data_8UGD # _model_server_result.job_id 5KRB7HEhmCiCR3Deyw1RVg _model_server_result.datetime_utc '2024-11-15 04:53:42' _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 8ugd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"AA","auth_seq_id":502}' # _entry.id 8UGD # _exptl.entry_id 8UGD _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 616.487 _entity.id 13 _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 8UGD _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8UGD _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 22-meric _pdbx_struct_assembly.oligomeric_count 22 _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,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB _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 ? 13 Z N N ? 13 AA N N ? 13 NA N N ? 13 OA 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 disulf ? disulf1 E SG CYS 222 3E CYS 222 1_555 E SG CYS 238 3E CYS 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf2 H SG CYS 37 3H CYS 49 1_555 H SG CYS 81 3H CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf3 H SG CYS 53 3H CYS 65 1_555 H SG CYS 67 3H CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 O SG CYS 236 3R CYS 236 1_555 O SG CYS 238 3R CYS 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.938 ? disulf ? disulf5 R SG CYS 37 3U CYS 24 1_555 R SG CYS 81 3U CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 R SG CYS 53 3U CYS 40 1_555 R SG CYS 67 3U CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 N SG CYS 122 3Q CYS 37 1_555 UA CAB HEC . 3Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.765 ? metalc ? metalc1 C NE2 HIS 83 3C HIS 83 1_555 Z FE HEM . 3C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? metalc ? metalc2 C NE2 HIS 182 3C HIS 182 1_555 Z FE HEM . 3C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc3 C NE2 HIS 196 3C HIS 196 1_555 AA FE HEM . 3C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc4 D NE2 HIS 126 3D HIS 129 1_555 FA FE HEC . 3D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.867 ? metalc ? metalc5 E SG CYS 217 3E CYS 217 1_555 IA FE1 FES . 3E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? metalc ? metalc6 E ND1 HIS 219 3E HIS 219 1_555 IA FE2 FES . 3E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? metalc ? metalc7 E SG CYS 236 3E CYS 236 1_555 IA FE1 FES . 3E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc8 E ND1 HIS 239 3E HIS 239 1_555 IA FE2 FES . 3E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? metalc ? metalc9 M NE2 HIS 83 3P HIS 83 1_555 NA FE HEM . 3P HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.478 ? metalc ? metalc10 M NE2 HIS 97 3P HIS 97 1_555 OA FE HEM . 3P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.723 ? metalc ? metalc11 M NE2 HIS 196 3P HIS 196 1_555 OA FE HEM . 3P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc12 N NE2 HIS 126 3Q HIS 41 1_555 UA FE HEC . 3Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.918 ? metalc ? metalc13 O SG CYS 217 3R CYS 217 1_555 XA FE1 FES . 3R FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc14 O ND1 HIS 219 3R HIS 219 1_555 XA FE2 FES . 3R FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc15 O SG CYS 236 3R CYS 236 1_555 XA FE1 FES . 3R FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc16 O SG CYS 238 3R CYS 238 1_555 XA FE1 FES . 3R FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc17 O ND1 HIS 239 3R HIS 239 1_555 XA FE2 FES . 3R FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? # _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 604 n n CHA C4D HEM doub 605 n n CHA HHA HEM sing 606 n n CHB C4A HEM sing 607 n n CHB C1B HEM doub 608 n n CHB HHB HEM sing 609 n n CHC C4B HEM sing 610 n n CHC C1C HEM doub 611 n n CHC HHC HEM sing 612 n n CHD C4C HEM doub 613 n n CHD C1D HEM sing 614 n n CHD HHD HEM sing 615 n n C1A C2A HEM doub 616 n y C1A NA HEM sing 617 n y C2A C3A HEM sing 618 n y C2A CAA HEM sing 619 n n C3A C4A HEM doub 620 n y C3A CMA HEM sing 621 n n C4A NA HEM sing 622 n y CMA HMA HEM sing 623 n n CMA HMAA HEM sing 624 n n CMA HMAB HEM sing 625 n n CAA CBA HEM sing 626 n n CAA HAA HEM sing 627 n n CAA HAAA HEM sing 628 n n CBA CGA HEM sing 629 n n CBA HBA HEM sing 630 n n CBA HBAA HEM sing 631 n n CGA O1A HEM doub 632 n n CGA O2A HEM sing 633 n n C1B C2B HEM sing 634 n n C1B NB HEM sing 635 n n C2B C3B HEM doub 636 n n C2B CMB HEM sing 637 n n C3B C4B HEM sing 638 n n C3B CAB HEM sing 639 n n C4B NB HEM doub 640 n n CMB HMB HEM sing 641 n n CMB HMBA HEM sing 642 n n CMB HMBB HEM sing 643 n n CAB CBB HEM doub 644 n n CAB HAB HEM sing 645 n n CBB HBB HEM sing 646 n n CBB HBBA HEM sing 647 n n C1C C2C HEM sing 648 n y C1C NC HEM sing 649 n y C2C C3C HEM doub 650 n y C2C CMC HEM sing 651 n n C3C C4C HEM sing 652 n y C3C CAC HEM sing 653 n n C4C NC HEM sing 654 n y CMC HMC HEM sing 655 n n CMC HMCA HEM sing 656 n n CMC HMCB HEM sing 657 n n CAC CBC HEM doub 658 n n CAC HAC HEM sing 659 n n CBC HBC HEM sing 660 n n CBC HBCA HEM sing 661 n n C1D C2D HEM sing 662 n n C1D ND HEM doub 663 n n C2D C3D HEM doub 664 n n C2D CMD HEM sing 665 n n C3D C4D HEM sing 666 n n C3D CAD HEM sing 667 n n C4D ND HEM sing 668 n n CMD HMD HEM sing 669 n n CMD HMDA HEM sing 670 n n CMD HMDB HEM sing 671 n n CAD CBD HEM sing 672 n n CAD HAD HEM sing 673 n n CAD HADA HEM sing 674 n n CBD CGD HEM sing 675 n n CBD HBD HEM sing 676 n n CBD HBDA HEM sing 677 n n CGD O1D HEM doub 678 n n CGD O2D HEM sing 679 n n O2A H2A HEM sing 680 n n O2D H2D HEM sing 681 n n FE NA HEM sing 682 n n FE NB HEM sing 683 n n FE NC HEM sing 684 n n FE ND HEM sing 685 n n # _atom_sites.entry_id 8UGD _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 W 11 CDL 3A 1 501 31 CDL CDL . X 12 3PE 3A 1 502 32 3PE 3PE . Y 12 3PE 3A 1 503 33 3PE 3PE . Z 13 HEM 3C 1 501 501 HEM HEM . AA 13 HEM 3C 1 502 502 HEM HEM . BA 14 U10 3C 1 503 503 U10 U10 . CA 14 U10 3C 1 504 504 U10 U10 . DA 11 CDL 3C 1 505 17 CDL CDL . EA 12 3PE 3C 1 506 90 3PE 3PE . FA 15 HEC 3D 1 501 501 HEC HEC . GA 12 3PE 3D 1 502 91 3PE 3PE . HA 11 CDL 3D 1 503 94 CDL CDL . IA 16 FES 3E 1 301 301 FES FES . JA 17 PC1 3E 1 302 97 PC1 PC1 . KA 12 3PE 3G 1 101 7 3PE 3PE . LA 12 3PE 3N 1 501 133 3PE 3PE . MA 12 3PE 3N 1 502 169 3PE 3PE . NA 13 HEM 3P 1 501 501 HEM HEM . OA 13 HEM 3P 1 502 502 HEM HEM . PA 14 U10 3P 1 503 503 U10 U10 . QA 14 U10 3P 1 504 504 U10 U10 . RA 12 3PE 3P 1 505 93 3PE 3PE . SA 11 CDL 3P 1 506 166 CDL CDL . TA 11 CDL 3P 1 507 167 CDL CDL . UA 15 HEC 3Q 1 501 501 HEC HEC . VA 11 CDL 3Q 1 502 45 CDL CDL . WA 12 3PE 3Q 1 503 92 3PE 3PE . XA 16 FES 3R 1 301 301 FES FES . YA 17 PC1 3R 1 302 96 PC1 PC1 . ZA 12 3PE 3R 1 303 168 3PE 3PE . AB 17 PC1 3X 1 101 165 PC1 PC1 . BB 12 3PE 3Y 1 101 48 3PE 3PE . # 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 . . . AA 13 174.709 260.77 208.094 1 54.72 ? CHA HEM 502 3C 1 HETATM 2 C CHB HEM . . . AA 13 174.629 258.255 203.976 1 54.72 ? CHB HEM 502 3C 1 HETATM 3 C CHC HEM . . . AA 13 177.339 261.724 201.899 1 54.72 ? CHC HEM 502 3C 1 HETATM 4 C CHD HEM . . . AA 13 178.248 263.536 206.286 1 54.72 ? CHD HEM 502 3C 1 HETATM 5 C C1A HEM . . . AA 13 174.355 259.905 207.091 1 54.72 ? C1A HEM 502 3C 1 HETATM 6 C C2A HEM . . . AA 13 173.226 259.07 207.132 1 54.72 ? C2A HEM 502 3C 1 HETATM 7 C C3A HEM . . . AA 13 173.201 258.361 205.98 1 54.72 ? C3A HEM 502 3C 1 HETATM 8 C C4A HEM . . . AA 13 174.317 258.746 205.222 1 54.72 ? C4A HEM 502 3C 1 HETATM 9 C CMA HEM . . . AA 13 172.173 257.339 205.579 1 54.72 ? CMA HEM 502 3C 1 HETATM 10 C CAA HEM . . . AA 13 172.226 258.972 208.251 1 54.72 ? CAA HEM 502 3C 1 HETATM 11 C CBA HEM . . . AA 13 171.009 259.84 207.931 1 54.72 ? CBA HEM 502 3C 1 HETATM 12 C CGA HEM . . . AA 13 171.391 261.29 208.041 1 54.72 ? CGA HEM 502 3C 1 HETATM 13 O O1A HEM . . . AA 13 171.377 262.023 207.03 1 54.72 ? O1A HEM 502 3C 1 HETATM 14 O O2A HEM . . . AA 13 171.725 261.761 209.15 1 54.72 ? O2A HEM 502 3C 1 HETATM 15 C C1B HEM . . . AA 13 175.339 259.038 203.066 1 54.72 ? C1B HEM 502 3C 1 HETATM 16 C C2B HEM . . . AA 13 175.384 258.717 201.689 1 54.72 ? C2B HEM 502 3C 1 HETATM 17 C C3B HEM . . . AA 13 176.135 259.67 201.082 1 54.72 ? C3B HEM 502 3C 1 HETATM 18 C C4B HEM . . . AA 13 176.55 260.605 202.149 1 54.72 ? C4B HEM 502 3C 1 HETATM 19 C CMB HEM . . . AA 13 174.725 257.536 201.03 1 54.72 ? CMB HEM 502 3C 1 HETATM 20 C CAB HEM . . . AA 13 176.467 259.759 199.654 1 54.72 ? CAB HEM 502 3C 1 HETATM 21 C CBB HEM . . . AA 13 177.329 258.904 199.118 1 54.72 ? CBB HEM 502 3C 1 HETATM 22 C C1C HEM . . . AA 13 177.802 262.544 202.913 1 54.72 ? C1C HEM 502 3C 1 HETATM 23 C C2C HEM . . . AA 13 178.545 263.716 202.733 1 54.72 ? C2C HEM 502 3C 1 HETATM 24 C C3C HEM . . . AA 13 178.806 264.233 203.984 1 54.72 ? C3C HEM 502 3C 1 HETATM 25 C C4C HEM . . . AA 13 178.212 263.359 204.93 1 54.72 ? C4C HEM 502 3C 1 HETATM 26 C CMC HEM . . . AA 13 178.979 264.305 201.419 1 54.72 ? CMC HEM 502 3C 1 HETATM 27 C CAC HEM . . . AA 13 179.558 265.461 204.283 1 54.72 ? CAC HEM 502 3C 1 HETATM 28 C CBC HEM . . . AA 13 180.853 265.546 204.01 1 54.72 ? CBC HEM 502 3C 1 HETATM 29 C C1D HEM . . . AA 13 177.302 262.931 207.106 1 54.72 ? C1D HEM 502 3C 1 HETATM 30 C C2D HEM . . . AA 13 177.116 263.355 208.494 1 54.72 ? C2D HEM 502 3C 1 HETATM 31 C C3D HEM . . . AA 13 176.139 262.588 208.994 1 54.72 ? C3D HEM 502 3C 1 HETATM 32 C C4D HEM . . . AA 13 175.719 261.7 207.91 1 54.72 ? C4D HEM 502 3C 1 HETATM 33 C CMD HEM . . . AA 13 177.88 264.433 209.213 1 54.72 ? CMD HEM 502 3C 1 HETATM 34 C CAD HEM . . . AA 13 175.577 262.634 210.386 1 54.72 ? CAD HEM 502 3C 1 HETATM 35 C CBD HEM . . . AA 13 174.403 263.61 210.404 1 54.72 ? CBD HEM 502 3C 1 HETATM 36 C CGD HEM . . . AA 13 173.747 263.584 211.756 1 54.72 ? CGD HEM 502 3C 1 HETATM 37 O O1D HEM . . . AA 13 174.069 262.71 212.589 1 54.72 ? O1D HEM 502 3C 1 HETATM 38 O O2D HEM . . . AA 13 172.876 264.433 212.044 1 54.72 ? O2D HEM 502 3C 1 HETATM 39 N NA HEM . . . AA 13 175.012 259.705 205.905 1 54.72 ? NA HEM 502 3C 1 HETATM 40 N NB HEM . . . AA 13 176.032 260.157 203.302 1 54.72 ? NB HEM 502 3C 1 HETATM 41 N NC HEM . . . AA 13 177.6 262.347 204.247 1 54.72 ? NC HEM 502 3C 1 HETATM 42 N ND HEM . . . AA 13 176.447 261.943 206.814 1 54.72 ? ND HEM 502 3C 1 HETATM 43 FE FE HEM . . . AA 13 176.263 261.056 205.186 1 54.72 ? FE HEM 502 3C 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 56 _model_server_stats.query_time_ms 497 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #