data_3NWL # _model_server_result.job_id EwMWUJRTFJCDBUknrYLkVQ _model_server_result.datetime_utc '2024-11-15 15:33:21' _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 3nwl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":527}' # _entry.id 3NWL # _exptl.entry_id 3NWL _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 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 3NWL _cell.length_a 68.652 _cell.length_b 173.744 _cell.length_c 186.325 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NWL _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 E N N ? 2 G N N ? 2 I N N ? 2 K 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 OH TYR 358 A TYR 357 1_555 E FE HEM . A HEM 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? metalc ? metalc2 B OH TYR 358 B TYR 357 1_555 G FE HEM . B HEM 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.991 ? metalc ? metalc3 C OH TYR 358 C TYR 357 1_555 I FE HEM . C HEM 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? metalc ? metalc4 D OH TYR 358 D TYR 357 1_555 K FE HEM . D HEM 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? # _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 3NWL _atom_sites.fract_transf_matrix[1][1] 0.014566 _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] 0.005756 _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] 0.005367 _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 1 527 502 HEM HEM . F 3 NDP A 1 528 503 NDP NDP . G 2 HEM B 1 527 502 HEM HEM . H 3 NDP B 1 528 503 NDP NDP . I 2 HEM C 1 527 502 HEM HEM . J 3 NDP C 1 528 503 NDP NDP . K 2 HEM D 1 527 502 HEM HEM . L 3 NDP D 1 528 503 NDP NDP . M 4 HOH A 1 529 1 HOH HOH . M 4 HOH A 2 530 3 HOH HOH . M 4 HOH A 3 531 5 HOH HOH . M 4 HOH A 4 532 11 HOH HOH . M 4 HOH A 5 533 14 HOH HOH . M 4 HOH A 6 534 15 HOH HOH . M 4 HOH A 7 535 16 HOH HOH . M 4 HOH A 8 536 20 HOH HOH . M 4 HOH A 9 537 21 HOH HOH . M 4 HOH A 10 538 27 HOH HOH . M 4 HOH A 11 539 29 HOH HOH . M 4 HOH A 12 540 38 HOH HOH . M 4 HOH A 13 541 42 HOH HOH . M 4 HOH A 14 542 47 HOH HOH . M 4 HOH A 15 543 60 HOH HOH . M 4 HOH A 16 544 61 HOH HOH . M 4 HOH A 17 545 63 HOH HOH . M 4 HOH A 18 546 67 HOH HOH . M 4 HOH A 19 547 68 HOH HOH . M 4 HOH A 20 548 72 HOH HOH . M 4 HOH A 21 549 74 HOH HOH . M 4 HOH A 22 550 77 HOH HOH . M 4 HOH A 23 551 82 HOH HOH . M 4 HOH A 24 552 84 HOH HOH . M 4 HOH A 25 553 94 HOH HOH . M 4 HOH A 26 554 98 HOH HOH . M 4 HOH A 27 555 104 HOH HOH . M 4 HOH A 28 556 106 HOH HOH . M 4 HOH A 29 557 107 HOH HOH . M 4 HOH A 30 558 109 HOH HOH . M 4 HOH A 31 559 115 HOH HOH . M 4 HOH A 32 560 128 HOH HOH . M 4 HOH A 33 561 132 HOH HOH . M 4 HOH A 34 562 142 HOH HOH . M 4 HOH A 35 563 143 HOH HOH . M 4 HOH A 36 564 144 HOH HOH . M 4 HOH A 37 565 145 HOH HOH . N 4 HOH B 1 529 9 HOH HOH . N 4 HOH B 2 530 34 HOH HOH . N 4 HOH B 3 531 48 HOH HOH . N 4 HOH B 4 532 51 HOH HOH . N 4 HOH B 5 533 54 HOH HOH . N 4 HOH B 6 534 56 HOH HOH . N 4 HOH B 7 535 75 HOH HOH . N 4 HOH B 8 536 78 HOH HOH . N 4 HOH B 9 537 79 HOH HOH . N 4 HOH B 10 538 85 HOH HOH . N 4 HOH B 11 539 86 HOH HOH . N 4 HOH B 12 540 88 HOH HOH . N 4 HOH B 13 541 92 HOH HOH . N 4 HOH B 14 542 97 HOH HOH . N 4 HOH B 15 543 102 HOH HOH . N 4 HOH B 16 544 103 HOH HOH . N 4 HOH B 17 545 105 HOH HOH . N 4 HOH B 18 546 111 HOH HOH . N 4 HOH B 19 547 112 HOH HOH . N 4 HOH B 20 548 121 HOH HOH . N 4 HOH B 21 549 129 HOH HOH . O 4 HOH C 1 529 4 HOH HOH . O 4 HOH C 2 530 10 HOH HOH . O 4 HOH C 3 531 22 HOH HOH . O 4 HOH C 4 532 24 HOH HOH . O 4 HOH C 5 533 26 HOH HOH . O 4 HOH C 6 534 28 HOH HOH . O 4 HOH C 7 535 37 HOH HOH . O 4 HOH C 8 536 41 HOH HOH . O 4 HOH C 9 537 45 HOH HOH . O 4 HOH C 10 538 46 HOH HOH . O 4 HOH C 11 539 52 HOH HOH . O 4 HOH C 12 540 53 HOH HOH . O 4 HOH C 13 541 64 HOH HOH . O 4 HOH C 14 542 66 HOH HOH . O 4 HOH C 15 543 70 HOH HOH . O 4 HOH C 16 544 71 HOH HOH . O 4 HOH C 17 545 73 HOH HOH . O 4 HOH C 18 546 76 HOH HOH . O 4 HOH C 19 547 81 HOH HOH . O 4 HOH C 20 548 89 HOH HOH . O 4 HOH C 21 549 95 HOH HOH . O 4 HOH C 22 550 110 HOH HOH . O 4 HOH C 23 551 117 HOH HOH . O 4 HOH C 24 552 118 HOH HOH . O 4 HOH C 25 553 120 HOH HOH . O 4 HOH C 26 554 122 HOH HOH . O 4 HOH C 27 555 125 HOH HOH . O 4 HOH C 28 556 133 HOH HOH . O 4 HOH C 29 557 138 HOH HOH . O 4 HOH C 30 558 139 HOH HOH . O 4 HOH C 31 559 147 HOH HOH . P 4 HOH D 1 529 2 HOH HOH . P 4 HOH D 2 530 13 HOH HOH . P 4 HOH D 3 531 18 HOH HOH . P 4 HOH D 4 532 23 HOH HOH . P 4 HOH D 5 533 30 HOH HOH . P 4 HOH D 6 534 31 HOH HOH . P 4 HOH D 7 535 33 HOH HOH . P 4 HOH D 8 536 35 HOH HOH . P 4 HOH D 9 537 39 HOH HOH . P 4 HOH D 10 538 40 HOH HOH . P 4 HOH D 11 539 44 HOH HOH . P 4 HOH D 12 540 49 HOH HOH . P 4 HOH D 13 541 50 HOH HOH . P 4 HOH D 14 542 55 HOH HOH . P 4 HOH D 15 543 57 HOH HOH . P 4 HOH D 16 544 58 HOH HOH . P 4 HOH D 17 545 59 HOH HOH . P 4 HOH D 18 546 62 HOH HOH . P 4 HOH D 19 547 65 HOH HOH . P 4 HOH D 20 548 80 HOH HOH . P 4 HOH D 21 549 87 HOH HOH . P 4 HOH D 22 550 90 HOH HOH . P 4 HOH D 23 551 96 HOH HOH . P 4 HOH D 24 552 99 HOH HOH . P 4 HOH D 25 553 100 HOH HOH . P 4 HOH D 26 554 101 HOH HOH . P 4 HOH D 27 555 108 HOH HOH . P 4 HOH D 28 556 116 HOH HOH . P 4 HOH D 29 557 124 HOH HOH . P 4 HOH D 30 558 126 HOH HOH . P 4 HOH D 31 559 135 HOH HOH . P 4 HOH D 32 560 146 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 61.084 84.159 146.346 1 5.11 ? CHA HEM 527 A 1 HETATM 2 C CHB HEM . . . E 2 62.335 87.744 143.466 1 6.48 ? CHB HEM 527 A 1 HETATM 3 C CHC HEM . . . E 2 61.372 90.777 147.098 1 11.5 ? CHC HEM 527 A 1 HETATM 4 C CHD HEM . . . E 2 59.126 87.294 149.526 1 12.13 ? CHD HEM 527 A 1 HETATM 5 C C1A HEM . . . E 2 61.536 84.831 145.263 1 5.07 ? C1A HEM 527 A 1 HETATM 6 C C2A HEM . . . E 2 62.048 84.27 144.027 1 5.43 ? C2A HEM 527 A 1 HETATM 7 C C3A HEM . . . E 2 62.402 85.289 143.217 1 5.73 ? C3A HEM 527 A 1 HETATM 