data_4ZF8
#
_model_server_result.job_id            ShdlfzfGg7afN12-NVYBgw 
_model_server_result.datetime_utc      '2024-11-26 19:50:56' 
_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          4zf8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":501}' 
#
_entry.id    4ZF8 
#
_exptl.entry_id    4ZF8 
_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    1 
_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            4ZF8 
_cell.length_a            55.899 
_cell.length_b            55.899 
_cell.length_c            711.033 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4ZF8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        179 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 65 2 2' 
#
_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,E,F,G,H 
_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                      2 
_struct_asym.id                             B 
_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 N THR 2 A THR 1 1_555 D NI NI . A NI 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.521 ? 
metalc ? metalc2 A OG1 THR 2 A THR 1 1_555 D NI NI . A NI 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
metalc ? metalc3 A NE2 HIS 139 A HIS 138 1_555 E NI NI . A NI 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? 
metalc ? metalc4 A OD1 ASP 215 A ASP 214 1_555 G NI NI . A NI 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? 
metalc ? metalc5 A NE2 HIS 237 A HIS 236 1_555 F NI NI . A NI 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? 
metalc ? metalc6 A NE2 HIS 286 A HIS 285 1_555 G NI NI . A NI 506 1_445 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? 
metalc ? metalc7 A OD2 ASP 339 A ASP 338 1_555 D NI NI . A NI 503 10_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.201 ? 
metalc ? metalc8 A OE1 GLU 349 A GLU 348 1_555 D NI NI . A NI 503 10_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? 
metalc ? metalc9 A SG CYS 401 A CYS 400 1_555 B FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? 
metalc ? metalc10 A NE2 HIS 427 A HIS 426 1_555 E NI NI . A NI 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? 
metalc ? metalc11 B FE HEM . A HEM 501 1_555 C N14 MYT . A MYT 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.616 ? 
#
_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                     4ZF8 
_atom_sites.fract_transf_matrix[1][1]    0.017889 
_atom_sites.fract_transf_matrix[1][2]    0.010328 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.020657 
_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]    0.001406 
_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 HEM A 1 501 500 HEM HEM . 
C 3 MYT A 1 502 501 MYT MYT . 
D 4 NI A 1 503 601 NI NI . 
E 4 NI A 1 504 602 NI NI . 
F 4 NI A 1 505 603 NI NI . 
G 4 NI A 1 506 604 NI NI . 
H 5 HOH A 1 601 752 HOH HOH . 
H 5 HOH A 2 602 720 HOH HOH . 
H 5 HOH A 3 603 751 HOH HOH . 
H 5 HOH A 4 604 703 HOH HOH . 
H 5 HOH A 5 605 704 HOH HOH . 
H 5 HOH A 6 606 754 HOH HOH . 
H 5 HOH A 7 607 713 HOH HOH . 
H 5 HOH A 8 608 719 HOH HOH . 
H 5 HOH A 9 609 717 HOH HOH . 
H 5 HOH A 10 610 749 HOH HOH . 
H 5 HOH A 11 611 743 HOH HOH . 
H 5 HOH A 12 612 782 HOH HOH . 
H 5 HOH A 13 613 733 HOH HOH . 
H 5 HOH A 14 614 768 HOH HOH . 
H 5 HOH A 15 615 783 HOH HOH . 
H 5 HOH A 16 616 770 HOH HOH . 
H 5 HOH A 17 617 739 HOH HOH . 
H 5 HOH A 18 618 737 HOH HOH . 
H 5 HOH A 19 619 707 HOH HOH . 
H 5 HOH A 20 620 750 HOH HOH . 
H 5 HOH A 21 621 718 HOH HOH . 
H 5 HOH A 22 622 774 HOH HOH . 
H 5 HOH A 23 623 773 HOH HOH . 
H 5 HOH A 24 624 729 HOH HOH . 
H 5 HOH A 25 625 744 HOH HOH . 
H 5 HOH A 26 626 725 HOH HOH . 
H 5 HOH A 27 627 710 HOH HOH . 
H 5 HOH A 28 628 766 HOH HOH . 
H 5 HOH A 29 629 723 HOH HOH . 
H 5 HOH A 30 630 721 HOH HOH . 
H 5 HOH A 31 631 727 HOH HOH . 
H 5 HOH A 32 632 702 HOH HOH . 
H 5 HOH A 33 633 759 HOH HOH . 
H 5 HOH A 34 634 778 HOH HOH . 
H 5 HOH A 35 635 715 HOH HOH . 
