data_4ZVB
#
_model_server_result.job_id            swQZkIvHWR5hoZGHFEFcJQ 
_model_server_result.datetime_utc      '2024-11-29 16:40:32' 
_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          4zvb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":201}' 
#
_entry.id    4ZVB 
#
_exptl.entry_id    4ZVB 
_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    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         79.52 
_cell.angle_beta          75.69 
_cell.angle_gamma         75.29 
_cell.entry_id            4ZVB 
_cell.length_a            47.96 
_cell.length_b            58.27 
_cell.length_c            59.4 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4ZVB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 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
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,I,J 1 1 
C,D,G,H,K,L 2 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 E N N 
? 2 F N N 
? 2 G N N 
? 2 H 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 98 A HIS 98 1_555 E FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? 
metalc ? metalc2 B NE2 HIS 98 B HIS 98 1_555 F FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? 
metalc ? metalc3 C NE2 HIS 98 C HIS 98 1_555 G FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? 
metalc ? metalc4 D NE2 HIS 98 D HIS 98 1_555 H FE HEM . D HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? 
#
_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                     4ZVB 
_atom_sites.fract_transf_matrix[1][1]    0.020851 
_atom_sites.fract_transf_matrix[1][2]    -0.005473 
_atom_sites.fract_transf_matrix[1][3]    -0.00466 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017743 
_atom_sites.fract_transf_matrix[2][3]    -0.002274 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.017516 
_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
E 2 HEM A 1 201 1 HEM HEM . 
F 2 HEM B 1 201 1 HEM HEM . 
G 2 HEM C 1 201 1 HEM HEM . 
H 2 HEM D 1 201 1 HEM HEM . 
I 3 HOH A 1 301 2 HOH HOH . 
I 3 HOH A 2 302 34 HOH HOH . 
I 3 HOH A 3 303 38 HOH HOH . 
I 3 HOH A 4 304 17 HOH HOH . 
I 3 HOH A 5 305 19 HOH HOH . 
I 3 HOH A 6 306 30 HOH HOH . 
I 3 HOH A 7 307 40 HOH HOH . 
I 3 HOH A 8 308 5 HOH HOH . 
I 3 HOH A 9 309 70 HOH HOH . 
I 3 HOH A 10 310 42 HOH HOH . 
I 3 HOH A 11 311 15 HOH HOH . 
I 3 HOH A 12 312 16 HOH HOH . 
I 3 HOH A 13 313 75 HOH HOH . 
I 3 HOH A 14 314 13 HOH HOH . 
I 3 HOH A 15 315 55 HOH HOH . 
I 3 HOH A 16 316 62 HOH HOH . 
I 3 HOH A 17 317 81 HOH HOH . 
I 3 HOH A 18 318 92 HOH HOH . 
J 3 HOH B 1 301 35 HOH HOH . 
J 3 HOH B 2 302 77 HOH HOH . 
J 3 HOH B 3 303 67 HOH HOH . 
J 3 HOH B 4 304 31 HOH HOH . 
J 3 HOH B 5 305 26 HOH HOH . 
J 3 HOH B 6 306 43 HOH HOH . 
J 3 HOH B 7 307 7 HOH HOH . 
J 3 HOH B 8 308 87 HOH HOH . 
J 3 HOH B 9 309 63 HOH HOH . 
J 3 HOH B 10 310 58 HOH HOH . 
J 3 HOH B 11 311 25 HOH HOH . 
J 3 HOH B 12 312 39 HOH HOH . 
J 3 HOH B 13 313 11 HOH HOH . 
J 3 HOH B 14 314 82 HOH HOH . 
J 3 HOH B 15 315 72 HOH HOH . 
J 3 HOH B 16 316 69 HOH HOH . 
J 3 HOH B 17 317 51 HOH HOH . 
K 3 HOH C 1 301 49 HOH HOH . 
K 3 HOH C 2 302 57 HOH HOH . 
K 3 HOH C 3 303 76 HOH HOH . 
