data_8VFP
#
_model_server_result.job_id            ZF5yPhVMCZdjjSXWR1aezg 
_model_server_result.datetime_utc      '2025-01-25 08:27:30' 
_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          8vfp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":502}' 
#
_entry.id    8VFP 
#
_exptl.entry_id    8VFP 
_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    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          93.19 
_cell.angle_gamma         90 
_cell.entry_id            8VFP 
_cell.length_a            44.386 
_cell.length_b            51.495 
_cell.length_c            78.639 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8VFP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 359 A CYS 358 1_555 C FE HEM . A HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? 
metalc ? metalc2 C FE HEM . A HEM 502 1_555 D O HOH . A HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? 
#
_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 147 n n 
CHA C4D HEM doub 148 n n 
CHA HHA HEM sing 149 n n 
CHB C4A HEM sing 150 n n 
CHB C1B HEM doub 151 n n 
CHB HHB HEM sing 152 n n 
CHC C4B HEM sing 153 n n 
CHC C1C HEM doub 154 n n 
CHC HHC HEM sing 155 n n 
CHD C4C HEM doub 156 n n 
CHD C1D HEM sing 157 n n 
CHD HHD HEM sing 158 n n 
C1A C2A HEM doub 159 n y 
C1A NA HEM sing 160 n y 
C2A C3A HEM sing 161 n y 
C2A CAA HEM sing 162 n n 
C3A C4A HEM doub 163 n y 
C3A CMA HEM sing 164 n n 
C4A NA HEM sing 165 n y 
CMA HMA HEM sing 166 n n 
CMA HMAA HEM sing 167 n n 
CMA HMAB HEM sing 168 n n 
CAA CBA HEM sing 169 n n 
CAA HAA HEM sing 170 n n 
CAA HAAA HEM sing 171 n n 
CBA CGA HEM sing 172 n n 
CBA HBA HEM sing 173 n n 
CBA HBAA HEM sing 174 n n 
CGA O1A HEM doub 175 n n 
CGA O2A HEM sing 176 n n 
C1B C2B HEM sing 177 n n 
C1B NB HEM sing 178 n n 
C2B C3B HEM doub 179 n n 
C2B CMB HEM sing 180 n n 
C3B C4B HEM sing 181 n n 
C3B CAB HEM sing 182 n n 
C4B NB HEM doub 183 n n 
CMB HMB HEM sing 184 n n 
CMB HMBA HEM sing 185 n n 
CMB HMBB HEM sing 186 n n 
CAB CBB HEM doub 187 n n 
CAB HAB HEM sing 188 n n 
CBB HBB HEM sing 189 n n 
CBB HBBA HEM sing 190 n n 
C1C C2C HEM sing 191 n y 
C1C NC HEM sing 192 n y 
C2C C3C HEM doub 193 n y 
C2C CMC HEM sing 194 n n 
C3C C4C HEM sing 195 n y 
C3C CAC HEM sing 196 n n 
C4C NC HEM sing 197 n y 
CMC HMC HEM sing 198 n n 
CMC HMCA HEM sing 199 n n 
CMC HMCB HEM sing 200 n n 
CAC CBC HEM doub 201 n n 
CAC HAC HEM sing 202 n n 
CBC HBC HEM sing 203 n n 
CBC HBCA HEM sing 204 n n 
C1D C2D HEM sing 205 n n 
C1D ND HEM doub 206 n n 
C2D C3D HEM doub 207 n n 
C2D CMD HEM sing 208 n n 
C3D C4D HEM sing 209 n n 
C3D CAD HEM sing 210 n n 
C4D ND HEM sing 211 n n 
CMD HMD HEM sing 212 n n 
CMD HMDA HEM sing 213 n n 
CMD HMDB HEM sing 214 n n 
CAD CBD HEM sing 215 n n 
CAD HAD HEM sing 216 n n 
CAD HADA HEM sing 217 n n 
CBD CGD HEM sing 218 n n 
CBD HBD HEM sing 219 n n 
CBD HBDA HEM sing 220 n n 
CGD O1D HEM doub 221 n n 
CGD O2D HEM sing 222 n n 
O2A H2A HEM sing 223 n n 
O2D H2D HEM sing 224 n n 
FE NA HEM sing 225 n n 
FE NB HEM sing 226 n n 
FE NC HEM sing 227 n n 
FE ND HEM sing 228 n n 
#
_atom_sites.entry_id                     8VFP 
_atom_sites.fract_transf_matrix[1][1]    0.02253 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001256 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.019419 
_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]    0.012736 
_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
B 2 4MA A 1 501 1 4MA 4MA . 
C 3 HEM A 1 502 501 HEM HEM . 
D 4 HOH A 1 601 62 HOH HOH . 
D 4 HOH A 2 602 49 HOH HOH . 
D 4 HOH A 3 603 2 HOH HOH . 
D 4 HOH A 4 604 46 HOH HOH . 
D 4 HOH A 5 605 39 HOH HOH . 
D 4 HOH A 6 606 50 HOH HOH . 
D 4 HOH A 7 607 56 HOH HOH . 
D 4 HOH A 8 608 1 HOH HOH . 
