data_4NL5 # _model_server_result.job_id vNRwzS9jNU_QtNWCD7Zorg _model_server_result.datetime_utc '2024-11-28 11:32:23' _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 4nl5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":201}' # _entry.id 4NL5 # _exptl.entry_id 4NL5 _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 90 _cell.entry_id 4NL5 _cell.length_a 40.97 _cell.length_b 60.4 _cell.length_c 78.46 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4NL5 _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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,C,D,E,F,G,H,I,J 1 1 A,C,D,E,I 2 1 B,F,G,H,J 2 2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_455 -x-1/2,-y,z+1/2 -1 0 0 0 -1 0 0 0 1 -20.485 0 39.23 # 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 F 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 75 A HIS 75 1_555 C FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? metalc ? metalc2 C FE HEM . A HEM 201 1_555 D C CYN . A CYN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc3 B NE2 HIS 75 B HIS 75 1_555 F FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc4 F FE HEM . B HEM 201 1_555 G C CYN . B CYN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? # _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 123 n n CHA C4D HEM doub 124 n n CHA HHA HEM sing 125 n n CHB C4A HEM sing 126 n n CHB C1B HEM doub 127 n n CHB HHB HEM sing 128 n n CHC C4B HEM sing 129 n n CHC C1C HEM doub 130 n n CHC HHC HEM sing 131 n n CHD C4C HEM doub 132 n n CHD C1D HEM sing 133 n n CHD HHD HEM sing 134 n n C1A C2A HEM doub 135 n y C1A NA HEM sing 136 n y C2A C3A HEM sing 137 n y C2A CAA HEM sing 138 n n C3A C4A HEM doub 139 n y C3A CMA HEM sing 140 n n C4A NA HEM sing 141 n y CMA HMA HEM sing 142 n n CMA HMAA HEM sing 143 n n CMA HMAB HEM sing 144 n n CAA CBA HEM sing 145 n n CAA HAA HEM sing 146 n n CAA HAAA HEM sing 147 n n CBA CGA HEM sing 148 n n CBA HBA HEM sing 149 n n CBA HBAA HEM sing 150 n n CGA O1A HEM doub 151 n n CGA O2A HEM sing 152 n n C1B C2B HEM sing 153 n n C1B NB HEM sing 154 n n C2B C3B HEM doub 155 n n C2B CMB HEM sing 156 n n C3B C4B HEM sing 157 n n C3B CAB HEM sing 158 n n C4B NB HEM doub 159 n n CMB HMB HEM sing 160 n n CMB HMBA HEM sing 161 n n CMB HMBB HEM sing 162 n n CAB CBB HEM doub 163 n n CAB HAB HEM sing 164 n n CBB HBB HEM sing 165 n n CBB HBBA HEM sing 166 n n C1C C2C HEM sing 167 n y C1C NC HEM sing 168 n y C2C C3C HEM doub 169 n y C2C CMC HEM sing 170 n n