K 3 HOH C 4 304 8 HOH HOH . 
K 3 HOH C 5 305 60 HOH HOH . 
K 3 HOH C 6 306 45 HOH HOH . 
K 3 HOH C 7 307 28 HOH HOH . 
K 3 HOH C 8 308 3 HOH HOH . 
K 3 HOH C 9 309 1 HOH HOH . 
K 3 HOH C 10 310 52 HOH HOH . 
K 3 HOH C 11 311 24 HOH HOH . 
K 3 HOH C 12 312 47 HOH HOH . 
K 3 HOH C 13 313 53 HOH HOH . 
K 3 HOH C 14 314 83 HOH HOH . 
K 3 HOH C 15 315 68 HOH HOH . 
K 3 HOH C 16 316 10 HOH HOH . 
K 3 HOH C 17 317 36 HOH HOH . 
K 3 HOH C 18 318 4 HOH HOH . 
K 3 HOH C 19 319 12 HOH HOH . 
K 3 HOH C 20 320 29 HOH HOH . 
K 3 HOH C 21 321 14 HOH HOH . 
K 3 HOH C 22 322 54 HOH HOH . 
K 3 HOH C 23 323 85 HOH HOH . 
K 3 HOH C 24 324 64 HOH HOH . 
L 3 HOH D 1 301 41 HOH HOH . 
L 3 HOH D 2 302 23 HOH HOH . 
L 3 HOH D 3 303 6 HOH HOH . 
L 3 HOH D 4 304 37 HOH HOH . 
L 3 HOH D 5 305 44 HOH HOH . 
L 3 HOH D 6 306 27 HOH HOH . 
L 3 HOH D 7 307 9 HOH HOH . 
L 3 HOH D 8 308 91 HOH HOH . 
L 3 HOH D 9 309 50 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 . . . E 2 19.888 11.718 -12.972 1 36.81 ? CHA HEM 201 A 1 
HETATM 2 C CHB HEM . . . E 2 16.596 8.282 -12.013 1 40.09 ? CHB HEM 201 A 1 
HETATM 3 C CHC HEM . . . E 2 14.461 11.271 -8.858 1 29.08 ? CHC HEM 201 A 1 
HETATM 4 C CHD HEM . . . E 2 18.241 14.289 -9.14 1 24.4 ? CHD HEM 201 A 1 
HETATM 5 C C1A HEM . . . E 2 19.202 10.523 -12.995 1 31.58 ? C1A HEM 201 A 1 
HETATM 6 C C2A HEM . . . E 2 19.517 9.354 -13.793 1 39.04 ? C2A HEM 201 A 1 
HETATM 7 C C3A HEM . . . E 2 18.608 8.412 -13.525 1 40.27 ? C3A HEM 201 A 1 
HETATM 8 C C4A HEM . . . E 2 17.679 8.944 -12.55 1 37.15 ? C4A HEM 201 A 1 
HETATM 9 C CMA HEM . . . E 2 18.553 6.998 -14.142 1 47.65 ? CMA HEM 201 A 1 
HETATM 10 C CAA HEM . . . E 2 20.697 9.206 -14.779 1 43.41 ? CAA HEM 201 A 1 
HETATM 11 C CBA HEM . . . E 2 22.019 9.141 -14.02 1 51.67 ? CBA HEM 201 A 1 
HETATM 12 C CGA HEM . . . E 2 23.108 8.689 -14.958 1 59.55 ? CGA HEM 201 A 1 
HETATM 13 O O1A HEM . . . E 2 22.792 8.361 -16.132 1 66.66 ? O1A HEM 201 A 1 
HETATM 14 O O2A HEM . . . E 2 24.291 8.653 -14.533 1 58.59 ? O2A HEM 201 A 1 
HETATM 15 C C1B HEM . . . E 2 15.732 8.785 -11.066 1 35.15 ? C1B HEM 201 A 1 
HETATM 16 C C2B HEM . . . E 2 14.615 8.078 -10.47 1 35.62 ? C2B HEM 201 A 1 
HETATM 17 C C3B HEM . . . E 2 14.02 8.91 -9.594 1 37.31 ? C3B HEM 201 A 1 