8 C C4A HEM . . . E 2 62.145 86.496 143.947 1 5.29 ? C4A HEM 527 A 1 HETATM 9 C CMA HEM . . . E 2 62.979 85.245 141.775 1 3.27 ? CMA HEM 527 A 1 HETATM 10 C CAA HEM . . . E 2 62.095 82.764 143.693 1 5.34 ? CAA HEM 527 A 1 HETATM 11 C CBA HEM . . . E 2 60.687 82.365 143.242 1 2 ? CBA HEM 527 A 1 HETATM 12 C CGA HEM . . . E 2 60.648 80.885 142.941 1 5.05 ? CGA HEM 527 A 1 HETATM 13 O O1A HEM . . . E 2 59.613 80.245 143.227 1 7.98 ? O1A HEM 527 A 1 HETATM 14 O O2A HEM . . . E 2 61.629 80.315 142.395 1 5.38 ? O2A HEM 527 A 1 HETATM 15 C C1B HEM . . . E 2 62.141 88.884 144.194 1 8.3 ? C1B HEM 527 A 1 HETATM 16 C C2B HEM . . . E 2 62.381 90.227 143.704 1 8.28 ? C2B HEM 527 A 1 HETATM 17 C C3B HEM . . . E 2 62.131 91.06 144.705 1 11.5 ? C3B HEM 527 A 1 HETATM 18 C C4B HEM . . . E 2 61.712 90.271 145.872 1 10.65 ? C4B HEM 527 A 1 HETATM 19 C CMB HEM . . . E 2 62.833 90.605 142.281 1 10.07 ? CMB HEM 527 A 1 HETATM 20 C CAB HEM . . . E 2 62.245 92.611 144.673 1 12.68 ? CAB HEM 527 A 1 HETATM 21 C CBB HEM . . . E 2 61.955 93.301 143.565 1 14.59 ? CBB HEM 527 A 1 HETATM 22 C C1C HEM . . . E 2 60.593 90.146 148.023 1 16.74 ? C1C HEM 527 A 1 HETATM 23 C C2C HEM . . . E 2 59.834 90.779 149.095 1 19.35 ? C2C HEM 527 A 1 HETATM 24 C C3C HEM . . . E 2 59.194 89.814 149.781 1 20.16 ? C3C HEM 527 A 1 HETATM 25 C C4C HEM . . . E 2 59.549 88.532 149.164 1 16.52 ? C4C HEM 527 A 1 HETATM 26 C CMC HEM . . . E 2 59.759 92.295 149.404 1 19.99 ? CMC HEM 527 A 1 HETATM 27 C CAC HEM . . . E 2 58.247 90.054 151.005 1 22.88 ? CAC HEM 527 A 1 HETATM 28 C CBC HEM . . . E 2 57.2 90.899 150.916 1 21.02 ? CBC HEM 527 A 1 HETATM 29 C C1D HEM . . . E 2 59.477 86.134 148.907 1 8.57 ? C1D HEM 527 A 1 HETATM 30 C C2D HEM . . . E 2 59.076 84.825 149.357 1 8.53 ? C2D HEM 527 A 1 HETATM 31 C C3D HEM . . . E 2 59.684 83.863 148.396 1 9.48 ? C3D HEM 527 A 1 HETATM 32 C C4D HEM . . . E 2 60.389 84.672 147.413 1 8.63 ? C4D HEM 527 A 1 HETATM 33 C CMD HEM . . . E 2 58.234 84.414 150.573 1 10.91 ? CMD HEM 527 A 1 HETATM 34 C CAD HEM . . . E 2 59.505 82.347 148.49 1 11.48 ? CAD HEM 527 A 1 HETATM 35 C CBD HEM . . . E 2 58.197 82.022 147.761 1 14.21 ? CBD HEM 527 A 1 HETATM 36 C CGD HEM . . . E 2 58.061 80.517 147.637 1 15.5 ? CGD HEM 527 A 1 HETATM 37 O O1D HEM . . . E 2 57.864 80.028 146.48 1 17.72 ? O1D HEM 527 A 1 HETATM 38 O O2D HEM . . . E 2 58.188 79.824 148.685 1 13.65 ? O2D HEM 527 A 1 HETATM 39 N NA HEM . . . E 2 61.605 86.182 145.173 1 7.11 ? NA HEM 527 A 1 HETATM 40 N NB HEM . . . E 2 61.724 88.947 145.513 1 8.25 ? NB HEM 527 A 1 HETATM 41 N NC HEM . . . E 2 60.384 88.777 148.097 1 15.55 ? NC HEM 527 A 1 HETATM 42 N ND HEM . . . E 2 60.222 86.008 147.752 1 8.11 ? ND HEM 527 A 1 HETATM 43 FE FE HEM . . . E 2 60.943 87.479 146.627 1 9.99 ? FE HEM 527 A 1 # _model_server_stats.io_time_ms 36 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 294 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #