 155 n n 
CAB CBB HEM doub 156 n n 
CAB HAB HEM sing 157 n n 
CBB HBB HEM sing 158 n n 
CBB HBBA HEM sing 159 n n 
C1C C2C HEM sing 160 n y 
C1C NC HEM sing 161 n y 
C2C C3C HEM doub 162 n y 
C2C CMC HEM sing 163 n n 
C3C C4C HEM sing 164 n y 
C3C CAC HEM sing 165 n n 
C4C NC HEM sing 166 n y 
CMC HMC HEM sing 167 n n 
CMC HMCA HEM sing 168 n n 
CMC HMCB HEM sing 169 n n 
CAC CBC HEM doub 170 n n 
CAC HAC HEM sing 171 n n 
CBC HBC HEM sing 172 n n 
CBC HBCA HEM sing 173 n n 
C1D C2D HEM sing 174 n n 
C1D ND HEM doub 175 n n 
C2D C3D HEM doub 176 n n 
C2D CMD HEM sing 177 n n 
C3D C4D HEM sing 178 n n 
C3D CAD HEM sing 179 n n 
C4D ND HEM sing 180 n n 
CMD HMD HEM sing 181 n n 
CMD HMDA HEM sing 182 n n 
CMD HMDB HEM sing 183 n n 
CAD CBD HEM sing 184 n n 
CAD HAD HEM sing 185 n n 
CAD HADA HEM sing 186 n n 
CBD CGD HEM sing 187 n n 
CBD HBD HEM sing 188 n n 
CBD HBDA HEM sing 189 n n 
CGD O1D HEM doub 190 n n 
CGD O2D HEM sing 191 n n 
O2A H2A HEM sing 192 n n 
O2D H2D HEM sing 193 n n 
FE NA HEM sing 194 n n 
FE NB HEM sing 195 n n 
FE NC HEM sing 196 n n 
FE ND HEM sing 197 n n 
#
_atom_sites.entry_id                     2OYY 
_atom_sites.fract_transf_matrix[1][1]    0.005757 
_atom_sites.fract_transf_matrix[1][2]    0.003324 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006647 
_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]    0.021796 
_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
I 2 IOD A 1 9001 9001 IOD IOD . 
J 3 HEM A 1 201 201 HEM HEM . 
K 2 IOD B 1 9001 9001 IOD IOD . 
L 2 IOD B 1 9005 9005 IOD IOD . 
M 3 HEM B 1 201 201 HEM HEM . 
N 2 IOD C 1 9001 9001 IOD IOD . 
O 2 IOD C 1 9003 9003 IOD IOD . 
P 3 HEM C 1 201 201 HEM HEM . 
Q 2 IOD D 1 9001 9001 IOD IOD . 
R 2 IOD D 1 9002 9002 IOD IOD . 
S 3 HEM D 1 201 201 HEM HEM . 
T 2 IOD E 1 9001 9001 IOD IOD . 
U 2 IOD E 1 9004 9004 IOD IOD . 
V 3 HEM E 1 201 201 HEM HEM . 
W 2 IOD F 1 9001 9001 IOD IOD . 
X 3 HEM F 1 201 201 HEM HEM . 
Y 2 IOD G 1 9001 9001 IOD IOD . 
Z 3 HEM G 1 201 201 HEM HEM . 
AA 2 IOD H 1 9001 9001 IOD IOD . 