HETATM 18 C C4B HEM . . . E 2 14.751 10.159 -9.616 1 33.7 ? C4B HEM 201 A 1 
HETATM 19 C CMB HEM . . . E 2 14.239 6.623 -10.837 1 44.95 ? CMB HEM 201 A 1 
HETATM 20 C CAB HEM . . . E 2 12.789 8.694 -8.674 1 44.05 ? CAB HEM 201 A 1 
HETATM 21 C CBB HEM . . . E 2 12.102 7.552 -8.57 1 49.61 ? CBB HEM 201 A 1 
HETATM 22 C C1C HEM . . . E 2 15.329 12.307 -8.601 1 27.13 ? C1C HEM 201 A 1 
HETATM 23 C C2C HEM . . . E 2 15.183 13.293 -7.551 1 29.04 ? C2C HEM 201 A 1 
HETATM 24 C C3C HEM . . . E 2 16.233 14.134 -7.629 1 24.24 ? C3C HEM 201 A 1 
HETATM 25 C C4C HEM . . . E 2 17.067 13.695 -8.731 1 23.31 ? C4C HEM 201 A 1 
HETATM 26 C CMC HEM . . . E 2 13.993 13.3 -6.563 1 26.59 ? CMC HEM 201 A 1 
HETATM 27 C CAC HEM . . . E 2 16.588 15.368 -6.759 1 26.44 ? CAC HEM 201 A 1 
HETATM 28 C CBC HEM . . . E 2 15.864 15.79 -5.718 1 32.24 ? CBC HEM 201 A 1 
HETATM 29 C C1D HEM . . . E 2 19.068 13.863 -10.158 1 29.17 ? C1D HEM 201 A 1 
HETATM 30 C C2D HEM . . . E 2 20.361 14.43 -10.471 1 26.67 ? C2D HEM 201 A 1 
HETATM 31 C C3D HEM . . . E 2 20.882 13.623 -11.671 1 29.91 ? C3D HEM 201 A 1 
HETATM 32 C C4D HEM . . . E 2 19.846 12.657 -11.962 1 33.43 ? C4D HEM 201 A 1 
HETATM 33 C CMD HEM . . . E 2 21.062 15.595 -9.739 1 34.69 ? CMD HEM 201 A 1 
HETATM 34 C CAD HEM . . . E 2 22.219 13.802 -12.425 1 42.89 ? CAD HEM 201 A 1 
HETATM 35 C CBD HEM . . . E 2 22.266 15.187 -13.064 1 50.07 ? CBD HEM 201 A 1 
HETATM 36 C CGD HEM . . . E 2 23.522 15.333 -13.882 1 55.32 ? CGD HEM 201 A 1 
HETATM 37 O O1D HEM . . . E 2 23.752 16.442 -14.431 1 57.55 ? O1D HEM 201 A 1 
HETATM 38 O O2D HEM . . . E 2 24.293 14.344 -13.984 1 53.17 ? O2D HEM 201 A 1 
HETATM 39 N NA HEM . . . E 2 18.072 10.236 -12.253 1 35.3 ? NA HEM 201 A 1 
HETATM 40 N NB HEM . . . E 2 15.786 10.051 -10.522 1 34.17 ? NB HEM 201 A 1 
HETATM 41 N NC HEM . . . E 2 16.486 12.581 -9.3 1 30.09 ? NC HEM 201 A 1 
HETATM 42 N ND HEM . . . E 2 18.804 12.83 -11.054 1 29.88 ? ND HEM 201 A 1 
HETATM 43 FE FE HEM . . . E 2 17.208 11.507 -10.896 1 45.36 ? FE HEM 201 A 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           23 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          15 
_model_server_stats.element_count           43 
#