data_6YMX # _model_server_result.job_id 2h6JU6sQPoGVPOULxzj5wA _model_server_result.datetime_utc '2024-12-27 03:09:34' _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 6ymx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"IA","auth_seq_id":603}' # _entry.id 6YMX # _exptl.entry_id 6YMX _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 852.837 _entity.id 27 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description HEME-A _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 6YMX _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YMX _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 PISA _pdbx_struct_assembly.oligomeric_details 32-meric _pdbx_struct_assembly.oligomeric_count 32 _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,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB _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 ? _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 ? 27 HA N N ? 27 IA 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 J SG CYS 22 j CYS 27 1_555 J SG CYS 54 j CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 J SG CYS 32 j CYS 37 1_555 J SG CYS 43 j CYS 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 Q SG CYS 134 E CYS 164 1_555 Q SG CYS 150 E CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 R SG CYS 28 F CYS 101 1_555 R SG CYS 50 F CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 Z SG CYS 134 P CYS 164 1_555 Z SG CYS 150 P CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 AA SG CYS 29 Q CYS 101 1_555 AA SG CYS 51 Q CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale1 B N ILE 46 b ILE 61 1_555 MA C23 PTY . b PTY 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.287 ? covale ? covale2 B C ILE 46 b ILE 61 1_555 MA C23 PTY . b PTY 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.562 ? covale ? covale3 B CB ILE 46 b ILE 61 1_555 MA C23 PTY . b PTY 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.619 ? covale ? covale4 C CE MET 217 c MET 218 1_555 NA C36 PTY . c PTY 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.385 ? covale ? covale5 C CE MET 217 c MET 218 1_555 NA C37 PTY . c PTY 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? metalc ? metalc1 A NE2 HIS 58 a HIS 62 1_555 HA FE HEA . a HEA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? metalc ? metalc2 A ND1 HIS 237 a HIS 241 1_555 GA CU CU . a CU 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.661 ? metalc ? metalc3 A NE2 HIS 286 a HIS 290 1_555 GA CU CU . a CU 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? metalc ? metalc4 A NE2 HIS 287 a HIS 291 1_555 GA CU CU . a CU 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc5 A NE2 HIS 374 a HIS 378 1_555 HA FE HEA . a HEA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.795 ? metalc ? metalc6 B O GLU 208 b GLU 223 1_555 LA CU1 CUA . b CUA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc7 B ND1 HIS 214 b HIS 229 1_555 LA CU1 CUA . b CUA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.449 ? metalc ? metalc8 D SG CYS 105 d CYS 134 1_555 PA ZN ZN . d ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc9 O NE2 HIS 82 C HIS 82 1_555 WA FE HEM . C HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? metalc ? metalc10 O NE2 HIS 96 C HIS 96 1_555 XA FE HEM . C HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.747 ? metalc ? metalc11 O NE2 HIS 183 C HIS 183 1_555 WA FE HEM . C HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? metalc ? metalc12 O NE2 HIS 197 C HIS 197 1_555 XA FE HEM . C HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.746 ? metalc ? metalc13 