BA 3 HEM H 1 201 201 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 . . . V 3 -62.832 19.143 -0.931 1 3.98 ? CHA HEM 201 E 1 
HETATM 2 C CHB HEM . . . V 3 -59.715 20.745 -4.266 1 3.68 ? CHB HEM 201 E 1 
HETATM 3 C CHC HEM . . . V 3 -55.862 18.973 -1.899 1 2.39 ? CHC HEM 201 E 1 
HETATM 4 C CHD HEM . . . V 3 -58.952 17.267 1.377 1 4.25 ? CHD HEM 201 E 1 
HETATM 5 C C1A HEM . . . V 3 -62.333 19.744 -2.072 1 4.48 ? C1A HEM 201 E 1 
HETATM 6 C C2A HEM . . . V 3 -63.099 20.407 -3.111 1 4.27 ? C2A HEM 201 E 1 
HETATM 7 C C3A HEM . . . V 3 -62.234 20.86 -4.028 1 3.55 ? C3A HEM 201 E 1 
HETATM 8 C C4A HEM . . . V 3 -60.895 20.494 -3.598 1 3.45 ? C4A HEM 201 E 1 
HETATM 9 C CMA HEM . . . V 3 -62.604 21.628 -5.319 1 2 ? CMA HEM 201 E 1 
HETATM 10 C CAA HEM . . . V 3 -64.643 20.581 -3.138 1 5.24 ? CAA HEM 201 E 1 
HETATM 11 C CBA HEM . . . V 3 -65.011 21.658 -2.097 1 6.14 ? CBA HEM 201 E 1 
HETATM 12 C CGA HEM . . . V 3 -66.494 21.96 -1.989 1 6.69 ? CGA HEM 201 E 1 
HETATM 13 O O1A HEM . . . V 3 -67.284 21.551 -2.881 1 5.49 ? O1A HEM 201 E 1 
HETATM 14 O O2A HEM . . . V 3 -66.879 22.634 -0.99 1 6.46 ? O2A HEM 201 E 1 
HETATM 15 C C1B HEM . . . V 3 -58.425 20.365 -3.94 1 2.77 ? C1B HEM 201 E 1 
HETATM 16 C C2B HEM . . . V 3 -57.248 20.548 -4.785 1 2.54 ? C2B HEM 201 E 1 
HETATM 17 C C3B HEM . . . V 3 -56.188 20.059 -4.12 1 2.02 ? C3B HEM 201 E 1 
HETATM 18 C C4B HEM . . . V 3 -56.655 19.556 -2.854 1 2.21 ? C4B HEM 201 E 1 
HETATM 19 C CMB HEM . . . V 3 -57.235 21.19 -6.195 1 2 ? CMB HEM 201 E 1 
HETATM 20 C CAB HEM . . . V 3 -54.715 20.033 -4.577 1 2.48 ? CAB HEM 201 E 1 
HETATM 21 C CBB HEM . . . V 3 -54.13 18.924 -5.012 1 2.31 ? CBB HEM 201 E 1 
HETATM 22 C C1C HEM . . . V 3 -56.35 18.412 -0.751 1 2.24 ? C1C HEM 201 E 1 
HETATM 23 C C2C HEM . . . V 3 -55.586 17.954 0.394 1 2 ? C2C HEM 201 E 1 
HETATM 24 C C3C HEM . . . V 3 -56.453 17.489 1.285 1 3.21 ? C3C HEM 201 E 1 
HETATM 25 C C4C HEM . . . V 3 -57.793 17.641 0.746 1 3.76 ? C4C HEM 201 E 1 
HETATM 26 C CMC HEM . . . V 3 -54.053 17.987 0.566 1 2.23 ? CMC HEM 201 E 1 
HETATM 27 C CAC HEM . . . V 3 -56.101 16.894 2.661 1 3.81 ? CAC HEM 201 E 1 
HETATM 28 C CBC HEM . . . V 3 -55.65 15.643 2.748 1 6.33 ? CBC HEM 201 E 1 
HETATM 29 C C1D HEM . . . V 3 -60.252 17.605 1.081 1 5.04 ? C1D HEM 201 E 1 
HETATM 30 C C2D HEM . . . V 3 -61.388 17.246 1.904 1 5.4 ? C2D HEM 201 E 1 
HETATM 31 C C3D HEM . . . V 3 -62.596 17.828 1.191 1 6.08 ? C3D HEM 201 E 1 
HETATM 32 C C4D HEM . . . V 3 -62.081 18.485 0.013 1 4.36 ? C4D HEM 201 E 1 
HETATM 33 C CMD HEM . . . V 3 -61.362 16.436 3.222 1 4.43 ? CMD HEM 201 E 1 
HETATM 34 C CAD HEM . . . V 3 -64.067 17.739 1.662 1 9.37 ? CAD HEM 201 E 1 
HETATM 35 C CBD HEM . . . V 3 -64.117 18.384 3.068 1 13.87 ? CBD HEM 201 E 1 
HETATM 36 C CGD HEM . . . V 3 -65.517 18.742 3.521 1 16.53 ? CGD HEM 201 E 1 
HETATM 37 O O1D HEM . . . V 3 -66.192 17.834 4.095 1 17.1 ? O1D HEM 201 E 1 
HETATM 38 O O2D HEM . . . V 3 -65.932 19.928 3.313 1 17.65 ? O2D HEM 201 E 1 
HETATM 39 N NA HEM . . . V 3 -60.99 19.816 -2.407 1 4.25 ? NA HEM 201 E 1 
HETATM 40 N NB HEM . . . V 3 -58.022 19.757 -2.77 1 2.91 ? NB HEM 201 E 1 
HETATM 41 N NC HEM . . . V 3 -57.696 18.21 -0.506 1 3.45 ? NC HEM 201 E 1 
HETATM 42 N ND HEM . . . V 3 -60.696 18.332 -0.022 1 4.65 ? ND HEM 201 E 1 
HETATM 43 FE FE HEM . . . V 3 -59.26 19.19 -1.322 1 3.3 ? FE HEM 201 E 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           317 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           43 
#