C3C C4C HEM sing 171 n y C3C CAC HEM sing 172 n n C4C NC HEM sing 173 n y CMC HMC HEM sing 174 n n CMC HMCA HEM sing 175 n n CMC HMCB HEM sing 176 n n CAC CBC HEM doub 177 n n CAC HAC HEM sing 178 n n CBC HBC HEM sing 179 n n CBC HBCA HEM sing 180 n n C1D C2D HEM sing 181 n n C1D ND HEM doub 182 n n C2D C3D HEM doub 183 n n C2D CMD HEM sing 184 n n C3D C4D HEM sing 185 n n C3D CAD HEM sing 186 n n C4D ND HEM sing 187 n n CMD HMD HEM sing 188 n n CMD HMDA HEM sing 189 n n CMD HMDB HEM sing 190 n n CAD CBD HEM sing 191 n n CAD HAD HEM sing 192 n n CAD HADA HEM sing 193 n n CBD CGD HEM sing 194 n n CBD HBD HEM sing 195 n n CBD HBDA HEM sing 196 n n CGD O1D HEM doub 197 n n CGD O2D HEM sing 198 n n O2A H2A HEM sing 199 n n O2D H2D HEM sing 200 n n FE NA HEM sing 201 n n FE NB HEM sing 202 n n FE NC HEM sing 203 n n FE ND HEM sing 204 n n # _atom_sites.entry_id 4NL5 _atom_sites.fract_transf_matrix[1][1] 0.024408 _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] 0.016556 _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] 0.012745 _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 1 201 1 HEM HEM . D 3 CYN A 1 202 1 CYN CYN . E 4 ACT A 1 203 1 ACT ACT . F 2 HEM B 1 201 1 HEM HEM . G 3 CYN B 1 202 1 CYN CYN . H 4 ACT B 1 203 1 ACT ACT . I 5 HOH A 1 301 1 HOH HOH . I 5 HOH A 2 302 5 HOH HOH . I 5 HOH A 3 303 6 HOH HOH . I 5 HOH A 4 304 10 HOH HOH . I 5 HOH A 5 305 12 HOH HOH . I 5 HOH A 6 306 13 HOH HOH . I 5 HOH A 7 307 14 HOH HOH . I 5 HOH A 8 308 19 HOH HOH . I 5 HOH A 9 309 20 HOH HOH . I 5 HOH A 10 310 22 HOH HOH . I 5 HOH A 11 311 25 HOH HOH . I 5 HOH A 12 312 26 HOH HOH . I 5 HOH A 13 313 29 HOH HOH . I 5 HOH A 14 314 31 HOH HOH . I 5 HOH A 15 315 34 HOH HOH . I 5 HOH A 16 316 36 HOH HOH . I 5 HOH A 17 317 38 HOH HOH . I 5 HOH A 18 318 39 HOH HOH . I 5 HOH A 19 319 41 HOH HOH . I 5 HOH A 20 320 43 HOH HOH . I 5 HOH A 21 321 45 HOH HOH . I 5 HOH A 22 322 48 HOH HOH . I 5 HOH A 23 323 51 HOH HOH . I 5 HOH A 24 324 52 HOH HOH . I 5 HOH A 25 325 54 HOH HOH . I 5 HOH A 26 326 55 HOH HOH . I 5 HOH A 27 327 56 HOH HOH . I 5 HOH A 28 328 58 HOH HOH . I 5 HOH A 29 329 59 HOH HOH . I 5 HOH A 30 330 62 HOH HOH . I 5 HOH A 31 331 64 HOH HOH . I 5 HOH A 32 332 66 HOH HOH . I 5 HOH A 33 333 68 HOH HOH . I 5 HOH A 34 334 69 HOH HOH . I 5 HOH A 35 335 73 HOH HOH . I 5 HOH A 36 336 74 HOH HOH . I 5 HOH A 37 337 75 HOH HOH . I 5 HOH A 38 338 77 HOH HOH . I 5 HOH A 39 339 78 HOH HOH . I 5 HOH A 40 340 79 HOH HOH . I 5 HOH A 41 341 