P NE2 HIS 44 D HIS 105 1_555 CB FE HEM . D HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.68 ? metalc ? metalc14 X NE2 HIS 82 N HIS 82 1_555 HB FE HEM . N HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.696 ? metalc ? metalc15 X NE2 HIS 96 N HIS 96 1_555 IB FE HEM . N HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.747 ? metalc ? metalc16 X NE2 HIS 183 N HIS 183 1_555 HB FE HEM . N HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.707 ? metalc ? metalc17 X NE2 HIS 197 N HIS 197 1_555 IB FE HEM . N HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.731 ? metalc ? metalc18 Y NE2 HIS 44 O HIS 105 1_555 OB FE HEM . O HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.673 ? # _chem_comp.formula 'C49 H56 Fe N4 O6' _chem_comp.formula_weight 852.837 _chem_comp.id HEA _chem_comp.mon_nstd_flag . _chem_comp.name HEME-A _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 6YMX _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 GA 26 CU a 1 601 601 CU CU . HA 27 HEA a 1 602 602 HEA HEA . IA 27 HEA a 1 603 603 HEA HEA . JA 28 PTY a 1 604 7 PTY PTY . KA 29 CN3 a 1 605 1 CN3 CN3 . LA 30 CUA b 1 301 301 CUA CUA . MA 28 PTY b 1 302 1 PTY PTY . NA 28 PTY c 1 301 6 PTY PTY . OA 31 PCF c 1 302 3 PCF PCF . PA 32 ZN d 1 201 1 ZN ZN . QA 31 PCF e 1 201 2 PCF PCF . RA 28 PTY i 1 101 3 PTY PTY . SA 28 PTY m 1 101 4 PTY PTY . TA 28 PTY m 1 102 5 PTY PTY . UA 31 PCF m 1 103 1 PCF PCF . VA 33 6PH C 1 401 401 6PH 6PH . WA 34 HEM C 1 402 402 HEM HEM . XA 34 HEM C 1 403 403 HEM HEM . YA 35 8PE C 1 404 404 8PE 8PE . ZA 36 CN5 C 1 405 405 CN5 CN5 . AB 37 UQ6 C 1 406 406 UQ6 UQ6 . BB 38 9PE C 1 407 401 9PE 9PE . CB 34 HEM D 1 401 401 HEM HEM . DB 28 PTY D 1 402 2 PTY PTY . EB 39 7PH E 1 301 402 7PH 7PH . FB 40 FES E 1 302 301 FES FES . GB 31 PCF I 1 101 101 PCF PCF . HB 34 HEM N 1 401 403 HEM HEM . IB 34 HEM N 1 402 404 HEM HEM . JB 37 UQ6 N 1 403 405 UQ6 UQ6 . KB 35 8PE N 1 404 406 8PE 8PE . LB 38 9PE N 1 405 407 9PE 9PE . MB 29 CN3 N 1 406 408 CN3 CN3 . NB 33 6PH O 1 401 402 6PH 6PH . OB 34 HEM O 1 402 401 HEM HEM . PB 39 7PH O 1 403 301 7PH 7PH . QB 40 FES P 1 301 302 FES FES . RB 31 PCF T 1 101 101 PCF PCF . # 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 FE FE HEA . . . IA 27 186.393 193.284 135.29 1 147.2 ? FE HEA 603 a 1 HETATM 2 C CHA HEA . . . IA 27 187.962 196.127 134.467 1 147.2 ? CHA HEA 603 a 1 HETATM 3 C CHB HEA . . . IA 27 183.638 194.304 133.638 1 147.2 ? CHB HEA 603 a 1 HETATM 4 C CHC HEA . . . IA 27 185.016 190.163 135.63 1 147.2 ? CHC HEA 603 a 1 HETATM 5 C CHD HEA . . . IA 27 189.078 192.182 136.906 1 147.2 ? CHD HEA 603 a 1 HETATM 6 N NA HEA . . . IA 27 185.907 194.902 134.254 1 147.2 ? NA HEA 603 a 1 HETATM 7 C C1A HEA . . . IA 27 186.703 196.007 134.004 1 147.2 ? C1A HEA 603 a 1 HETATM 8 C C2A HEA . . . IA 27 186.028 197.011 133.213 1 147.2 ? C2A HEA 603 a 1 HETATM 9 C C3A HEA . . . IA 27 184.781 196.51 132.957 1 147.2 ? C3A HEA 603 a 1 HETATM 10 C C4A HEA . . . IA 27 184.716 195.199 133.609 1 147.2 ? C4A HEA 603 a 1 HETATM 11 C CMA HEA . . . IA 27 183.825 197.139 132.231 1 147.2 ? CMA HEA 603 a 1 HETATM 12 O OMA HEA . . . IA 27 183.319 196.567 131.306 1 147.2 ? OMA HEA 603 a 1 HETATM 13 C CAA HEA . . . IA 27 186.679 198.342 132.78 1 147.2 ? CAA HEA 603 a 1 HETATM 14 C CBA HEA . . . IA 27 186.25 199.603 133.539 1 147.2 ? CBA HEA 603 a 1 HETATM 15 C CGA HEA . . . IA 27 187.178 200.78 133.268 1 147.2 ? CGA HEA 603 a 1 HETATM 16 O O1A HEA . . . IA 27 186.686 201.765 132.693 1 147.2 ? O1A HEA 603 a 1 HETATM 17 O O2A HEA . . . IA 27 188.409 200.631 133.384 1 147.2 ? O2A HEA 603 a 1 HETATM 18 N NB HEA . . . IA 27 184.711 192.419 134.777 1 147.2 ? NB HEA 603 a 1 HETATM 19 C C1B HEA . . . IA 27 183.673 192.979 134.087 1 147.2 ? C1B HEA 603 a 1 HETATM 20 C C2B HEA . . . IA 27 182.591 192.048 133.868 1 147.2 ? C2B HEA 603 a 1 HETATM 21 C C3B HEA . . . IA 27 182.95 190.864 134.425 1 147.2 ? C3B HEA 603 a 1 HETATM 22 C C4B HEA . . . IA 27 184.294 191.116 134.986 1 147.2 ? C4B HEA 603 a 1 HETATM 23 C CMB HEA . . . IA 27 181.318 192.323 133.162 1 147.2 ? CMB HEA 603 a 1 HETATM 24 N NC HEA . . . IA 27 186.948 191.517 136.102 1 147.2 ? NC HEA 603 a 1 HETATM 25 C C1C HEA . . . IA 27 186.238 190.338 136.138 1 147.2 ? C1C HEA 603 a 1 HETATM 26 C C2C HEA . . . IA 27 186.951 189.292 136.804 1 147.2 ? C2C HEA 603 a 1 HETATM 27 C C3C HEA . . . IA 27 188.123 189.806 137.187 1 147.2 ? C3C HEA 603 a 1 HETATM 28 C C4C HEA . . . IA 27 188.099 191.216 136.741 1 147.2 ? C4C HEA 603 a 1 HETATM 29 C CMC HEA . . . IA 27 186.436 187.9 136.996 1 147.2 ? CMC HEA 603 a 1 HETATM 30 C CAC HEA . . . IA 27 189.143 189.034 137.929 1 147.2 ? CAC HEA 603 a 1 HETATM 31 C CBC HEA . . . IA 27 190.428 189.297 138.12 1 147.2 ? CBC HEA 603 a 1 HETATM 32 N ND HEA . . . IA 27 188.134 193.993 135.633 1 147.2 ? ND HEA 603 a 1 HETATM 33 C C1D HEA . . . IA 27 189.174 193.428 136.309 1 147.2 ? C1D HEA 603 a 1 HETATM 34 C C2D HEA . . . IA 27 190.373 194.312 136.323 1 147.2 ? C2D HEA 603 a 1 HETATM 35 C C3D HEA . . . IA 27 189.982 195.424 135.623 1 147.2 ? C3D HEA 603 a 1 HETATM 36 C C4D HEA . . . IA 27 188.639 195.194 135.201 1 147.2 ? C4D HEA 603 a 1 HETATM 37 C CMD HEA . . . IA 27 191.751 194.063 136.985 1 147.2 ? CMD HEA 603 a 1 HETATM 38 C CAD HEA . . . IA 27 190.715 196.717 135.214 1 147.2 ? CAD HEA 603 a 1 HETATM 39 C CBD HEA . . . IA 27 191.321 197.596 136.237 1 147.2 ? CBD HEA 603 a 1 HETATM 40 C CGD HEA . . . IA 27 192.484 198.323 135.677 1 147.2 ? CGD HEA 603 a 1 HETATM 41 O O1D HEA . . . IA 27 192.415 198.625 134.472 1 147.2 ? O1D HEA 603 a 1 HETATM 42 O O2D HEA . . . IA 27 193.385 198.703 136.457 1 147.2 ? O2D HEA 603 a 1 HETATM 43 C C11 HEA . . . IA 27 182.093 189.621 134.425 1 147.2 ? C11 HEA 603 a 1 HETATM 44 O O11 HEA . . . IA 27 182.871 188.484 134.03 1 147.2 ? O11 HEA 603 a 1 HETATM 45 C C12 HEA . . . IA 27 181.52 189.251 135.788 1 147.2 ? C12 HEA 603 a 1 HETATM 46 C C13 HEA . . . IA 27 180.109 188.694 135.707 1 147.2 ? C13 HEA 603 a 1 HETATM 47 C C14 HEA . . . IA 27 179.704 188 136.983 1 147.2 ? C14 HEA 603 a 1 HETATM 48 C C15 HEA . . . IA 27 178.468 188.052 137.512 1 147.2 ? C15 HEA 603 a 1 HETATM 49 C C16 HEA . . . IA 27 178.095 187.489 138.836 1 147.2 ? C16 HEA 603 a 1 HETATM 50 C C17 HEA . . . IA 27 177.595 186.032 138.866 1 147.2 ? C17 HEA 603 a 1 HETATM 51 C C18 HEA . . . IA 27 176.381 185.758 138.013 1 147.2 ? C18 HEA 603 a 1 HETATM 52 C C19 HEA . . . IA 27 175.108 185.788 138.451 1 147.2 ? C19 HEA 603 a 1 HETATM 53 C C20 HEA . . . IA 27 174.062 185.533 137.44 1 147.2 ? C20 HEA 603 a 1 HETATM 54 C C21 HEA . . . IA 27 174.077 186.483 136.275 1 147.2 ? C21 HEA 603 a 1 HETATM 55 C C22 HEA . . . IA 27 173.931 187.937 136.689 1 147.2 ? C22 HEA 603 a 1 HETATM 56 C C23 HEA . . . IA 27 172.837 188.7 136.454 1 147.2 ? C23 HEA 603 a 1 HETATM 57 C C24 HEA . . . IA 27 171.736 188.259 135.539 1 147.2 ? C24 HEA 603 a 1 HETATM 58 C C25 HEA . . . IA 27 172.868 190.165 136.731 1 147.2 ? C25 HEA 603 a 1 HETATM 59 C C26 HEA . . . IA 27 177.493 189.029 136.941 1 147.2 ? C26 HEA 603 a 1 HETATM 60 C C27 HEA . . . IA 27 174.632 185.617 139.89 1 147.2 ? C27 HEA 603 a 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 60 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 60 #