data_5J7Y # _model_server_result.job_id fJfGE6T66TfMUf2F0_zURg _model_server_result.datetime_utc '2024-11-04 23:41:24' _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 5j7y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"YC","auth_seq_id":402}' # _entry.id 5J7Y # _exptl.entry_id 5J7Y _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 616.487 _entity.id 77 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 6 _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 5J7Y _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5J7Y _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 89-meric _pdbx_struct_assembly.oligomeric_count 89 _pdbx_struct_assembly.details author_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,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB,SB,TB,UB,VB,WB,XB,YB,ZB,AC,BC,CC,DC,EC,FC,GC,HC,IC,JC,KC,LC,MC,NC,OC,PC,QC,RC,SC,TC,UC,VC,WC,XC,YC,ZC,AD,BD,CD,DD,ED _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 ? _pdbx_struct_oper_list.symmetry_operation ? _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 ? 77 TC N N ? 77 UC N N ? 77 VC N N ? 77 XC N N ? 77 YC N N ? 77 ZC 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 G SG CYS 34 G CYS 41 1_555 G SG CYS 45 G CYS 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.835 ? metalc ? metalc1 B SG CYS 29 B CYS 54 1_555 LC FE3 SF4 . B SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? metalc ? metalc2 B SG CYS 30 B CYS 55 1_555 LC FE2 SF4 . B SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc3 B SG CYS 94 B CYS 119 1_555 LC FE1 SF4 . B SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc4 B SG CYS 124 B CYS 149 1_555 LC FE4 SF4 . B SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc5 E SG CYS 97 E CYS 103 1_555 MC FE1 FES . E FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc6 E SG CYS 102 E CYS 108 1_555 MC FE1 FES . E FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc7 E SG CYS 138 E CYS 144 1_555 MC FE2 FES . E FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc8 E SG CYS 142 E CYS 148 1_555 MC FE2 FES . E FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc9 F SG CYS 347 F CYS 359 1_555 NC FE4 SF4 . F SF4 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc10 F SG CYS 350 F CYS 362 1_555 NC FE1 SF4 . F SF4 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc11 F SG CYS 353 F CYS 365 1_555 NC FE2 SF4 . F SF4 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc12 F SG CYS 393 F CYS 405 1_555 NC FE3 SF4 . F SF4 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc13 G SG CYS 34 G CYS 41 1_555 QC FE1 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc14 G SG CYS 45 G CYS 52 1_555 QC FE1 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc15 G SG CYS 48 G CYS 55 1_555 QC FE2 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc16 G SG CYS 62 G CYS 69 1_555 QC FE2 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? metalc ? metalc17 G NE2 HIS 94 G HIS 101 1_555 OC FE3 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.889 ? metalc ? metalc18 G SG CYS 98 G CYS 105 1_555 OC FE2 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? metalc ? metalc19 G SG CYS 101 G CYS 108 1_555 OC FE4 