80 HOH HOH . I 5 HOH A 42 342 81 HOH HOH . I 5 HOH A 43 343 82 HOH HOH . I 5 HOH A 44 344 83 HOH HOH . I 5 HOH A 45 345 84 HOH HOH . I 5 HOH A 46 346 86 HOH HOH . I 5 HOH A 47 347 87 HOH HOH . I 5 HOH A 48 348 91 HOH HOH . I 5 HOH A 49 349 92 HOH HOH . I 5 HOH A 50 350 94 HOH HOH . J 5 HOH B 1 301 93 HOH HOH . J 5 HOH B 2 302 2 HOH HOH . J 5 HOH B 3 303 3 HOH HOH . J 5 HOH B 4 304 4 HOH HOH . J 5 HOH B 5 305 7 HOH HOH . J 5 HOH B 6 306 8 HOH HOH . J 5 HOH B 7 307 9 HOH HOH . J 5 HOH B 8 308 11 HOH HOH . J 5 HOH B 9 309 15 HOH HOH . J 5 HOH B 10 310 16 HOH HOH . J 5 HOH B 11 311 17 HOH HOH . J 5 HOH B 12 312 18 HOH HOH . J 5 HOH B 13 313 21 HOH HOH . J 5 HOH B 14 314 23 HOH HOH . J 5 HOH B 15 315 24 HOH HOH . J 5 HOH B 16 316 27 HOH HOH . J 5 HOH B 17 317 28 HOH HOH . J 5 HOH B 18 318 30 HOH HOH . J 5 HOH B 19 319 32 HOH HOH . J 5 HOH B 20 320 33 HOH HOH . J 5 HOH B 21 321 35 HOH HOH . J 5 HOH B 22 322 37 HOH HOH . J 5 HOH B 23 323 40 HOH HOH . J 5 HOH B 24 324 42 HOH HOH . J 5 HOH B 25 325 44 HOH HOH . J 5 HOH B 26 326 46 HOH HOH . J 5 HOH B 27 327 47 HOH HOH . J 5 HOH B 28 328 49 HOH HOH . J 5 HOH B 29 329 50 HOH HOH . J 5 HOH B 30 330 53 HOH HOH . J 5 HOH B 31 331 57 HOH HOH . J 5 HOH B 32 332 60 HOH HOH . J 5 HOH B 33 333 61 HOH HOH . J 5 HOH B 34 334 63 HOH HOH . J 5 HOH B 35 335 65 HOH HOH . J 5 HOH B 36 336 67 HOH HOH . J 5 HOH B 37 337 70 HOH HOH . J 5 HOH B 38 338 71 HOH HOH . J 5 HOH B 39 339 72 HOH HOH . J 5 HOH B 40 340 76 HOH HOH . J 5 HOH B 41 341 85 HOH HOH . J 5 HOH B 42 342 88 HOH HOH . J 5 HOH B 43 343 89 HOH HOH . J 5 HOH B 44 344 90 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 -20.307 5.863 -3.544 1 30.79 ? CHA HEM 201 B 1 HETATM 2 C CHB HEM . . . F 2 -16.299 4.01 -5.533 1 22.62 ? CHB HEM 201 B 1 HETATM 3 C CHC HEM . . . F 2 -17.484 -0.209 -3.503 1 23.63 ? CHC HEM 201 B 1 HETATM 4 C CHD HEM . . . F 2 -22.067 1.354 -3.615 1 23.74 ? CHD HEM 201 B 1 HETATM 5 C C1A HEM . . . F 2 -19.09 5.745 -4.173 1 23.9 ? C1A HEM 201 B 1 HETATM 6 C C2A HEM . . . F 2 -18.271 6.843 -4.625 1 22.06 ? C2A HEM 201 B 1 HETATM 7 C C3A HEM . . . F 2 -17.159 6.342 -5.164 1 23.95 ? C3A HEM 201 B 1 HETATM 8 C C4A HEM . . . F 2 -17.245 4.9 -5.081 1 25.75 ? C4A HEM 201 B 1 HETATM 9 C CMA HEM . . . F 2 -15.995 7.154 -5.782 1 24.08 ? CMA HEM 201 B 1 HETATM 10 C CAA HEM . . . F 2 -18.614 8.337 -4.49 1 30.11 ? CAA HEM 201 B 1 HETATM 11 C CBA HEM . . . F 2 -19.195 8.848 -5.803 1 34.31 ? CBA HEM 201 B 1 HETATM 12 C CGA HEM . . . F 2 -20.502 