data_6VDT
#
_model_server_result.job_id            gYJFPNug9z-Coq72zhgu8Q 
_model_server_result.datetime_utc      '2025-01-09 12:49:35' 
_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          6vdt 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":201}' 
#
_entry.id    6VDT 
#
_exptl.entry_id    6VDT 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              564.413 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'FE(III) DEUTEROPORPHYRIN IX' 
_entity.pdbx_number_of_molecules    2 
_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         90 
_cell.entry_id            6VDT 
_cell.length_a            58.7 
_cell.length_b            67.66 
_cell.length_c            67.73 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6VDT 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 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,C,D,E,F,G,H,K 1 1 
B,I,J,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 C N N 
? 2 J N N 
#
_struct_conn.conn_type_id                   metalc 
_struct_conn.details                        ? 
_struct_conn.id                             metalc1 
_struct_conn.ptnr1_label_asym_id            B 
_struct_conn.ptnr1_label_atom_id            NE2 
_struct_conn.ptnr1_label_comp_id            HIS 
_struct_conn.ptnr1_label_seq_id             89 
_struct_conn.ptnr1_auth_asym_id             B 
_struct_conn.ptnr1_auth_comp_id             HIS 
_struct_conn.ptnr1_auth_seq_id              89 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            J 
_struct_conn.ptnr2_label_atom_id            FE 
_struct_conn.ptnr2_label_comp_id            FDE 
_struct_conn.ptnr2_label_seq_id             . 
_struct_conn.ptnr2_auth_asym_id             B 
_struct_conn.ptnr2_auth_comp_id             FDE 
_struct_conn.ptnr2_auth_seq_id              202 
_struct_conn.ptnr2_symmetry                 1_555 
_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                2.739 
_struct_conn.pdbx_value_order               ? 
#
_chem_comp.formula           'C30 H28 Fe N4 O4' 
_chem_comp.formula_weight    564.413 
_chem_comp.id                FDE 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'FE(III) DEUTEROPORPHYRIN IX' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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 FDE sing 92 n n 
CHA C4D FDE doub 93 n n 
CHA HHA FDE sing 94 n n 
C1A C2A FDE sing 95 n n 
C1A NA FDE doub 96 n n 
C2A CAA FDE sing 97 n n 
C2A C3A FDE doub 98 n n 
CAA CBA FDE sing 99 n n 
CAA HAA1 FDE sing 100 n n 
CAA HAA2 FDE sing 101 n n 
CBA CGA FDE sing 102 n n 
CBA HBA1 FDE sing 103 n n 
CBA HBA2 FDE sing 104 n n 
CGA O1A FDE sing 105 n n 
CGA O2A FDE doub 106 n n 
O1A H1A FDE sing 107 n n 
C3A CMA FDE sing 108 n n 
C3A C4A FDE sing 109 n n 
CMA HMA1 FDE sing 110 n n 
CMA HMA2 FDE sing 111 n n 
CMA HMA3 FDE sing 112 n n 
C4A NA FDE sing 113 n n 
C4A CHB FDE doub 114 n n 
NA FE FDE sing 115 n n 
CHB C1B FDE sing 116 n n 
CHB HHB FDE sing 117 n n 
C1B C2B FDE doub 118 n y 
C1B NB FDE sing 119 n y 
C2B C3B FDE sing 120 n y 
C2B H2B FDE sing 121 n n 
C3B CME FDE sing 122 n n 
C3B C4B FDE doub 123 n y 
CME HME1 FDE sing 124 n n 
CME HME2 FDE sing 125 n n 
CME HME3 FDE sing 126 n n 
C4B NB FDE sing 127 n y 
C4B CHC FDE sing 128 n n 
NB FE FDE sing 129 n n 
CHC C1C FDE doub 130 n n 
CHC HHC FDE sing 131 n n 
C1C C2C FDE sing 132 n n 
C1C NC FDE sing 133 n n 
C2C C3C FDE doub 134 n n 
C2C H2C FDE sing 135 n n 
C3C CMF FDE sing 136 n n 
C3C C4C FDE sing 137 n n 
CMF HMF1 FDE sing 138 n n 
CMF HMF2 FDE sing 139 n n 
CMF HMF3 FDE sing 140 n n 
C4C NC FDE doub 141 n n 
C4C CHD FDE sing 142 n n 
NC FE FDE sing 143 n n 
CHD C1D FDE doub 144 n n 
CHD HHD FDE sing 145 n n 
C1D C2D FDE sing 146 n n 
C1D ND FDE sing 147 n n 
C2D CMD FDE sing 148 n n 
C2D C3D FDE doub 149 n n 
CMD HMD1 FDE sing 150 n n 
CMD HMD2 FDE sing 151 n n 
CMD HMD3 FDE sing 152 n n 
C3D CAD FDE sing 153 n n 
C3D C4D FDE sing 154 n n 
CAD CBD FDE sing 155 n n 
CAD HAD1 FDE sing 156 n n 
CAD HAD2 FDE sing 157 n n 
CBD CGD FDE sing 158 n n 
CBD HBD1 FDE sing 159 n n 
CBD HBD2 FDE sing 160 n n 
CGD O1D FDE sing 161 n n 
CGD O2D FDE doub 162 n n 
O1D H1D FDE sing 163 n n 
C4D ND FDE sing 164 n n 
ND FE FDE sing 165 n n 
#
_atom_sites.entry_id                     6VDT 
_atom_sites.fract_transf_matrix[1][1]    0.017036 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01478 
_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]    0.014765 
_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
C 2 FDE A 1 201 201 FDE FDE . 
