data_1JY7
#
_model_server_result.job_id            2H-uuPZ9MKV1jVuvycI7Dw 
_model_server_result.datetime_utc      '2024-11-05 00:39:02' 
_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          1jy7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"O","auth_seq_id":142}' 
#
_entry.id    1JY7 
#
_exptl.entry_id    1JY7 
_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    12 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          101.2 
_cell.angle_gamma         90 
_cell.entry_id            1JY7 
_cell.length_a            231.5 
_cell.length_b            57.9 
_cell.length_c            143.4 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1JY7 
_symmetry.cell_setting             monoclinic 
_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 1 1 
E,F,G,H,Q,R,S,T 2 1 
I,J,K,L,U,V,W,X 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
? 3 M N N 
? 3 N N N 
? 3 O N N 
? 3 P N N 
? 3 Q N N 
? 3 R N N 
? 3 S N N 
? 3 T N N 
? 3 U N N 
? 3 V N N 
? 3 W N N 
? 3 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 FE HEM . A HEM 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? 
metalc ? metalc2 B NE2 HIS 92 B HIS 92 1_555 N FE HEM . B HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.469 ? 
metalc ? metalc3 C NE2 HIS 87 C HIS 87 1_555 O FE HEM . C HEM 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? 
metalc ? metalc4 D NE2 HIS 92 D HIS 92 1_555 P FE HEM . D HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? 
metalc ? metalc5 E NE2 HIS 87 P HIS 87 1_555 Q FE HEM . P HEM 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? 
metalc ? metalc6 F NE2 HIS 92 Q HIS 92 1_555 R FE HEM . Q HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? 
metalc ? metalc7 G NE2 HIS 87 R HIS 87 1_555 S FE HEM . R HEM 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? 
metalc ? metalc8 H NE2 HIS 92 S HIS 92 1_555 T FE HEM . S HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? 
metalc ? metalc9 I NE2 HIS 87 U HIS 87 1_555 U FE HEM . U HEM 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? 
metalc ? metalc10 J NE2 HIS 92 V HIS 92 1_555 V FE HEM . V HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? 
metalc ? metalc11 K NE2 HIS 87 W HIS 87 1_555 W FE HEM . W HEM 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? 
metalc ? metalc12 L NE2 HIS 92 X HIS 92 1_555 X FE HEM . X HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? 
#
_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                     1JY7 
_atom_sites.fract_transf_matrix[1][1]    0.004316 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000878 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017331 
_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]    0.007116 
_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 HEM A 1 142 142 HEM HEM . 
N 3 HEM B 1 147 147 HEM HEM . 
O 3 HEM C 1 142 142 HEM HEM . 
P 3 HEM D 1 147 147 HEM HEM . 
Q 3 HEM P 1 142 142 HEM HEM . 
R 3 HEM Q 1 147 147 HEM HEM . 
S 3 HEM R 1 142 142 HEM HEM . 
T 3 HEM S 1 147 147 HEM HEM . 
U 3 HEM U 1 142 142 HEM HEM . 
V 3 HEM V 1 147 147 HEM HEM . 
W 3 HEM W 1 142 142 HEM HEM . 
X 3 HEM X 1 147 147 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 . . . O 3 9.625 -20.53 30.613 1 31.75 ? CHA HEM 142 C 1 
HETATM 2 C CHB HEM . . . O 3 4.893 -19.982 30.957 1 31.75 ? CHB HEM 142 C 1 
