data_4M07
#
_model_server_result.job_id            3Dea7wnzMCWhJC7sxiwkfQ 
_model_server_result.datetime_utc      '2024-11-24 03:52:25' 
_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          4m07 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":301}' 
#
_entry.id    4M07 
#
_exptl.entry_id    4M07 
_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    5 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          118.49 
_cell.angle_gamma         90 
_cell.entry_id            4M07 
_cell.length_a            138.29 
_cell.length_b            112.61 
_cell.length_c            120.32 
_cell.Z_PDB               20 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4M07 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    pentameric 
_pdbx_struct_assembly.oligomeric_count      5 
_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,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 F N N 
? 2 K N N 
? 2 P N N 
? 2 T N N 
? 2 Y 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 182 A HIS 160 1_555 F FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? 
metalc ? metalc2 B NE2 HIS 182 B HIS 160 1_555 K FE HEM . B HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? 
metalc ? metalc3 C NE2 HIS 182 C HIS 160 1_555 P FE HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? 
metalc ? metalc4 D NE2 HIS 182 D HIS 160 1_555 T FE HEM . D HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? 
metalc ? metalc5 E NE2 HIS 182 E HIS 160 1_555 Y FE HEM . E HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? 
#
_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 138 n n 
CHA C4D HEM doub 139 n n 
CHA HHA HEM sing 140 n n 
CHB C4A HEM sing 141 n n 
CHB C1B HEM doub 142 n n 
CHB HHB HEM sing 143 n n 
CHC C4B HEM sing 144 n n 
CHC C1C HEM doub 145 n n 
CHC HHC HEM sing 146 n n 
CHD C4C HEM doub 147 n n 
CHD C1D HEM sing 148 n n 
CHD HHD HEM sing 149 n n 
C1A C2A HEM doub 150 n y 
C1A NA HEM sing 151 n y 
C2A C3A HEM sing 152 n y 
C2A CAA HEM sing 153 n n 
C3A C4A HEM doub 154 n y 
C3A CMA HEM sing 155 n n 
C4A NA HEM sing 156 n y 
CMA HMA HEM sing 157 n n 
CMA HMAA HEM sing 158 n n 
CMA HMAB HEM sing 159 n n 
CAA CBA HEM sing 160 n n 
CAA HAA HEM sing 161 n n 
CAA HAAA HEM sing 162 n n 
CBA CGA HEM sing 163 n n 
CBA HBA HEM sing 164 n n 
CBA HBAA HEM sing 165 n n 
CGA O1A HEM doub 166 n n 
CGA O2A HEM sing 167 n n 
C1B C2B HEM sing 168 n n 
C1B NB HEM sing 169 n n 
C2B C3B HEM doub 170 n n 
C2B CMB HEM sing 171 n n 
C3B C4B HEM sing 172 n n 
C3B CAB HEM sing 173 n n 
C4B NB HEM doub 174 n n 
CMB HMB HEM sing 175 n n 
CMB HMBA HEM sing 176 n n 
CMB HMBB HEM sing 177 n n 
CAB CBB HEM doub 178 n n 
CAB HAB HEM sing 179 n n 
CBB HBB HEM sing 180 n n 
CBB HBBA HEM sing 181 n n 
C1C C2C HEM sing 182 n y 
C1C NC HEM sing 183 n y 
C2C C3C HEM doub 184 n y 
C2C CMC HEM sing 185 n n 
C3C C4C HEM sing 186 n y 
C3C CAC HEM sing 187 n n 
C4C NC HEM sing 188 n y 
CMC HMC HEM sing 189 n n 
CMC HMCA HEM sing 190 n n 
CMC HMCB HEM sing 191 n n 
CAC CBC HEM doub 192 n n 
CAC HAC HEM sing 193 n n 
CBC HBC HEM sing 194 n n 
CBC HBCA HEM sing 195 n n 
C1D C2D HEM sing 196 n n 
C1D ND HEM doub 197 n n 
C2D C3D HEM doub 198 n n 
C2D CMD HEM sing 199 n n 
C3D C4D HEM sing 200 n n 
C3D CAD HEM sing 201 n n 
C4D ND HEM sing 202 n n 
CMD HMD HEM sing 203 n n 
CMD HMDA HEM sing 204 n n 
CMD HMDB HEM sing 205 n n 
CAD CBD HEM sing 206 n n 
CAD HAD HEM sing 207 n n 
CAD HADA HEM sing 208 n n 
CBD CGD HEM sing 209 n n 
CBD HBD HEM sing 210 n n 
CBD HBDA HEM sing 211 n n 
CGD O1D HEM doub 212 n n 
CGD O2D HEM sing 213 n n 
O2A H2A HEM sing 214 n n 
O2D H2D HEM sing 215 n n 
FE NA HEM sing 216 n n 
FE NB HEM sing 217 n n 
FE NC HEM sing 218 n n 
FE ND HEM sing 219 n n 
#
_atom_sites.entry_id                     4M07 
_atom_sites.fract_transf_matrix[1][1]    0.007231 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003925 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00888 
_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]    0.009456 
_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
F 2 HEM A 1 301 239 HEM HEM . 