D 4 HOH A 9 609 15 HOH HOH . 
D 4 HOH A 10 610 23 HOH HOH . 
D 4 HOH A 11 611 3 HOH HOH . 
D 4 HOH A 12 612 47 HOH HOH . 
D 4 HOH A 13 613 59 HOH HOH . 
D 4 HOH A 14 614 13 HOH HOH . 
D 4 HOH A 15 615 48 HOH HOH . 
D 4 HOH A 16 616 32 HOH HOH . 
D 4 HOH A 17 617 10 HOH HOH . 
D 4 HOH A 18 618 60 HOH HOH . 
D 4 HOH A 19 619 33 HOH HOH . 
D 4 HOH A 20 620 51 HOH HOH . 
D 4 HOH A 21 621 35 HOH HOH . 
D 4 HOH A 22 622 28 HOH HOH . 
D 4 HOH A 23 623 42 HOH HOH . 
D 4 HOH A 24 624 43 HOH HOH . 
D 4 HOH A 25 625 36 HOH HOH . 
D 4 HOH A 26 626 24 HOH HOH . 
D 4 HOH A 27 627 58 HOH HOH . 
D 4 HOH A 28 628 16 HOH HOH . 
D 4 HOH A 29 629 6 HOH HOH . 
D 4 HOH A 30 630 9 HOH HOH . 
D 4 HOH A 31 631 4 HOH HOH . 
D 4 HOH A 32 632 38 HOH HOH . 
D 4 HOH A 33 633 52 HOH HOH . 
D 4 HOH A 34 634 12 HOH HOH . 
D 4 HOH A 35 635 30 HOH HOH . 
D 4 HOH A 36 636 53 HOH HOH . 
D 4 HOH A 37 637 5 HOH HOH . 
D 4 HOH A 38 638 37 HOH HOH . 
D 4 HOH A 39 639 14 HOH HOH . 
D 4 HOH A 40 640 22 HOH HOH . 
D 4 HOH A 41 641 17 HOH HOH . 
D 4 HOH A 42 642 55 HOH HOH . 
D 4 HOH A 43 643 31 HOH HOH . 
D 4 HOH A 44 644 19 HOH HOH . 
D 4 HOH A 45 645 29 HOH HOH . 
D 4 HOH A 46 646 34 HOH HOH . 
D 4 HOH A 47 647 18 HOH HOH . 
D 4 HOH A 48 648 57 HOH HOH . 
D 4 HOH A 49 649 61 HOH HOH . 
D 4 HOH A 50 650 63 HOH HOH . 
D 4 HOH A 51 651 70 HOH HOH . 
D 4 HOH A 52 652 44 HOH HOH . 
D 4 HOH A 53 653 25 HOH HOH . 
D 4 HOH A 54 654 8 HOH HOH . 
D 4 HOH A 55 655 21 HOH HOH . 
D 4 HOH A 56 656 20 HOH HOH . 
D 4 HOH A 57 657 7 HOH HOH . 
D 4 HOH A 58 658 45 HOH HOH . 
D 4 HOH A 59 659 64 HOH HOH . 
D 4 HOH A 60 660 65 HOH HOH . 
D 4 HOH A 61 661 11 HOH HOH . 
D 4 HOH A 62 662 40 HOH HOH . 
D 4 HOH A 63 663 76 HOH HOH . 
D 4 HOH A 64 664 54 HOH HOH . 
D 4 HOH A 65 665 67 HOH HOH . 
D 4 HOH A 66 666 41 HOH HOH . 
D 4 HOH A 67 667 75 HOH HOH . 
D 4 HOH A 68 668 66 HOH HOH . 
D 4 HOH A 69 669 72 HOH HOH . 
D 4 HOH A 70 670 26 HOH HOH . 
D 4 HOH A 71 671 68 HOH HOH . 
D 4 HOH A 72 672 74 HOH HOH . 
D 4 HOH A 73 673 27 HOH HOH . 
D 4 HOH A 74 674 77 HOH HOH . 
D 4 HOH A 75 675 71 HOH HOH . 
D 4 HOH A 76 676 73 HOH HOH . 