D 3 EDO A 1 202 301 EDO EDO . 
E 4 NPO A 1 203 401 NPO NPO . 
F 5 PEG A 1 204 501 PEG PEG . 
G 6 SO4 A 1 205 1 SO4 SO4 . 
H 6 SO4 A 1 206 2 SO4 SO4 . 
I 3 EDO B 1 201 201 EDO EDO . 
J 2 FDE B 1 202 301 FDE FDE . 
K 7 HOH A 1 301 112 HOH HOH . 
K 7 HOH A 2 302 6 HOH HOH . 
K 7 HOH A 3 303 126 HOH HOH . 
K 7 HOH A 4 304 14 HOH HOH . 
K 7 HOH A 5 305 114 HOH HOH . 
K 7 HOH A 6 306 13 HOH HOH . 
K 7 HOH A 7 307 4 HOH HOH . 
K 7 HOH A 8 308 34 HOH HOH . 
K 7 HOH A 9 309 2 HOH HOH . 
K 7 HOH A 10 310 23 HOH HOH . 
K 7 HOH A 11 311 38 HOH HOH . 
K 7 HOH A 12 312 85 HOH HOH . 
K 7 HOH A 13 313 68 HOH HOH . 
K 7 HOH A 14 314 97 HOH HOH . 
K 7 HOH A 15 315 108 HOH HOH . 
K 7 HOH A 16 316 31 HOH HOH . 
K 7 HOH A 17 317 19 HOH HOH . 
K 7 HOH A 18 318 67 HOH HOH . 
K 7 HOH A 19 319 24 HOH HOH . 
K 7 HOH A 20 320 121 HOH HOH . 
K 7 HOH A 21 321 74 HOH HOH . 
K 7 HOH A 22 322 5 HOH HOH . 
K 7 HOH A 23 323 26 HOH HOH . 
K 7 HOH A 24 324 123 HOH HOH . 
K 7 HOH A 25 325 18 HOH HOH . 
K 7 HOH A 26 326 125 HOH HOH . 
K 7 HOH A 27 327 16 HOH HOH . 
K 7 HOH A 28 328 48 HOH HOH . 
K 7 HOH A 29 329 29 HOH HOH . 
K 7 HOH A 30 330 53 HOH HOH . 
K 7 HOH A 31 331 70 HOH HOH . 
K 7 HOH A 32 332 42 HOH HOH . 
K 7 HOH A 33 333 47 HOH HOH . 
K 7 HOH A 34 334 102 HOH HOH . 
K 7 HOH A 35 335 113 HOH HOH . 
K 7 HOH A 36 336 25 HOH HOH . 
K 7 HOH A 37 337 120 HOH HOH . 
K 7 HOH A 38 338 66 HOH HOH . 
K 7 HOH A 39 339 124 HOH HOH . 
K 7 HOH A 40 340 21 HOH HOH . 
K 7 HOH A 41 341 3 HOH HOH . 
K 7 HOH A 42 342 39 HOH HOH . 
K 7 HOH A 43 343 54 HOH HOH . 
K 7 HOH A 44 344 88 HOH HOH . 
K 7 HOH A 45 345 98 HOH HOH . 
K 7 HOH A 46 346 101 HOH HOH . 
K 7 HOH A 47 347 103 HOH HOH . 
K 7 HOH A 48 348 100 HOH HOH . 
K 7 HOH A 49 349 61 HOH HOH . 
K 7 HOH A 50 350 45 HOH HOH . 
K 7 HOH A 51 351 20 HOH HOH . 
K 7 HOH A 52 352 99 HOH HOH . 
K 7 HOH A 53 353 111 HOH HOH . 
K 7 HOH A 54 354 122 HOH HOH . 
K 7 HOH A 55 355 96 HOH HOH . 
K 7 HOH A 56 356 1 HOH HOH . 
K 7 HOH A 57 357 78 HOH HOH . 