8.152 -6.112 1 48.06 ? CGA HEM 201 B 1 HETATM 13 O O1A HEM . . . F 2 -20.648 7.607 -7.243 1 51.09 ? O1A HEM 201 B 1 HETATM 14 O O2A HEM . . . F 2 -21.403 8.137 -5.228 1 44.27 ? O2A HEM 201 B 1 HETATM 15 C C1B HEM . . . F 2 -16.187 2.739 -5.036 1 23.73 ? C1B HEM 201 B 1 HETATM 16 C C2B HEM . . . F 2 -14.987 1.943 -4.946 1 20.68 ? C2B HEM 201 B 1 HETATM 17 C C3B HEM . . . F 2 -15.297 0.78 -4.378 1 19.41 ? C3B HEM 201 B 1 HETATM 18 C C4B HEM . . . F 2 -16.726 0.779 -4.083 1 24.43 ? C4B HEM 201 B 1 HETATM 19 C CMB HEM . . . F 2 -13.565 2.33 -5.41 1 21.15 ? CMB HEM 201 B 1 HETATM 20 C CAB HEM . . . F 2 -14.218 -0.295 -4.138 1 29.34 ? CAB HEM 201 B 1 HETATM 21 C CBB HEM . . . F 2 -14.37 -1.32 -3.313 1 33.93 ? CBB HEM 201 B 1 HETATM 22 C C1C HEM . . . F 2 -18.861 -0.181 -3.431 1 23.24 ? C1C HEM 201 B 1 HETATM 23 C C2C HEM . . . F 2 -19.737 -1.301 -3.15 1 21.28 ? C2C HEM 201 B 1 HETATM 24 C C3C HEM . . . F 2 -21.007 -0.846 -3.183 1 27.64 ? C3C HEM 201 B 1 HETATM 25 C C4C HEM . . . F 2 -20.96 0.553 -3.497 1 24.11 ? C4C HEM 201 B 1 HETATM 26 C CMC HEM . . . F 2 -19.251 -2.734 -2.829 1 22.49 ? CMC HEM 201 B 1 HETATM 27 C CAC HEM . . . F 2 -22.369 -1.545 -2.963 1 38.79 ? CAC HEM 201 B 1 HETATM 28 C CBC HEM . . . F 2 -22.556 -2.864 -2.883 1 48.43 ? CBC HEM 201 B 1 HETATM 29 C C1D HEM . . . F 2 -22.045 2.714 -3.446 1 21.52 ? C1D HEM 201 B 1 HETATM 30 C C2D HEM . . . F 2 -23.144 3.558 -3.028 1 23.59 ? C2D HEM 201 B 1 HETATM 31 C C3D HEM . . . F 2 -22.566 4.981 -2.997 1 25.71 ? C3D HEM 201 B 1 HETATM 32 C C4D HEM . . . F 2 -21.196 4.836 -3.406 1 22.79 ? C4D HEM 201 B 1 HETATM 33 C CMD HEM . . . F 2 -24.575 3.099 -2.665 1 24.97 ? CMD HEM 201 B 1 HETATM 34 C CAD HEM . . . F 2 -23.241 6.32 -2.636 1 30.37 ? CAD HEM 201 B 1 HETATM 35 C CBD HEM . . . F 2 -23.987 6.802 -3.875 1 32.96 ? CBD HEM 201 B 1 HETATM 36 C CGD HEM . . . F 2 -24.768 8.044 -3.536 1 35.72 ? CGD HEM 201 B 1 HETATM 37 O O1D HEM . . . F 2 -25.825 8.266 -4.187 1 41.04 ? O1D HEM 201 B 1 HETATM 38 O O2D HEM . . . F 2 -24.341 8.793 -2.615 1 32.06 ? O2D HEM 201 B 1 HETATM 39 N NA HEM . . . F 2 -18.45 4.558 -4.465 1 19.22 ? NA HEM 201 B 1 HETATM 40 N NB HEM . . . F 2 -17.221 1.996 -4.499 1 22.36 ? NB HEM 201 B 1 HETATM 41 N NC HEM . . . F 2 -19.642 0.939 -3.654 1 18.93 ? NC HEM 201 B 1 HETATM 42 N ND HEM . . . F 2 -20.935 3.505 -3.651 1 22.27 ? ND HEM 201 B 1 HETATM 43 FE FE HEM . . . F 2 -19.07 2.73 -4.068 1 22.53 ? FE HEM 201 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 43 #