HETATM 3 C CHC HEM . . . O 3 5.381 -15.257 31.207 1 31.75 ? CHC HEM 142 C 1 
HETATM 4 C CHD HEM . . . O 3 10.101 -15.717 30.297 1 31.75 ? CHD HEM 142 C 1 
HETATM 5 C C1A HEM . . . O 3 8.281 -20.763 30.616 1 31.75 ? C1A HEM 142 C 1 
HETATM 6 C C2A HEM . . . O 3 7.698 -22.078 30.637 1 31.75 ? C2A HEM 142 C 1 
HETATM 7 C C3A HEM . . . O 3 6.366 -21.933 30.591 1 31.75 ? C3A HEM 142 C 1 
HETATM 8 C C4A HEM . . . O 3 6.118 -20.51 30.702 1 31.75 ? C4A HEM 142 C 1 
HETATM 9 C CMA HEM . . . O 3 5.376 -23.071 30.407 1 31.75 ? CMA HEM 142 C 1 
HETATM 10 C CAA HEM . . . O 3 8.349 -23.319 31.128 1 31.75 ? CAA HEM 142 C 1 
HETATM 11 C CBA HEM . . . O 3 9.128 -24.2 30.203 1 31.75 ? CBA HEM 142 C 1 
HETATM 12 C CGA HEM . . . O 3 9.925 -25.236 30.972 1 31.75 ? CGA HEM 142 C 1 
HETATM 13 O O1A HEM . . . O 3 9.315 -26.023 31.748 1 31.75 ? O1A HEM 142 C 1 
HETATM 14 O O2A HEM . . . O 3 11.169 -25.246 30.79 1 31.75 ? O2A HEM 142 C 1 
HETATM 15 C C1B HEM . . . O 3 4.653 -18.641 31.13 1 31.75 ? C1B HEM 142 C 1 
HETATM 16 C C2B HEM . . . O 3 3.318 -18.104 31.368 1 31.75 ? C2B HEM 142 C 1 
HETATM 17 C C3B HEM . . . O 3 3.457 -16.768 31.443 1 31.75 ? C3B HEM 142 C 1 
HETATM 18 C C4B HEM . . . O 3 4.866 -16.509 31.236 1 31.75 ? C4B HEM 142 C 1 
HETATM 19 C CMB HEM . . . O 3 1.967 -18.855 31.388 1 31.75 ? CMB HEM 142 C 1 
HETATM 20 C CAB HEM . . . O 3 2.403 -15.853 31.571 1 31.75 ? CAB HEM 142 C 1 
HETATM 21 C CBB HEM . . . O 3 1.344 -15.796 30.649 1 31.75 ? CBB HEM 142 C 1 
HETATM 22 C C1C HEM . . . O 3 6.688 -14.985 30.89 1 31.75 ? C1C HEM 142 C 1 
HETATM 23 C C2C HEM . . . O 3 7.208 -13.619 30.754 1 31.75 ? C2C HEM 142 C 1 
HETATM 24 C C3C HEM . . . O 3 8.582 -13.733 30.502 1 31.75 ? C3C HEM 142 C 1 
HETATM 25 C C4C HEM . . . O 3 8.853 -15.186 30.444 1 31.75 ? C4C HEM 142 C 1 
HETATM 26 C CMC HEM . . . O 3 6.388 -12.321 30.78 1 31.75 ? CMC HEM 142 C 1 
HETATM 27 C CAC HEM . . . O 3 9.504 -12.653 30.36 1 31.75 ? CAC HEM 142 C 1 
HETATM 28 C CBC HEM . . . O 3 9.548 -11.834 29.242 1 31.75 ? CBC HEM 142 C 1 
HETATM 29 C C1D HEM . . . O 3 10.351 -17.093 30.31 1 31.75 ? C1D HEM 142 C 1 
HETATM 30 C C2D HEM . . . O 3 11.72 -17.67 30.213 1 31.75 ? C2D HEM 142 C 1 
HETATM 31 C C3D HEM . . . O 3 11.603 -19.024 30.374 1 31.75 ? C3D HEM 142 C 1 
HETATM 32 C C4D HEM . . . O 3 10.156 -19.27 30.555 1 31.75 ? C4D HEM 142 C 1 
HETATM 33 C CMD HEM . . . O 3 13.02 -16.919 29.853 1 31.75 ? CMD HEM 142 C 1 
HETATM 34 C CAD HEM . . . O 3 12.76 -20.05 30.188 1 31.75 ? CAD HEM 142 C 1 
HETATM 35 C CBD HEM . . . O 3 12.965 -20.506 28.72 1 31.75 ? CBD HEM 142 C 1 
HETATM 36 C CGD HEM . . . O 3 14.107 -21.544 28.535 1 31.75 ? CGD HEM 142 C 1 
HETATM 37 O O1D HEM . . . O 3 15.322 -21.146 28.572 1 31.75 ? O1D HEM 142 C 1 
HETATM 38 O O2D HEM . . . O 3 13.779 -22.763 28.351 1 31.75 ? O2D HEM 142 C 1 
HETATM 39 N NA HEM . . . O 3 7.294 -19.79 30.675 1 31.75 ? NA HEM 142 C 1 
HETATM 40 N NB HEM . . . O 3 5.582 -17.659 31.031 1 31.75 ? NB HEM 142 C 1 
HETATM 41 N NC HEM . . . O 3 7.684 -15.942 30.644 1 31.75 ? NC HEM 142 C 1 
HETATM 42 N ND HEM . . . O 3 9.4 -18.099 30.493 1 31.75 ? ND HEM 142 C 1 
HETATM 43 FE FE HEM . . . O 3 7.47 -17.895 30.67 1 31.75 ? FE HEM 142 C 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    27 
_model_server_stats.query_time_ms           332 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           43 
#