K 7 HOH A 58 358 50 HOH HOH . 
K 7 HOH A 59 359 109 HOH HOH . 
K 7 HOH A 60 360 127 HOH HOH . 
K 7 HOH A 61 361 17 HOH HOH . 
K 7 HOH A 62 362 72 HOH HOH . 
L 7 HOH B 1 301 134 HOH HOH . 
L 7 HOH B 2 302 128 HOH HOH . 
L 7 HOH B 3 303 106 HOH HOH . 
L 7 HOH B 4 304 115 HOH HOH . 
L 7 HOH B 5 305 95 HOH HOH . 
L 7 HOH B 6 306 59 HOH HOH . 
L 7 HOH B 7 307 33 HOH HOH . 
L 7 HOH B 8 308 130 HOH HOH . 
L 7 HOH B 9 309 92 HOH HOH . 
L 7 HOH B 10 310 86 HOH HOH . 
L 7 HOH B 11 311 7 HOH HOH . 
L 7 HOH B 12 312 51 HOH HOH . 
L 7 HOH B 13 313 131 HOH HOH . 
L 7 HOH B 14 314 46 HOH HOH . 
L 7 HOH B 15 315 10 HOH HOH . 
L 7 HOH B 16 316 62 HOH HOH . 
L 7 HOH B 17 317 80 HOH HOH . 
L 7 HOH B 18 318 116 HOH HOH . 
L 7 HOH B 19 319 119 HOH HOH . 
L 7 HOH B 20 320 69 HOH HOH . 
L 7 HOH B 21 321 30 HOH HOH . 
L 7 HOH B 22 322 52 HOH HOH . 
L 7 HOH B 23 323 129 HOH HOH . 
L 7 HOH B 24 324 75 HOH HOH . 
L 7 HOH B 25 325 37 HOH HOH . 
L 7 HOH B 26 326 84 HOH HOH . 
L 7 HOH B 27 327 110 HOH HOH . 
L 7 HOH B 28 328 91 HOH HOH . 
L 7 HOH B 29 329 132 HOH HOH . 
L 7 HOH B 30 330 36 HOH HOH . 
L 7 HOH B 31 331 35 HOH HOH . 
L 7 HOH B 32 332 93 HOH HOH . 
L 7 HOH B 33 333 43 HOH HOH . 
L 7 HOH B 34 334 40 HOH HOH . 
L 7 HOH B 35 335 63 HOH HOH . 
L 7 HOH B 36 336 15 HOH HOH . 
L 7 HOH B 37 337 104 HOH HOH . 
L 7 HOH B 38 338 28 HOH HOH . 
L 7 HOH B 39 339 81 HOH HOH . 
L 7 HOH B 40 340 107 HOH HOH . 
L 7 HOH B 41 341 94 HOH HOH . 
L 7 HOH B 42 342 9 HOH HOH . 
L 7 HOH B 43 343 90 HOH HOH . 
L 7 HOH B 44 344 117 HOH HOH . 
L 7 HOH B 45 345 56 HOH HOH . 
L 7 HOH B 46 346 118 HOH HOH . 
L 7 HOH B 47 347 133 HOH HOH . 
L 7 HOH B 48 348 105 HOH HOH . 
L 7 HOH B 49 349 44 HOH HOH . 
L 7 HOH B 50 350 89 HOH HOH . 
L 7 HOH B 51 351 65 HOH HOH . 
L 7 HOH B 52 352 87 HOH HOH . 
L 7 HOH B 53 353 136 HOH HOH . 
L 7 HOH B 54 354 12 HOH HOH . 
L 7 HOH B 55 355 82 HOH HOH . 
L 7 HOH B 56 356 60 HOH HOH . 
L 7 HOH B 57 357 27 HOH HOH . 
L 7 HOH B 58 358 73 HOH HOH . 
L 7 HOH B 59 359 135 HOH HOH . 
L 7 HOH B 60 360 32 HOH HOH . 
L 7 HOH B 61 361 77 HOH HOH . 