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc20 G SG CYS 107 G CYS 114 1_555 OC FE1 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc21 G SG CYS 146 G CYS 153 1_555 PC FE2 SF4 . G SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc22 G SG CYS 149 G CYS 156 1_555 PC FE1 SF4 . G SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc23 G SG CYS 152 G CYS 159 1_555 PC FE3 SF4 . G SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc24 G SG CYS 196 G CYS 203 1_555 PC FE4 SF4 . G SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc25 I SG CYS 72 I CYS 77 1_555 SC FE3 SF4 . I SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc26 I O CYS 75 I CYS 80 1_555 SC FE4 SF4 . I SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.573 ? metalc ? metalc27 I SG CYS 75 I CYS 80 1_555 SC FE4 SF4 . I SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc28 I SG CYS 78 I CYS 83 1_555 SC FE2 SF4 . I SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc29 I SG CYS 82 I CYS 87 1_555 RC FE4 SF4 . I SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc30 I SG CYS 111 I CYS 116 1_555 RC FE2 SF4 . I SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc31 I SG CYS 114 I CYS 119 1_555 RC FE1 SF4 . I SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc32 I N UNK 118 I UNK 123 1_555 RC FE3 SF4 . I SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.751 ? metalc ? metalc33 I SG CYS 121 I CYS 126 1_555 SC FE1 SF4 . I SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? covale ? covale1 SA CB UNK 33 7 UNK 33 1_555 CB CB ASP 226 AA ASP 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? metalc ? metalc34 ZB O CYS 196 BO CYS 196 1_555 ED CU1 CUA . BO CUA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc35 ZB N GLU 198 BO GLU 198 1_555 ED CU2 CUA . BO CUA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc36 ZB O GLU 198 BO GLU 198 1_555 ED CU2 CUA . BO CUA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.78 ? # _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 # _atom_sites.entry_id 5J7Y _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 LC 75 SF4 B 1 201 201 SF4 SF4 . MC 76 FES E 1 201 201 FES FES . NC 75 SF4 F 1 500 500 SF4 SF4 . OC 75 SF4 G 1 801 801 SF4 SF4 . PC 75 SF4 G 1 802 802 SF4 SF4 . QC 76 FES G 1 803 803 FES FES . RC 75 SF4 I 1 201 201 SF4 SF4 . SC 75 SF4 I 1 202 202 SF4 SF4 . TC 77 HEM AC 1 401 401 HEM HEM . UC 77 HEM AC 1 402 402 HEM HEM . VC 77 HEM AD 1 301 301 HEM HEM . WC 76 FES AE 1 201 201 FES FES . XC 77 HEM AN 1 401 401 HEM HEM . YC 77 HEM AN 1 402 402 HEM HEM . ZC 77 HEM AO 1 301 301 HEM HEM . AD 76 FES AP 1 201 201 FES FES . BD 78 CU BN 1 601 601 CU CU . CD 79 HEA BN 1 602 602 HEA HEA . DD 79 HEA BN 1 603 603 HEA HEA . ED 80 CUA BO 1 301 301 CUA CUA . # 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 . . . YC 77 451.586 462.846 370.169 1 130 ? CHA HEM 402 AN 1 HETATM 2 C CHB HEM . . . YC 77 448.961 458.673 368.704 1 130 ? CHB HEM 402 AN 1 HETATM 3 C CHC HEM . . . YC 77 453.357 456.739 367.109 1 130 ? CHC HEM 402 AN 1 HETATM 4 C CHD HEM . . . YC 77 455.798 459.976 370.176 1 130 ? CHD HEM 402 AN 1 HETATM 5 C C1A HEM . . . YC 77 450.506 461.888 369.794 1 130 ? C1A HEM 402 AN 1 HETATM 6 C C2A HEM . . . YC 