data_5L90
#
_model_server_result.job_id            hlZeFXTR5TuEGGx0Io5_7g 
_model_server_result.datetime_utc      '2024-12-01 12:23:08' 
_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          5l90 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":501}' 
#
_entry.id    5L90 
#
_exptl.entry_id    5L90 
_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    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         120 
_cell.entry_id            5L90 
_cell.length_a            121.288 
_cell.length_b            121.288 
_cell.length_c            144.161 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5L90 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32 2 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 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,E 1 1 
B,D,F 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 D 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 SG CYS 352 A CYS 352 1_555 C FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? 
metalc ? metalc2 B SG CYS 352 B CYS 352 1_555 D FE HEM . B HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? 
#
_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                     5L90 
_atom_sites.fract_transf_matrix[1][1]    0.008245 
_atom_sites.fract_transf_matrix[1][2]    0.00476 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00952 
_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]    0.006937 
_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 HEM A 1 501 501 HEM HEM . 
D 2 HEM B 1 501 501 HEM HEM . 
E 3 HOH A 1 601 604 HOH HOH . 
E 3 HOH A 2 602 606 HOH HOH . 
E 3 HOH A 3 603 602 HOH HOH . 
E 3 HOH A 4 604 603 HOH HOH . 
E 3 HOH A 5 605 600 HOH HOH . 
E 3 HOH A 6 606 605 HOH HOH . 
E 3 HOH A 7 607 601 HOH HOH . 
F 3 HOH B 1 600 600 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 . . . D 2 8.222 101.292 82.025 1 35.94 ? CHA HEM 501 B 1 
HETATM 2 C CHB HEM . . . D 2 12.601 101.124 80.144 1 45.35 ? CHB HEM 501 B 1 
HETATM 3 C CHC HEM . . . D 2 11.743 96.496 79.059 1 35.13 ? CHC HEM 501 B 1 
HETATM 4 C CHD HEM . . . D 2 7.219 96.999 80.249 1 43.96 ? CHD HEM 501 B 1 
HETATM 5 C C1A HEM . . . D 2 9.493 101.63 81.678 1 35.81 ? C1A HEM 501 B 1 
HETATM 6 C C2A HEM . . . D 2 10.134 102.943 81.929 1 46.24 ? C2A HEM 501 B 1 
HETATM 7 C C3A HEM . . . D 2 11.374 102.866 81.404 1 42.62 ? C3A HEM 501 B 1 
HETATM 8 C C4A HEM . . . D 2 11.502 101.559 80.806 1 39.04 ? C4A HEM 501 B 1 
HETATM 9 C CMA HEM . . . D 2 12.469 103.941 81.428 1 46.45 ? CMA HEM 501 B 1 
HETATM 10 C CAA HEM . . . D 2 9.582 104.174 82.736 1 53.47 ? CAA HEM 501 B 1 
HETATM 11 C CBA HEM . . . D 2 8.333 104.845 82.162 1 55.63 ? CBA HEM 501 B 1 
HETATM 12 C CGA HEM . . . D 2 7.92 106.124 82.87 1 69.11 ? CGA HEM 501 B 1 
HETATM 13 O O1A HEM . . . D 2 8.644 106.502 83.86 1 80.67 ? O1A HEM 501 B 1 
HETATM 14 O O2A HEM . . . D 2 6.905 106.79 82.421 1 63.37 ? O2A HEM 501 B 1 
HETATM 15 C C1B HEM . . . D 2 12.733 99.858 79.691 1 40.54 ? C1B HEM 501 B 1 
HETATM 16 C C2B HEM . . . D 2 13.929 99.345 79.103 1 37.69 ? C2B HEM 501 B 1 
HETATM 17 C C3B HEM . . . D 2 13.679 98.047 78.795 1 39.18 ? C3B HEM 501 B 1 
HETATM 18 C C4B HEM . . . D 2 12.321 97.749 79.198 1 36.17 ? C4B HEM 501 B 1 
HETATM 19 C CMB HEM . . . D 2 15.175 100.224 78.953 1 40.74 ? CMB HEM 501 B 1 
HETATM 20 C CAB HEM . . . D 2 14.573 96.95 78.147 1 42.02 ? CAB HEM 501 B 1 
HETATM 21 C CBB HEM . . . D 2 15.897 97.11 78.013 1 49.95 ? CBB HEM 501 B 1 
HETATM 22 C C1C HEM . . . D 2 10.433 96.202 79.253 1 33.89 ? C1C HEM 501 B 1 
HETATM 23 C C2C HEM . . . D 2 9.734 94.936 79.019 1 37.23 ? C2C HEM 501 B 1 
HETATM 24 C C3C HEM . . . D 2 8.461 95.116 79.35 1 32.35 ? C3C HEM 501 B 1 
HETATM 25 C C4C HEM . . . D 2 8.371 96.469 79.783 1 35.54 ? C4C HEM 501 B 1 
HETATM 26 C CMC HEM . . . D 2 10.394 93.667 78.466 1 43.41 ? CMC HEM 501 B 1 
HETATM 27 C CAC HEM . . . D 2 7.205 94.218 79.346 1 39.72 ? CAC HEM 501 B 1 
HETATM 28 C CBC HEM . . . D 2 7.156 92.998 78.828 1 46.62 ? CBC HEM 501 B 1 
HETATM 29 C C1D HEM . . . D 2 7.102 98.188 80.91 1 38.76 ? C1D HEM 501 B 1 
HETATM 30 C C2D HEM . . . D 2 5.873 98.635 81.514 1 35.41 ? C2D HEM 501 B 1 
HETATM 31 C C3D HEM . . . D 2 6.152 99.852 82.009 1 41.3 ? C3D HEM 501 B 1 
HETATM 32 C C4D HEM . . . D 2 7.552 100.174 81.69 1 35.09 ? C4D HEM 501 B 1 
HETATM 33 C CMD HEM . . . D 2 4.528 97.851 81.544 1 40.99 ? CMD HEM 501 B 1 
HETATM 34 C CAD HEM . . . D 2 5.134 100.748 82.737 1 47.23 ? CAD HEM 501 B 1 
HETATM 35 C CBD HEM . . . D 2 5.304 100.708 84.25 1 60.17 ? CBD HEM 501 B 1 
HETATM 36 C CGD HEM . . . D 2 4.341 101.642 84.987 1 67.52 ? CGD HEM 501 B 1 
HETATM 37 O O1D HEM . . . D 2 3.984 101.291 86.146 1 72.27 ? O1D HEM 501 B 1 
HETATM 38 O O2D HEM . . . D 2 3.884 102.71 84.483 1 60.96 ? O2D HEM 501 B 1 
HETATM 39 N NA HEM . . . D 2 10.365 100.842 80.985 1 35.1 ? NA HEM 501 B 1 
HETATM 40 N NB HEM . . . D 2 11.784 98.895 79.745 1 32 ? NB HEM 501 B 1 
HETATM 41 N NC HEM . . . D 2 9.545 97.125 79.722 1 31.04 ? NC HEM 501 B 1 
HETATM 42 N ND HEM . . . D 2 8.098 99.127 81.034 1 32.41 ? ND HEM 501 B 1 
HETATM 43 FE FE HEM . . . D 2 9.958 99.007 80.429 1 47.84 ? FE HEM 501 B 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           428 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           43 
#