D 4 HOH A 77 677 69 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 . . . C 3 0.549 -1.045 15.981 1 29.17 ? CHA HEM 502 A 1 
HETATM 2 C CHB HEM . . . C 3 2.658 -5.071 17.705 1 28.47 ? CHB HEM 502 A 1 
HETATM 3 C CHC HEM . . . C 3 5.613 -5.015 13.851 1 31.89 ? CHC HEM 502 A 1 
HETATM 4 C CHD HEM . . . C 3 4.352 -0.404 13.024 1 28.68 ? CHD HEM 502 A 1 
HETATM 5 C C1A HEM . . . C 3 0.791 -2.169 16.748 1 28.71 ? C1A HEM 502 A 1 
HETATM 6 C C2A HEM . . . C 3 -0.018 -2.675 17.842 1 28.59 ? C2A HEM 502 A 1 
HETATM 7 C C3A HEM . . . C 3 0.567 -3.784 18.315 1 29.23 ? C3A HEM 502 A 1 
HETATM 8 C C4A HEM . . . C 3 1.768 -4.028 17.541 1 29.98 ? C4A HEM 502 A 1 
HETATM 9 C CMA HEM . . . C 3 0.057 -4.659 19.482 1 26.98 ? CMA HEM 502 A 1 
HETATM 10 C CAA HEM . . . C 3 -1.326 -2.037 18.372 1 28.59 ? CAA HEM 502 A 1 
HETATM 11 C CBA HEM . . . C 3 -1.002 -0.859 19.291 1 27.3 ? CBA HEM 502 A 1 
HETATM 12 C CGA HEM . . . C 3 -2.265 -0.265 19.867 1 29.44 ? CGA HEM 502 A 1 
HETATM 13 O O1A HEM . . . C 3 -2.179 0.652 20.726 1 28.57 ? O1A HEM 502 A 1 
HETATM 14 O O2A HEM . . . C 3 -3.374 -0.707 19.472 1 30.67 ? O2A HEM 502 A 1 
HETATM 15 C C1B HEM . . . C 3 3.608 -5.457 16.777 1 30.78 ? C1B HEM 502 A 1 
HETATM 16 C C2B HEM . . . C 3 4.353 -6.703 16.767 1 31.05 ? C2B HEM 502 A 1 
HETATM 17 C C3B HEM . . . C 3 5.177 -6.686 15.697 1 30.67 ? C3B HEM 502 A 1 
HETATM 18 C C4B HEM . . . C 3 4.969 -5.429 15.001 1 29.89 ? C4B HEM 502 A 1 
HETATM 19 C CMB HEM . . . C 3 4.176 -7.805 17.841 1 27.35 ? CMB HEM 502 A 1 
HETATM 20 C CAB HEM . . . C 3 6.191 -7.751 15.198 1 30.72 ? CAB HEM 502 A 1 
HETATM 21 C CBB HEM . . . C 3 6.395 -8.947 15.758 1 28.01 ? CBB HEM 502 A 1 
HETATM 22 C C1C HEM . . . C 3 5.544 -3.76 13.275 1 30.51 ? C1C HEM 502 A 1 
HETATM 23 C C2C HEM . . . C 3 6.278 -3.303 12.108 1 29.31 ? C2C HEM 502 A 1 
HETATM 24 C C3C HEM . . . C 3 5.929 -2.024 11.875 1 28.61 ? C3C HEM 502 A 1 
HETATM 25 C C4C HEM . . . C 3 4.963 -1.638 12.889 1 29.91 ? C4C HEM 502 A 1 
HETATM 26 C CMC HEM . . . C 3 7.27 -4.196 11.324 1 28.93 ? CMC HEM 502 A 1 
HETATM 27 C CAC HEM . . . C 3 6.405 -1.058 10.76 1 30.59 ? CAC HEM 502 A 1 
HETATM 28 C CBC HEM . . . C 3 7.261 -1.379 9.786 1 31.13 ? CBC HEM 502 A 1 
HETATM 29 C C1D HEM . . . C 3 3.215 -0.153 13.764 1 29.09 ? C1D HEM 502 A 1 
HETATM 30 C C2D HEM . . . C 3 2.496 1.103 13.861 1 31.06 ? C2D HEM 502 A 1 
HETATM 31 C C3D HEM . . . C 3 1.452 0.92 14.675 1 28.2 ? C3D HEM 502 A 1 
HETATM 32 C C4D HEM . . . C 3 1.457 -0.454 15.126 1 27.82 ? C4D HEM 502 A 1 
HETATM 33 C CMD HEM . . . C 3 2.867 2.428 13.155 1 30.28 ? CMD HEM 502 A 1 
HETATM 34 C CAD HEM . . . C 3 0.401 1.978 15.06 1 29.78 ? CAD HEM 502 A 1 
HETATM 35 C CBD HEM . . . C 3 -0.785 1.755 14.125 1 30.19 ? CBD HEM 502 A 1 
HETATM 36 C CGD HEM . . . C 3 -2.031 2.416 14.654 1 28.79 ? CGD HEM 502 A 1 
HETATM 37 O O1D HEM . . . C 3 -3.058 2.419 13.931 1 29.95 ? O1D HEM 502 A 1 
HETATM 38 O O2D HEM . . . C 3 -2.001 2.945 15.793 1 28.45 ? O2D HEM 502 A 1 
HETATM 39 N NA HEM . . . C 3 1.869 -3.021 16.596 1 29.59 ? NA HEM 502 A 1 
HETATM 40 N NB HEM . . . C 3 4.01 -4.71 15.685 1 30.47 ? NB HEM 502 A 1 
HETATM 41 N NC HEM . . . C 3 4.757 -2.721 13.721 1 29.07 ? NC HEM 502 A 1 
HETATM 42 N ND HEM . . . C 3 2.549 -1.074 14.551 1 30.08 ? ND HEM 502 A 1 
HETATM 43 FE FE HEM . . . C 3 3.238 -2.922 15.078 1 26.63 ? FE HEM 502 A 1 
#
_model_server_stats.io_time_ms              42 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           249 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           43 
#