G 3 EDO A 1 302 1 EDO EDO . 
H 4 GOL A 1 303 1 GOL GOL . 
I 4 GOL A 1 304 1 GOL GOL . 
J 3 EDO A 1 305 1 EDO EDO . 
K 2 HEM B 1 301 239 HEM HEM . 
L 3 EDO B 1 302 1 EDO EDO . 
M 4 GOL B 1 303 1 GOL GOL . 
N 3 EDO B 1 304 1 EDO EDO . 
O 3 EDO B 1 305 1 EDO EDO . 
P 2 HEM C 1 301 239 HEM HEM . 
Q 4 GOL C 1 302 1 GOL GOL . 
R 4 GOL C 1 303 1 GOL GOL . 
S 3 EDO C 1 304 1 EDO EDO . 
T 2 HEM D 1 301 239 HEM HEM . 
U 4 GOL D 1 302 1 GOL GOL . 
V 3 EDO D 1 303 1 EDO EDO . 
W 3 EDO D 1 304 1 EDO EDO . 
X 3 EDO D 1 305 1 EDO EDO . 
Y 2 HEM E 1 301 239 HEM HEM . 
Z 3 EDO E 1 302 1 EDO EDO . 
AA 5 HOH A 1 401 9 HOH HOH . 
AA 5 HOH A 2 402 13 HOH HOH . 
AA 5 HOH A 3 403 36 HOH HOH . 
AA 5 HOH A 4 404 40 HOH HOH . 
AA 5 HOH A 5 405 47 HOH HOH . 
AA 5 HOH A 6 406 58 HOH HOH . 
AA 5 HOH A 7 407 62 HOH HOH . 
AA 5 HOH A 8 408 64 HOH HOH . 
BA 5 HOH B 1 401 7 HOH HOH . 
BA 5 HOH B 2 402 29 HOH HOH . 
BA 5 HOH B 3 403 43 HOH HOH . 
BA 5 HOH B 4 404 49 HOH HOH . 
BA 5 HOH B 5 405 59 HOH HOH . 
BA 5 HOH B 6 406 67 HOH HOH . 
CA 5 HOH C 1 401 3 HOH HOH . 
CA 5 HOH C 2 402 11 HOH HOH . 
CA 5 HOH C 3 403 12 HOH HOH . 
CA 5 HOH C 4 404 37 HOH HOH . 
CA 5 HOH C 5 405 39 HOH HOH . 
CA 5 HOH C 6 406 44 HOH HOH . 
CA 5 HOH C 7 407 48 HOH HOH . 
CA 5 HOH C 8 408 53 HOH HOH . 
CA 5 HOH C 9 409 55 HOH HOH . 
CA 5 HOH C 10 410 56 HOH HOH . 
CA 5 HOH C 11 411 65 HOH HOH . 
CA 5 HOH C 12 412 66 HOH HOH . 
CA 5 HOH C 13 413 70 HOH HOH . 
DA 5 HOH D 1 401 14 HOH HOH . 
DA 5 HOH D 2 402 23 HOH HOH . 
DA 5 HOH D 3 403 24 HOH HOH . 
DA 5 HOH D 4 404 25 HOH HOH . 
DA 5 HOH D 5 405 26 HOH HOH . 
DA 5 HOH D 6 406 42 HOH HOH . 
DA 5 HOH D 7 407 45 HOH HOH . 
DA 5 HOH D 8 408 46 HOH HOH . 
DA 5 HOH D 9 409 52 HOH HOH . 
DA 5 HOH D 10 410 57 HOH HOH . 
DA 5 HOH D 11 411 68 HOH HOH . 
DA 5 HOH D 12 412 69 HOH HOH . 
DA 5 HOH D 13 413 71 HOH HOH . 
DA 5 HOH D 14 414 72 HOH HOH . 
DA 5 HOH D 15 415 73 HOH HOH . 
DA 5 HOH D 16 416 74 HOH HOH . 
DA 5 HOH D 17 417 75 HOH HOH . 
EA 5 HOH E 1 401 10 HOH HOH . 
EA 5 HOH E 2 402 50 HOH HOH . 
EA 5 HOH E 3 403 63 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 . . . F 2 12.866 25 13.125 1 81.07 ? CHA HEM 301 A 1 
HETATM 2 C CHB HEM . . . F 2 10.037 28.903 13.566 1 81.42 ? CHB HEM 301 A 1 
HETATM 3 C CHC HEM . . . F 2 7.916 26.745 17.321 1 55.34 ? CHC HEM 301 A 1 
HETATM 4 C CHD HEM . . . F 2 9.954 22.519 16.197 1 51 ? CHD HEM 301 A 1 
HETATM 5 C C1A HEM . . . F 2 12.342 26.269 12.94 1 65.04 ? C1A HEM 301 A 1 
HETATM 6 C C2A HEM . . . F 2 12.841 27.299 12.032 1 69.14 ? C2A HEM 301 A 1 
HETATM 7 C C3A HEM . . . F 2 12.054 28.375 12.157 1 66.89 ? C3A HEM 301 A 1 
HETATM 8 C C4A HEM . . . F 2 11.038 28.064 13.142 1 78.2 ? C4A HEM 301 A 1 
HETATM 9 C CMA HEM . . . F 2 12.189 29.714 11.388 1 86.3 ? CMA HEM 301 A 1 
HETATM 10 C CAA HEM . . . F 2 14.061 27.186 11.083 1 86.12 ? CAA HEM 301 A 1 
HETATM 11 C CBA HEM . . . F 2 15.325 26.837 11.857 1 87.73 ? CBA HEM 301 A 1 
HETATM 12 C CGA HEM . . . F 2 16.442 26.602 10.873 1 112.41 ? CGA HEM 301 A 1 
HETATM 13 O O1A HEM . . . F 2 16.347 27.122 9.729 1 119.12 ? O1A HEM 301 A 1 
HETATM 14 O O2A HEM . . . F 2 17.428 25.9 11.23 1 129.62 ? O2A HEM 301 A 1 
HETATM 15 C C1B HEM . . . F 2 9.279 28.695 14.697 1 85.2 ? C1B HEM 301 A 1 
HETATM 16 C C2B HEM . . . F 2 8.484 29.703 15.373 1 59.8 ? C2B HEM 301 A 1 
HETATM 17 C C3B HEM . . . F 2 7.88 29.097 16.421 1 74.49 ? C3B HEM 301 A 1 
HETATM 18 C C4B HEM . . . F 2 8.308 27.703 16.421 1 56.83 ? C4B HEM 301 A 1 
HETATM 19 C CMB HEM . . . F 2 8.419 31.152 14.834 1 76.42 ? CMB HEM 301 A 1 
HETATM 20 C CAB HEM . . . F 2 6.92 29.632 17.518 1 87.35 ? CAB HEM 301 A 1 
HETATM 21 C CBB HEM . . . F 2 6.683 30.927 17.744 1 102.98 ? CBB HEM 301 A 1 
HETATM 22 C C1C HEM . . . F 2 8.197 25.402 17.273 1 53.74 ? C1C HEM 301 A 1 
HETATM 23 C C2C HEM . . . F 2 7.504 24.387 18.048 1 64.13 ? C2C HEM 301 A 1 
HETATM 24 C C3C HEM . . . F 2 8.072 23.199 17.755 1 51.07 ? C3C HEM 301 A 1 
HETATM 25 C C4C HEM . . . F 2 9.126 23.449 16.783 1 75.89 ? C4C HEM 301 A 1 
HETATM 26 C CMC HEM . . . F 2 6.345 24.785 19.011 1 71.18 ? CMC HEM 301 A 1 
HETATM 27 C CAC HEM . . . F 2 7.757 21.77 18.25 1 63.38 ? CAC HEM 301 A 1 
HETATM 28 C CBC HEM . . . F 2 6.744 21.453 19.064 1 72.97 ? CBC HEM 301 A 1 
HETATM 29 C C1D HEM . . . F 2 10.968 22.787 15.309 1 59.78 ? C1D HEM 301 A 1 
HETATM 30 C C2D HEM . . . F 2 11.949 21.823 14.844 1 59.85 ? C2D HEM 301 A 1 
HETATM 31 C C3D HEM . . . F 2 12.862 22.606 13.877 1 73.3 ? C3D HEM 301 A 1 
HETATM 32 C C4D HEM . . . F 2 12.336 23.959 13.872 1 74.9 ? C4D HEM 301 A 1 
HETATM 33 C CMD HEM . . . F 2 12.027 20.334 15.251 1 71.57 ? CMD HEM 301 A 1 
HETATM 34 C CAD HEM . . . F 2 14.097 22.119 13.075 1 77.51 ? CAD HEM 301 A 1 
HETATM 35 C CBD HEM . . . F 2 13.728 21.364 11.801 1 88.25 ? CBD HEM 301 A 1 
HETATM 36 C CGD HEM . . . F 2 15.02 21.085 11.059 1 97.89 ? CGD HEM 301 A 1 
HETATM 37 O O1D HEM . . . F 2 15.948 21.951 11.113 1 80.84 ? O1D HEM 301 A 1 
HETATM 38 O O2D HEM . . . F 2 15.131 19.999 10.417 1 81.71 ? O2D HEM 301 A 1 
HETATM 39 N NA HEM . . . F 2 11.238 26.774 13.598 1 61.64 ? NA HEM 301 A 1 
HETATM 40 N NB HEM . . . F 2 9.154 27.493 15.365 1 65.77 ? NB HEM 301 A 1 
HETATM 41 N NC HEM . . . F 2 9.169 24.794 16.518 1 53.36 ? NC HEM 301 A 1 
HETATM 42 N ND HEM . . . F 2 11.224 24.017 14.716 1 62.72 ? ND HEM 301 A 1 
HETATM 43 FE FE HEM . . . F 2 10.148 25.766 15.086 1 78.09 ? FE HEM 301 A 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           223 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           43 
#