H 5 HOH A 36 636 716 HOH HOH . 
H 5 HOH A 37 637 709 HOH HOH . 
H 5 HOH A 38 638 732 HOH HOH . 
H 5 HOH A 39 639 711 HOH HOH . 
H 5 HOH A 40 640 706 HOH HOH . 
H 5 HOH A 41 641 728 HOH HOH . 
H 5 HOH A 42 642 734 HOH HOH . 
H 5 HOH A 43 643 701 HOH HOH . 
H 5 HOH A 44 644 731 HOH HOH . 
H 5 HOH A 45 645 775 HOH HOH . 
H 5 HOH A 46 646 730 HOH HOH . 
H 5 HOH A 47 647 714 HOH HOH . 
H 5 HOH A 48 648 740 HOH HOH . 
H 5 HOH A 49 649 726 HOH HOH . 
H 5 HOH A 50 650 772 HOH HOH . 
H 5 HOH A 51 651 756 HOH HOH . 
H 5 HOH A 52 652 735 HOH HOH . 
H 5 HOH A 53 653 742 HOH HOH . 
H 5 HOH A 54 654 771 HOH HOH . 
H 5 HOH A 55 655 757 HOH HOH . 
H 5 HOH A 56 656 765 HOH HOH . 
H 5 HOH A 57 657 722 HOH HOH . 
H 5 HOH A 58 658 712 HOH HOH . 
H 5 HOH A 59 659 762 HOH HOH . 
H 5 HOH A 60 660 760 HOH HOH . 
H 5 HOH A 61 661 745 HOH HOH . 
H 5 HOH A 62 662 755 HOH HOH . 
H 5 HOH A 63 663 748 HOH HOH . 
H 5 HOH A 64 664 779 HOH HOH . 
H 5 HOH A 65 665 705 HOH HOH . 
H 5 HOH A 66 666 741 HOH HOH . 
H 5 HOH A 67 667 708 HOH HOH . 
H 5 HOH A 68 668 746 HOH HOH . 
H 5 HOH A 69 669 780 HOH HOH . 
H 5 HOH A 70 670 724 HOH HOH . 
H 5 HOH A 71 671 758 HOH HOH . 
H 5 HOH A 72 672 747 HOH HOH . 
H 5 HOH A 73 673 763 HOH HOH . 
H 5 HOH A 74 674 776 HOH HOH . 
H 5 HOH A 75 675 738 HOH HOH . 
H 5 HOH A 76 676 777 HOH HOH . 
H 5 HOH A 77 677 764 HOH HOH . 
H 5 HOH A 78 678 769 HOH HOH . 
H 5 HOH A 79 679 761 HOH HOH . 
H 5 HOH A 80 680 753 HOH HOH . 
H 5 HOH A 81 681 736 HOH HOH . 
H 5 HOH A 82 682 767 HOH HOH . 
H 5 HOH A 83 683 781 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 . . . B 2 8.787 0.358 31.134 1 43.87 ? CHA HEM 501 A 1 
HETATM 2 C CHB HEM . . . B 2 8.43 -3.968 28.961 1 47.34 ? CHB HEM 501 A 1 
HETATM 3 C CHC HEM . . . B 2 6.213 -1.902 25.175 1 41.23 ? CHC HEM 501 A 1 
HETATM 4 C CHD HEM . . . B 2 7.612 2.422 26.857 1 44.28 ? CHD HEM 501 A 1 
HETATM 5 C C1A HEM . . . B 2 8.869 -0.999 30.896 1 47.62 ? C1A HEM 501 A 1 
HETATM 6 C C2A HEM . . . B 2 9.4 -2.004 31.799 1 48.43 ? C2A HEM 501 A 1 
HETATM 7 C C3A HEM . . . B 2 9.302 -3.194 31.197 1 47.72 ? C3A HEM 501 A 1 
HETATM 8 C C4A HEM . . . B 2 8.702 -2.991 29.892 1 46.96 ? C4A HEM 501 A 1 
HETATM 9 C CMA HEM . . . B 2 9.747 -4.552 31.783 1 42.64 ? CMA HEM 501 A 1 
HETATM 10 C CAA HEM . . . B 2 9.986 -1.751 33.207 1 44.2 ? CAA HEM 501 A 1 
HETATM 11 C CBA HEM . . . B 2 11.356 -1.09 33.082 1 43.78 ? CBA HEM 501 A 1 
HETATM 12 C CGA HEM . . . B 2 12.088 -1.15 34.399 1 52.26 ? CGA HEM 501 A 1 
