data_6DWM # _model_server_result.job_id Rye_Q5ZnNQiDT7LcS_Z0VA _model_server_result.datetime_utc '2024-11-27 06:28:42' _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 6dwm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":601}' # _entry.id 6DWM # _exptl.entry_id 6DWM _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 6DWM _cell.length_a 65.33 _cell.length_b 194.758 _cell.length_c 236.137 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DWM _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,G,Q 1 1 B,H,I,J,R 2 1 C,K,L 3 1 D,M,N,O,P 4 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 H N N ? 2 K N N ? 2 M 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 430 A CYS 457 1_555 E FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.683 ? metalc ? metalc2 B SG CYS 430 B CYS 457 1_555 H FE HEM . B HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? # _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 245 n n CHA C4D HEM doub 246 n n CHA HHA HEM sing 247 n n CHB C4A HEM sing 248 n n CHB C1B HEM doub 249 n n CHB HHB HEM sing 250 n n CHC C4B HEM sing 251 n n CHC C1C HEM doub 252 n n CHC HHC HEM sing 253 n n CHD C4C HEM doub 254 n n CHD C1D HEM sing 255 n n CHD HHD HEM sing 256 n n C1A C2A HEM doub 257 n y C1A NA HEM sing 258 n y C2A C3A HEM sing 259 n y C2A CAA HEM sing 260 n n C3A C4A HEM doub 261 n y C3A CMA HEM sing 262 n n C4A NA HEM sing 263 n y CMA HMA HEM sing 264 n n CMA HMAA HEM sing 265 n n CMA HMAB HEM sing 266 n n CAA CBA HEM sing 267 n n CAA HAA HEM sing 268 n n CAA HAAA HEM sing 269 n n CBA CGA HEM sing 270 n n CBA HBA HEM sing 271 n n CBA HBAA HEM sing 272 n n CGA O1A HEM doub 273 n n CGA O2A HEM sing 274 n n C1B C2B HEM sing 275 n n C1B NB HEM sing 276 n n C2B C3B HEM doub 277 n n C2B CMB HEM sing 278 n n C3B C4B HEM sing 279 n n C3B CAB HEM sing 280 n n C4B NB HEM doub 281 n n CMB HMB HEM sing 282 n n CMB HMBA HEM sing 283 n n CMB HMBB HEM sing 284 n n CAB CBB HEM doub 285 n n CAB HAB HEM sing 286 n n CBB HBB HEM sing 287 n n CBB HBBA HEM sing 288 n n C1C C2C HEM sing 289 n y C1C NC HEM sing 290 n y C2C C3C HEM doub 291 n y C2C CMC HEM sing 292 n n C3C C4C HEM sing 293 n y C3C CAC HEM sing 294 n n C4C NC HEM sing 295 n y CMC HMC HEM sing 296 n n CMC HMCA HEM sing 297 n n CMC HMCB HEM sing 298 n n CAC CBC HEM doub 299 n n CAC HAC HEM sing 300 n n CBC HBC HEM sing 301 n n CBC HBCA HEM sing 302 n n C1D C2D HEM sing 303 n n C1D ND HEM doub 304 n n C2D C3D HEM doub 305 n n C2D CMD HEM sing 306 n n C3D C4D HEM sing 307 n n C3D CAD HEM sing 308 n n C4D ND HEM sing 309 n n CMD HMD HEM sing 310 n n CMD HMDA HEM sing 311 n n CMD HMDB HEM sing 312 n n CAD CBD HEM sing 313 n n CAD HAD HEM sing 314 n n CAD HADA HEM sing 