L 7 HOH B 62 362 79 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 FDE . . . C 2 5.833 6.176 -10.391 1 65 ? CHA FDE 201 A 1 
HETATM 2 C C1A FDE . . . C 2 5.006 6.743 -11.446 1 56.86 ? C1A FDE 201 A 1 
HETATM 3 C C2A FDE . . . C 2 3.568 7.149 -11.288 1 62.58 ? C2A FDE 201 A 1 
HETATM 4 C CAA FDE . . . C 2 2.613 7.114 -10.101 1 64.24 ? CAA FDE 201 A 1 
HETATM 5 C CBA FDE . . . C 2 2.879 6.076 -9.024 1 65.73 ? CBA FDE 201 A 1 
HETATM 6 C CGA FDE . . . C 2 3.412 6.714 -7.752 1 72.22 ? CGA FDE 201 A 1 
HETATM 7 O O1A FDE . . . C 2 4.647 6.837 -7.601 1 76.51 ? O1A FDE 201 A 1 
HETATM 8 O O2A FDE . . . C 2 2.597 7.086 -6.875 1 70.47 ? O2A FDE 201 A 1 
HETATM 9 C C3A FDE . . . C 2 3.164 7.655 -12.626 1 59.72 ? C3A FDE 201 A 1 
HETATM 10 C CMA FDE . . . C 2 1.803 8.173 -13.01 1 57.9 ? CMA FDE 201 A 1 
HETATM 11 C C4A FDE . . . C 2 4.369 7.532 -13.505 1 63.73 ? C4A FDE 201 A 1 
HETATM 12 N NA FDE . . . C 2 5.565 7.069 -12.771 1 66.61 ? NA FDE 201 A 1 
HETATM 13 C CHB FDE . . . C 2 4.371 7.89 -14.937 1 64.75 ? CHB FDE 201 A 1 
HETATM 14 C C1B FDE . . . C 2 5.337 7.335 -15.906 1 66.51 ? C1B FDE 201 A 1 
HETATM 15 C C2B FDE . . . C 2 5.097 7.492 -17.271 1 65.1 ? C2B FDE 201 A 1 
HETATM 16 C C3B FDE . . . C 2 6.156 6.838 -17.838 1 65.5 ? C3B FDE 201 A 1 
HETATM 17 C CME FDE . . . C 2 6.23 6.804 -19.325 1 65.06 ? CME FDE 201 A 1 
HETATM 18 C C4B FDE . . . C 2 6.968 6.295 -16.753 1 68.2 ? C4B FDE 201 A 1 
HETATM 19 N NB FDE . . . C 2 6.425 6.622 -15.564 1 66.2 ? NB FDE 201 A 1 
HETATM 20 C CHC FDE . . . C 2 8.204 5.515 -16.977 1 70.47 ? CHC FDE 201 A 1 
HETATM 21 C C1C FDE . . . C 2 9.02 4.98 -15.882 1 74.21 ? C1C FDE 201 A 1 
HETATM 22 C C2C FDE . . . C 2 10.164 4.268 -16.238 1 74.32 ? C2C FDE 201 A 1 
HETATM 23 C C3C FDE . . . C 2 10.673 3.928 -15.011 1 75.42 ? C3C FDE 201 A 1 
HETATM 24 C CMF FDE . . . C 2 11.948 3.129 -14.997 1 75.25 ? CMF FDE 201 A 1 
HETATM 25 C C4C FDE . . . C 2 9.747 4.504 -13.988 1 78 ? C4C FDE 201 A 1 
HETATM 26 N NC FDE . . . C 2 8.718 5.147 -14.567 1 75.63 ? NC FDE 201 A 1 
HETATM 27 C CHD FDE . . . C 2 9.891 4.37 -12.519 1 77.26 ? CHD FDE 201 A 1 
HETATM 28 C C1D FDE . . . C 2 8.876 4.748 -11.506 1 73.52 ? C1D FDE 201 A 1 
HETATM 29 C C2D FDE . . . C 2 9.023 4.353 -10.078 1 74.03 ? C2D FDE 201 A 1 
HETATM 30 C CMD FDE . . . C 2 10.137 3.606 -9.402 1 74.48 ? CMD FDE 201 A 1 
HETATM 31 C C3D FDE . . . C 2 7.807 4.88 -9.45 1 76.01 ? C3D FDE 201 A 1 
HETATM 32 C CAD FDE . . . C 2 7.367 4.788 -8.009 1 80.04 ? CAD FDE 201 A 1 
HETATM 33 C CBD FDE . . . C 2 6.099 3.924 -7.923 1 86.7 ? CBD FDE 201 A 1 
HETATM 34 C CGD FDE . . . C 2 6.383 2.44 -7.809 1 93.39 ? CGD FDE 201 A 1 
HETATM 35 O O1D FDE . . . C 2 6.019 1.701 -8.751 1 95.83 ? O1D FDE 201 A 1 
HETATM 36 O O2D FDE . . . C 2 6.945 1.999 -6.78 1 101.44 ? O2D FDE 201 A 1 
HETATM 37 C C4D FDE . . . C 2 7.118 5.513 -10.594 1 70.51 ? C4D FDE 201 A 1 
HETATM 38 N ND FDE . . . C 2 7.736 5.421 -11.789 1 70.18 ? ND FDE 201 A 1 
HETATM 39 FE FE FDE . . . C 2 7.083 6.144 -13.656 1 77.45 ? FE FDE 201 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    18 
_model_server_stats.query_time_ms           240 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           39 
#