HETATM 13 O O1A HEM . . . B 2 13.319 -0.889 34.407 1 49.32 ? O1A HEM 501 A 1 
HETATM 14 O O2A HEM . . . B 2 11.45 -1.464 35.437 1 48.35 ? O2A HEM 501 A 1 
HETATM 15 C C1B HEM . . . B 2 7.758 -3.79 27.771 1 47.2 ? C1B HEM 501 A 1 
HETATM 16 C C2B HEM . . . B 2 7.315 -4.848 26.887 1 44.77 ? C2B HEM 501 A 1 
HETATM 17 C C3B HEM . . . B 2 6.703 -4.281 25.831 1 43.08 ? C3B HEM 501 A 1 
HETATM 18 C C4B HEM . . . B 2 6.736 -2.846 26.03 1 41.72 ? C4B HEM 501 A 1 
HETATM 19 C CMB HEM . . . B 2 7.558 -6.346 27.179 1 42.48 ? CMB HEM 501 A 1 
HETATM 20 C CAB HEM . . . B 2 6.036 -4.939 24.593 1 42.08 ? CAB HEM 501 A 1 
HETATM 21 C CBB HEM . . . B 2 5.831 -6.253 24.445 1 42.11 ? CBB HEM 501 A 1 
HETATM 22 C C1C HEM . . . B 2 6.362 -0.541 25.316 1 41.38 ? C1C HEM 501 A 1 
HETATM 23 C C2C HEM . . . B 2 5.764 0.477 24.477 1 44.17 ? C2C HEM 501 A 1 
HETATM 24 C C3C HEM . . . B 2 6.157 1.678 24.942 1 41.29 ? C3C HEM 501 A 1 
HETATM 25 C C4C HEM . . . B 2 7.007 1.446 26.094 1 42.04 ? C4C HEM 501 A 1 
HETATM 26 C CMC HEM . . . B 2 4.854 0.156 23.269 1 43.89 ? CMC HEM 501 A 1 
HETATM 27 C CAC HEM . . . B 2 5.816 3.105 24.435 1 41.85 ? CAC HEM 501 A 1 
HETATM 28 C CBC HEM . . . B 2 4.933 3.391 23.472 1 42.02 ? CBC HEM 501 A 1 
HETATM 29 C C1D HEM . . . B 2 8.013 2.308 28.171 1 42.95 ? C1D HEM 501 A 1 
HETATM 30 C C2D HEM . . . B 2 8.364 3.408 29.042 1 40.3 ? C2D HEM 501 A 1 
HETATM 31 C C3D HEM . . . B 2 8.737 2.757 30.384 1 44.02 ? C3D HEM 501 A 1 
HETATM 32 C C4D HEM . . . B 2 8.564 1.335 30.186 1 42.4 ? C4D HEM 501 A 1 
HETATM 33 C CMD HEM . . . B 2 8.371 4.911 28.683 1 39.56 ? CMD HEM 501 A 1 
HETATM 34 C CAD HEM . . . B 2 9.18 3.464 31.685 1 46.67 ? CAD HEM 501 A 1 
HETATM 35 C CBD HEM . . . B 2 8.023 4.342 32.157 1 46.09 ? CBD HEM 501 A 1 
HETATM 36 C CGD HEM . . . B 2 8.268 4.866 33.546 1 47.16 ? CGD HEM 501 A 1 
HETATM 37 O O1D HEM . . . B 2 7.632 5.887 33.914 1 49.28 ? O1D HEM 501 A 1 
HETATM 38 O O2D HEM . . . B 2 9.098 4.27 34.281 1 45.84 ? O2D HEM 501 A 1 
HETATM 39 N NA HEM . . . B 2 8.449 -1.641 29.745 1 43.54 ? NA HEM 501 A 1 
HETATM 40 N NB HEM . . . B 2 7.387 -2.581 27.217 1 43.03 ? NB HEM 501 A 1 
HETATM 41 N NC HEM . . . B 2 7.111 0.086 26.292 1 40.52 ? NC HEM 501 A 1 
HETATM 42 N ND HEM . . . B 2 8.142 1.116 28.878 1 46.1 ? ND HEM 501 A 1 
HETATM 43 FE FE HEM . . . B 2 7.601 -0.74 28.09 1 37.77 ? FE HEM 501 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           352 
_model_server_stats.encode_time_ms          15 
_model_server_stats.element_count           43 
#