315 n n CBD CGD HEM sing 316 n n CBD HBD HEM sing 317 n n CBD HBDA HEM sing 318 n n CGD O1D HEM doub 319 n n CGD O2D HEM sing 320 n n O2A H2A HEM sing 321 n n O2D H2D HEM sing 322 n n FE NA HEM sing 323 n n FE NB HEM sing 324 n n FE NC HEM sing 325 n n FE ND HEM sing 326 n n # _atom_sites.entry_id 6DWM _atom_sites.fract_transf_matrix[1][1] 0.015307 _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] 0.005135 _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] 0.004235 _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 1 601 601 HEM HEM . F 3 HJJ A 1 602 1 HJJ LIG . G 4 CPS A 1 603 1 CPS CPS . H 2 HEM B 1 601 601 HEM HEM . I 3 HJJ B 1 602 2 HJJ LIG . J 5 GOL B 1 603 1 GOL GOL . K 2 HEM C 1 601 601 HEM HEM . L 3 HJJ C 1 602 3 HJJ LIG . M 2 HEM D 1 601 601 HEM HEM . N 3 HJJ D 1 602 4 HJJ LIG . O 4 CPS D 1 603 2 CPS CPS . P 5 GOL D 1 604 2 GOL GOL . Q 6 HOH A 1 701 11 HOH HOH . Q 6 HOH A 2 702 3 HOH HOH . Q 6 HOH A 3 703 10 HOH HOH . Q 6 HOH A 4 704 38 HOH HOH . Q 6 HOH A 5 705 13 HOH HOH . Q 6 HOH A 6 706 23 HOH HOH . Q 6 HOH A 7 707 35 HOH HOH . Q 6 HOH A 8 708 29 HOH HOH . Q 6 HOH A 9 709 28 HOH HOH . Q 6 HOH A 10 710 34 HOH HOH . Q 6 HOH A 11 711 37 HOH HOH . Q 6 HOH A 12 712 33 HOH HOH . Q 6 HOH A 13 713 4 HOH HOH . Q 6 HOH A 14 714 42 HOH HOH . Q 6 HOH A 15 715 40 HOH HOH . Q 6 HOH A 16 716 6 HOH HOH . Q 6 HOH A 17 717 36 HOH HOH . Q 6 HOH A 18 718 30 HOH HOH . Q 6 HOH A 19 719 27 HOH HOH . R 6 HOH B 1 701 2 HOH HOH . R 6 HOH B 2 702 5 HOH HOH . R 6 HOH B 3 703 7 HOH HOH . R 6 HOH B 4 704 22 HOH HOH . R 6 HOH B 5 705 14 HOH HOH . R 6 HOH B 6 706 31 HOH HOH . R 6 HOH B 7 707 26 HOH HOH . R 6 HOH B 8 708 12 HOH HOH . R 6 HOH B 9 709 32 HOH HOH . R 6 HOH B 10 710 39 HOH HOH . R 6 HOH B 11 711 18 HOH HOH . R 6 HOH B 12 712 21 HOH HOH . R 6 HOH B 13 713 17 HOH HOH . R 6 HOH B 14 714 25 HOH HOH . R 6 HOH B 15 715 46 HOH HOH . R 6 HOH B 16 716 15 HOH HOH . R 6 HOH B 17 717 8 HOH HOH . R 6 HOH B 18 718 16 HOH HOH . R 6 HOH B 19 719 43 HOH HOH . R 6 HOH B 20 720 24 HOH HOH . R 6 HOH B 21 721 19 HOH HOH . R 6 HOH B 22 722 1 HOH HOH . R 6 HOH B 23 723 9 HOH HOH . R 6 HOH B 24 724 44 HOH HOH . R 6 HOH B 25 725 20 HOH HOH . R 6 HOH B 26 726 41 HOH HOH . R 6 HOH B 27 727 45 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 . . . M 2 13.758 -12.112 -54.081 1 60.97 ? CHA HEM 601 D 1 HETATM 2 C CHB HEM . . . M 2 10.798 -8.311 -53.595 1 54.32 ? CHB HEM 601 D 1 HETATM 3 C CHC HEM . . . M 2 14.651 -5.464 -52.885 1 55.13 ? CHC HEM 601 D 1 HETATM 4 C CHD HEM . . . M 2 17.586 -9.298 -53.125 1 57.21 ? CHD HEM 601 D 1 HETATM 5 C C1A HEM . . . M 2 12.627 -11.334 -54.057 1 55.01 ? C1A HEM 601 D 1 HETATM 6 C C2A HEM . . . M 2 11.285 -11.78 -54.369 1 61.75 ? C2A HEM 601 D 1 HETATM 7 C C3A HEM . . . M 2 10.471 -10.728 -54.234 1 57.93 ? C3A HEM 601 D 1 HETATM 8 C C4A HEM . . . M 2 11.266 -9.584 -53.833 1 55.16 ? C4A HEM 601 D 1 HETATM 9 C CMA HEM . . . M 2 8.944 -10.718 -54.461 1 61.36 ? CMA HEM 601 D 1 HETATM 10 C CAA HEM . . . M 2 10.888 -13.215 -54.796 1 62.44 ? CAA HEM 601 D 1 HETATM 11 C CBA HEM . . . M 2 10.121 -13.969 -53.716 1 71.63 ? CBA HEM 601 D 1 HETATM 12 C CGA HEM . . . M 2 9.861 -15.389 -54.16 1 68.3 ? CGA HEM 601 D 1 HETATM 13 O O1A HEM . . . M 2 9.068 -16.086 -53.477 1 70.11 ? O1A HEM 601 D 1 HETATM 14 O O2A HEM . . . M 2 10.404 -15.819 -55.212 1 70.74 ? O2A HEM 601 D 1 HETATM 15 C C1B HEM . . . M 2 11.579 -7.196 -53.385 1 53.89 ? C1B HEM 601 D 1 HETATM 16 C C2B HEM . . . M 2 11.112 -5.831 -53.239 1 53.9 ? C2B HEM 601 D 1 HETATM 17 C C3B HEM . . . M 2 12.187 -5.049 -53.043 1 50.08 ? C3B HEM 601 D 1 HETATM 18 C C4B HEM . . . M 2 13.357 -5.896 -53.06 1 55.28 ? C4B HEM 601 D 1 HETATM 19 C CMB HEM . . . M 2 9.627 -5.411 -53.304 1 54.37 ? CMB HEM 601 D 1 HETATM 20 C CAB HEM . . . M 2 12.282 -3.519 -52.827 1 52.61 ? CAB HEM 601 D 1 HETATM 21 C CBB HEM . . . M 2 11.206 -2.757 -52.626 1 57.88 ? CBB HEM 601 D 1 HETATM 22 C C1C HEM . . . M 2 15.767 -6.262 -52.804 1 57.55 ? C1C HEM 601 D 1 HETATM 23 C C2C HEM . . . M 2 17.083 -5.84 -52.373 1 55.51 ? C2C HEM 601 D 1 HETATM 24 C C3C HEM . . . M 2 17.899 -6.902 -52.445 1 56.12 ? C3C HEM 601 D 1 HETATM 25 C C4C HEM . . . M 2 17.12 -8.023 -52.918 1 53.39 ? C4C HEM 601 D 1 HETATM 26 C CMC HEM . . . M 2 17.426 -4.403 -51.924 1 57.06 ? CMC HEM 601 D 1 HETATM 27 C CAC HEM . . . M 2 19.403 -7.014 -52.096 1 62.36 ? CAC HEM 601 D 1 HETATM 28 C CBC HEM . . . M 2 20.098 -5.989 -51.597 1 60.01 ? CBC HEM 601 D 1 HETATM 29 C C1D HEM . . . M 2 16.809 -10.385 -53.447 1 60.98 ? C1D HEM 601 D 1 HETATM 30 C C2D HEM . . . M 2 17.287 -11.718 -53.74 1 62.03 ? C2D HEM 601 D 1 HETATM 31 C C3D HEM . . . M 2 16.23 -12.498 -54.005 1 62.55 ? C3D HEM 601 D 1 HETATM 32 C C4D HEM . . . M 2 15.045 -11.677 -53.886 1 60.75 ? C4D HEM 601 D 1 HETATM 33 C CMD HEM . . . M 2 18.771 -12.142 -53.748 1 62.89 ? CMD HEM 601 D 1 HETATM 34 C CAD HEM . . . M 2 16.242 -14.002 -54.379 1 67.69 ? CAD HEM 601 D 1 HETATM 35 C CBD HEM . . . M 2 15.647 -14.853 -53.259 1 71.35 ? CBD HEM 601 D 1 HETATM 36 C CGD HEM . . . M 2 15.707 -16.322 -53.607 1 77.66 ? CGD HEM 601 D 1 HETATM 37 O O1D HEM . . . M 2 15.562 -17.163 -52.68 1 80.78 ? O1D HEM 601 D 1 HETATM 38 O O2D HEM . . . M 2 15.892 -16.659 -54.805 1 79.44 ? O2D HEM 601 D 1 HETATM 39 N NA HEM . . . M 2 12.581 -9.992 -53.737 1 52.93 ? NA HEM 601 D 1 HETATM 40 N NB HEM . . . M 2 12.955 -7.197 -53.271 1 55.65 ? NB HEM 601 D 1 HETATM 41 N NC HEM . . . M 2 15.825 -7.6 -53.128 1 53.89 ? NC HEM 601 D 1 HETATM 42 N ND HEM . . . M 2 15.432 -10.397 -53.542 1 56.44 ? ND HEM 601 D 1 HETATM 43 FE FE HEM . . . M 2 14.204 -8.833 -53.251 1 60.72 ? FE HEM 601 D 1 HETATM 44 H HHB HEM . . . M 2 9.826 -8.188 -53.574 1 65.29 ? HHB HEM 601 D 1 HETATM 45 H HHC HEM . . . M 2 14.791 -4.497 -52.812 1 66.27 ? HHC HEM 601 D 1 HETATM 46 H HHD HEM . . . M 2 18.551 -9.445 -53.037 1 68.76 ? HHD HEM 601 D 1 HETATM 47 H HMA HEM . . . M 2 8.748 -10.995 -55.38 1 73.75 ? HMA HEM 601 D 1 HETATM 48 H HMAA HEM . . . M 2 8.598 -9.814 -54.312 1 73.75 ? HMAA HEM 601 D 1 HETATM 49 H HMAB HEM . . . M 2 8.517 -11.339 -53.835 1 73.75 ? HMAB HEM 601 D 1 HETATM 50 H HAA HEM . . . M 2 11.696 -13.71 -55.003 1 75.04 ? HAA HEM 601 D 1 HETATM 51 H HAAA HEM . . . M 2 10.332 -13.159 -55.588 1 75.04 ? HAAA HEM 601 D 1 HETATM 52 H HBA HEM . . . M 2 9.274 -13.523 -53.555 1 86.07 ? HBA HEM 601 D 1 HETATM 53 H HBAA HEM . . . M 2 10.643 -13.978 -52.899 1 86.07 ? HBAA HEM 601 D 1 HETATM 54 H HMB HEM . . . M 2 9.105 -6.128 -53.698 1 65.36 ? HMB HEM 601 D 1 HETATM 55 H HMBA HEM . . . M 2 9.54 -4.612 -53.848 1 65.36 ? HMBA HEM 601 D 1 HETATM 56 H HMBB HEM . . . M 2 9.302 -5.229 -52.409 1 65.36 ? HMBB HEM 601 D 1 HETATM 57 H HAB HEM . . . M 2 13.148 -3.103 -52.838 1 63.24 ? HAB HEM 601 D 1 HETATM 58 H HBB HEM . . . M 2 11.306 -1.802 -52.494 1 69.57 ? HBB HEM 601 D 1 HETATM 59 H HBBA HEM . . . M 2 10.323 -3.159 -52.611 1 69.57 ? HBBA HEM 601 D 1 HETATM 60 H HMC HEM . . . M 2 16.7 -3.807 -52.166 1 68.58 ? HMC HEM 601 D 1 HETATM 61 H HMCA HEM . . . M 2 18.242 -4.113 -52.361 1 68.58 ? HMCA HEM 601 D 1 HETATM 62 H HMCB HEM . . . M 2 17.551 -4.386 -50.962 1 68.58 ? HMCB HEM 601 D 1 HETATM 63 H HAC HEM . . . M 2 19.851 -7.85 -52.243 1 74.95 ? HAC HEM 601 D 1 HETATM 64 H HBC HEM . . . M 2 21.04 -6.097 -51.391 1 72.12 ? HBC HEM 601 D 1 HETATM 65 H HBCA HEM . . . M 2 19.662 -5.137 -51.442 1 72.12 ? HBCA HEM 601 D 1 HETATM 66 H HMD HEM . . . M 2 18.833 -13.117 -53.822 1 75.58 ? HMD HEM 601 D 1 HETATM 67 H HMDA HEM . . . M 2 19.199 -11.85 -52.915 1 75.58 ? HMDA HEM 601 D 1 HETATM 68 H HMDB HEM . . . M 2 19.226 -11.727 -54.511 1 75.58 ? HMDB HEM 601 D 1 HETATM 69 H HAD HEM . . . M 2 17.157 -14.282 -54.536 1 81.34 ? HAD HEM 601 D 1 HETATM 70 H HADA HEM . . . M 2 15.72 -14.132 -55.186 1 81.34 ? HADA HEM 601 D 1 HETATM 71 H HBD HEM . . . M 2 14.721 -14.597 -53.123 1 85.74 ? HBD HEM 601 D 1 HETATM 72 H HBDA HEM . . . M 2 16.148 -14.7 -52.443 1 85.74 ? HBDA HEM 601 D 1 HETATM 73 H HHA HEM . . . M 2 13.635 -13.069 -54.254 1 73.27 ? HHA HEM 601 D 1 # _model_server_stats.io_time_ms 45 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 353 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 73 #