77 449.063 462.254 369.821 1 130 ? C2A HEM 402 AN 1 HETATM 7 C C3A HEM . . . YC 77 448.355 461.05 369.403 1 130 ? C3A HEM 402 AN 1 HETATM 8 C C4A HEM . . . YC 77 449.39 460.042 369.12 1 130 ? C4A HEM 402 AN 1 HETATM 9 C CMA HEM . . . YC 77 446.87 460.881 369.253 1 130 ? CMA HEM 402 AN 1 HETATM 10 C CAA HEM . . . YC 77 448.345 463.524 370.173 1 130 ? CAA HEM 402 AN 1 HETATM 11 C CBA HEM . . . YC 77 449.099 464.824 369.891 1 130 ? CBA HEM 402 AN 1 HETATM 12 C CGA HEM . . . YC 77 449.784 464.907 368.543 1 130 ? CGA HEM 402 AN 1 HETATM 13 O O1A HEM . . . YC 77 450.675 465.709 368.389 1 130 ? O1A HEM 402 AN 1 HETATM 14 O O2A HEM . . . YC 77 449.509 464.161 367.64 1 130 ? O2A HEM 402 AN 1 HETATM 15 C C1B HEM . . . YC 77 450.055 457.867 368.147 1 130 ? C1B HEM 402 AN 1 HETATM 16 C C2B HEM . . . YC 77 449.795 456.8 367.412 1 130 ? C2B HEM 402 AN 1 HETATM 17 C C3B HEM . . . YC 77 450.948 456.286 367 1 130 ? C3B HEM 402 AN 1 HETATM 18 C C4B HEM . . . YC 77 451.951 457.035 367.448 1 130 ? C4B HEM 402 AN 1 HETATM 19 C CMB HEM . . . YC 77 448.404 456.276 367.132 1 130 ? CMB HEM 402 AN 1 HETATM 20 C CAB HEM . . . YC 77 451.123 455.08 366.108 1 130 ? CAB HEM 402 AN 1 HETATM 21 C CBB HEM . . . YC 77 450.677 453.774 366.76 1 130 ? CBB HEM 402 AN 1 HETATM 22 C C1C HEM . . . YC 77 454.326 457.622 367.82 1 130 ? C1C HEM 402 AN 1 HETATM 23 C C2C HEM . . . YC 77 455.622 457.543 367.55 1 130 ? C2C HEM 402 AN 1 HETATM 24 C C3C HEM . . . YC 77 456.275 458.387 368.355 1 130 ? C3C HEM 402 AN 1 HETATM 25 C C4C HEM . . . YC 77 455.386 459.022 369.102 1 130 ? C4C HEM 402 AN 1 HETATM 26 C CMC HEM . . . YC 77 456.178 456.604 366.488 1 130 ? CMC HEM 402 AN 1 HETATM 27 C CAC HEM . . . YC 77 457.761 458.693 368.39 1 130 ? CAC HEM 402 AN 1 HETATM 28 C CBC HEM . . . YC 77 458.628 457.463 368.559 1 130 ? CBC HEM 402 AN 1 HETATM 29 C C1D HEM . . . YC 77 454.77 461.039 370.362 1 130 ? C1D HEM 402 AN 1 HETATM 30 C C2D HEM . . . YC 77 455.032 462.176 370.998 1 130 ? C2D HEM 402 AN 1 HETATM 31 C C3D HEM . . . YC 77 453.939 462.948 371.01 1 130 ? C3D HEM 402 AN 1 HETATM 32 C C4D HEM . . . YC 77 452.96 462.29 370.369 1 130 ? C4D HEM 402 AN 1 HETATM 33 C CMD HEM . . . YC 77 456.385 462.486 371.61 1 130 ? CMD HEM 402 AN 1 HETATM 34 C CAD HEM . . . YC 77 453.831 464.334 371.655 1 130 ? CAD HEM 402 AN 1 HETATM 35 C CBD HEM . . . YC 77 453.681 465.375 370.553 1 130 ? CBD HEM 402 AN 1 HETATM 36 C CGD HEM . . . YC 77 453.688 466.824 370.978 1 130 ? CGD HEM 402 AN 1 HETATM 37 O O1D HEM . . . YC 77 454.325 467.642 370.325 1 130 ? O1D HEM 402 AN 1 HETATM 38 O O2D HEM . . . YC 77 452.987 467.193 371.912 1 130 ? O2D HEM 402 AN 1 HETATM 39 N NA HEM . . . YC 77 450.59 460.605 369.358 1 130 ? NA HEM 402 AN 1 HETATM 40 N NB HEM . . . YC 77 451.442 458.136 368.16 1 130 ? NB HEM 402 AN 1 HETATM 41 N NC HEM . . . YC 77 454.085 458.505 368.895 1 130 ? NC HEM 402 AN 1 HETATM 42 N ND HEM . . . YC 77 453.426 461.02 369.966 1 130 ? ND HEM 402 AN 1 HETATM 43 FE FE HEM . . . YC 77 452.433 459.569 369.082 1 130 ? FE HEM 402 AN 1 # _model_server_stats.io_time_ms 30 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 261 _model_server_stats.query_time_ms 402 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 43 #