data_2D2C # _model_server_result.job_id 5L8CzuMCkpq0wLU41bvacw _model_server_result.datetime_utc '2024-11-05 23:53:13' _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 2d2c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"X","auth_seq_id":301}' # _entry.id 2D2C # _exptl.entry_id 2D2C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 9 _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 120 _cell.entry_id 2D2C _cell.length_a 156.587 _cell.length_b 156.587 _cell.length_c 361.786 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2D2C _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexadecameric _pdbx_struct_assembly.oligomeric_count 16 _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 _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 ? 9 Q N N ? 9 R N N ? 9 X N N ? 9 AA N N ? 9 BA N N ? 9 HA 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 D SG CYS 113 D CYS 113 1_555 D SG CYS 128 D CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.682 ? disulf ? disulf2 L SG CYS 113 Q CYS 113 1_555 L SG CYS 128 Q CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.675 ? covale ? covale1 A SG CYS 35 A CYS 35 1_555 S CAB HEC . A HEC 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.789 ? covale ? covale2 C SG CYS 22 C CYS 22 1_555 X CAB HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.844 ? covale ? covale3 C SG CYS 25 C CYS 25 1_555 X CAC HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.869 ? covale ? covale4 I SG CYS 35 N CYS 35 1_555 CA CAB HEC . N HEC 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.804 ? covale ? covale5 K SG CYS 22 P CYS 22 1_555 HA CAB HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.836 ? covale ? covale6 K SG CYS 25 P CYS 25 1_555 HA CAC HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.822 ? metalc ? metalc1 A NE2 HIS 86 A HIS 86 1_555 Q FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc2 A NE2 HIS 100 A HIS 100 1_555 R FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? metalc ? metalc3 A NE2 HIS 187 A HIS 187 1_555 Q FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc4 A NE2 HIS 202 A HIS 202 1_555 R FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc5 S FE HEC . A HEC 303 1_555 KA O HOH . A HOH 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? metalc ? metalc6 C N TYR 1 C TYR 1 1_555 X FE HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc7 D SG CYS 108 D CYS 108 1_555 Y FE1 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.393 ? metalc ? metalc8 D ND1 HIS 110 D HIS 110 1_555 Y FE2 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.58 ? metalc ? metalc9 D SG CYS 126 D CYS 126 1_555 Y FE1 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.488 ? metalc ? metalc10 D ND1 HIS 129 D HIS 129 1_555 Y FE2 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? metalc ? metalc11 I NE2 HIS 86 N HIS 86 1_555 AA FE HEM . N HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc12 I NE2 HIS 100 N HIS 100 1_555 BA FE HEM . N HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? metalc ? metalc13 I NE2 HIS 187 N HIS 187 1_555 AA FE HEM . N HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? metalc ? metalc14 I NE2 HIS 202 N HIS 202 1_555 BA FE HEM . N HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? metalc ? metalc15 CA FE HEC . N HEC 303 1_555 LA O HOH . N HOH 1306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc16 K N TYR 1 P TYR 1 1_555 HA FE HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc17 L SG CYS 108 Q CYS 108 1_555 IA FE1 FES . Q FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc18 L ND1 HIS 110 Q HIS 110 1_555 IA FE2 FES . Q FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? metalc ? metalc19 L SG CYS 126 Q CYS 126 1_555 IA FE1 FES . Q FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? metalc ? metalc20 L ND1 HIS 129 Q HIS 129 1_555 IA FE2 FES . Q FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? # _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 483 n n CHA C4D HEM doub 484 n n CHA HHA HEM sing 485 n n CHB C4A HEM sing 486 n n CHB C1B HEM doub 487 n n CHB HHB HEM sing 488 n n CHC C4B HEM sing 489 n n CHC C1C HEM doub 490 n n CHC HHC HEM sing 491 n n CHD C4C HEM doub 492 n n CHD C1D HEM sing 493 n n CHD HHD HEM sing 494 n n C1A C2A HEM doub 495 n y C1A NA HEM sing 496 n y C2A C3A HEM sing 497 n y C2A CAA HEM sing 498 n n C3A C4A HEM doub 499 n y C3A CMA HEM sing 500 n n C4A NA HEM sing 501 n y CMA HMA HEM sing 502 n n CMA HMAA HEM sing 503 n n CMA HMAB HEM sing 504 n n CAA CBA HEM sing 505 n n CAA HAA HEM sing 506 n n CAA HAAA HEM sing 507 n n CBA CGA HEM sing 508 n n CBA HBA HEM sing 509 n n CBA HBAA HEM sing 510 n n CGA O1A HEM doub 511 n n CGA O2A HEM sing 512 n n C1B C2B HEM sing 513 n n C1B NB HEM sing 514 n n C2B C3B HEM doub 515 n n C2B CMB HEM sing 516 n n C3B C4B HEM sing 517 n n C3B CAB HEM sing 518 n n C4B NB HEM doub 519 n n CMB HMB HEM sing 520 n n CMB HMBA HEM sing 521 n n CMB HMBB HEM sing 522 n n CAB CBB HEM doub 523 n n CAB HAB HEM sing 524 n n CBB HBB HEM sing 525 n n CBB HBBA HEM sing 526 n n C1C C2C HEM sing 527 n y C1C NC HEM sing 528 n y C2C C3C HEM doub 529 n y C2C CMC HEM sing 530 n n C3C C4C HEM sing 531 n y C3C CAC HEM sing 532 n n C4C NC HEM sing 533 n y CMC HMC HEM sing 534 n n CMC HMCA HEM sing 535 n n CMC HMCB HEM sing 536 n n CAC CBC HEM doub 537 n n CAC HAC HEM sing 538 n n CBC HBC HEM sing 539 n n CBC HBCA HEM sing 540 n n C1D C2D HEM sing 541 n n C1D ND HEM doub 542 n n C2D C3D HEM doub 543 n n C2D CMD HEM sing 544 n n C3D C4D HEM sing 545 n n C3D CAD HEM sing 546 n n C4D ND HEM sing 547 n n CMD HMD HEM sing 548 n n CMD HMDA HEM sing 549 n n CMD HMDB HEM sing 550 n n CAD CBD HEM sing 551 n n CAD HAD HEM sing 552 n n CAD HADA HEM sing 553 n n CBD CGD HEM sing 554 n n CBD HBD HEM sing 555 n n CBD HBDA HEM sing 556 n n CGD O1D HEM doub 557 n n CGD O2D HEM sing 558 n n O2A H2A HEM sing 559 n n O2D H2D HEM sing 560 n n FE NA HEM sing 561 n n FE NB HEM sing 562 n n FE NC HEM sing 563 n n FE ND HEM sing 564 n n # _atom_sites.entry_id 2D2C _atom_sites.fract_transf_matrix[1][1] 0.006386 _atom_sites.fract_transf_matrix[1][2] 0.003687 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007374 _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] 0.002764 _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 Q 9 HEM A 1 301 301 HEM HEM . R 9 HEM A 1 302 302 HEM HEM . S 10 HEC A 1 303 303 HEC HEC . T 11 OPC B 1 305 305 OPC OPC . U 12 BNT B 1 309 309 BNT DBM . V 13 CLA B 1 201 201 CLA CLA . W 11 OPC C 1 306 306 OPC OPC . X 9 HEM C 1 301 301 HEM HEM . Y 14 FES D 1 201 201 FES FES . Z 15 BCR E 1 101 101 BCR BCR . AA 9 HEM N 1 301 301 HEM HEM . BA 9 HEM N 1 302 302 HEM HEM . CA 10 HEC N 1 303 303 HEC HEC . DA 11 OPC N 1 1305 305 OPC OPC . EA 11 OPC O 1 1306 306 OPC OPC . FA 12 BNT O 1 1309 309 BNT DBM . GA 13 CLA O 1 1201 201 CLA CLA . HA 9 HEM P 1 301 301 HEM HEM . IA 14 FES Q 1 201 201 FES FES . JA 15 BCR R 1 1101 101 BCR BCR . KA 16 HOH A 1 304 2 HOH HOH . LA 16 HOH N 1 1306 1 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 . . . X 9 84.813 -41.282 54.344 1 59.93 ? CHA HEM 301 C 1 HETATM 2 C CHB HEM . . . X 9 81.814 -38.177 56.493 1 59.93 ? CHB HEM 301 C 1 HETATM 3 C CHC HEM . . . X 9 83.75 -39.208 60.807 1 59.93 ? CHC HEM 301 C 1 HETATM 4 C CHD HEM . . . X 9 86.816 -42.357 58.648 1 59.93 ? CHD HEM 301 C 1 HETATM 5 C C1A HEM . . . X 9 83.819 -40.353 54.521 1 59.93 ? C1A HEM 301 C 1 HETATM 6 C C2A HEM . . . X 9 82.942 -39.777 53.441 1 59.93 ? C2A HEM 301 C 1 HETATM 7 C C3A HEM . . . X 9 82.122 -38.918 54.047 1 59.93 ? C3A HEM 301 C 1 HETATM 8 C C4A HEM . . . X 9 82.438 -38.925 55.524 1 59.93 ? C4A HEM 301 C 1 HETATM 9 C CMA HEM . . . X 9 80.984 -37.982 53.578 1 59.93 ? CMA HEM 301 C 1 HETATM 10 C CAA HEM . . . X 9 83.117 -40.231 51.99 1 59.93 ? CAA HEM 301 C 1 HETATM 11 C CBA HEM . . . X 9 83.972 -39.286 51.146 1 59.93 ? CBA HEM 301 C 1 HETATM 12 C CGA HEM . . . X 9 84.163 -39.735 49.686 1 59.93 ? CGA HEM 301 C 1 HETATM 13 O O1A HEM . . . X 9 84.002 -38.89 48.777 1 59.93 ? O1A HEM 301 C 1 HETATM 14 O O2A HEM . . . X 9 84.508 -41.077 49.451 1 59.93 ? O2A HEM 301 C 1 HETATM 15 C C1B HEM . . . X 9 82.082 -38.176 57.839 1 59.93 ? C1B HEM 301 C 1 HETATM 16 C C2B HEM . . . X 9 81.388 -37.342 58.808 1 59.93 ? C2B HEM 301 C 1 HETATM 17 C C3B HEM . . . X 9 81.931 -37.626 60.031 1 59.93 ? C3B HEM 301 C 1 HETATM 18 C C4B HEM . . . X 9 82.955 -38.64 59.817 1 59.93 ? C4B HEM 301 C 1 HETATM 19 C CMB HEM . . . X 9 80.286 -36.365 58.464 1 59.93 ? CMB HEM 301 C 1 HETATM 20 C CAB HEM . . . X 9 81.409 -36.903 61.219 1 59.93 ? CAB HEM 301 C 1 HETATM 21 C CBB HEM . . . X 9 80.443 -37.34 62.084 1 59.93 ? CBB HEM 301 C 1 HETATM 22 C C1C HEM . . . X 9 84.751 -40.157 60.625 1 59.93 ? C1C HEM 301 C 1 HETATM 23 C C2C HEM . . . X 9 85.619 -40.752 61.755 1 59.93 ? C2C HEM 301 C 1 HETATM 24 C C3C HEM . . . X 9 86.488 -41.629 61.154 1 59.93 ? C3C HEM 301 C 1 HETATM 25 C C4C HEM . . . X 9 86.17 -41.604 59.636 1 59.93 ? C4C HEM 301 C 1 HETATM 26 C CMC HEM . . . X 9 85.476 -40.378 63.215 1 59.93 ? CMC HEM 301 C 1 HETATM 27 C CAC HEM . . . X 9 87.601 -42.497 61.839 1 59.93 ? CAC HEM 301 C 1 HETATM 28 C CBC HEM . . . X 9 87.425 -43.452 62.753 1 59.93 ? CBC HEM 301 C 1 HETATM 29 C C1D HEM . . . X 9 86.534 -42.341 57.26 1 59.93 ? C1D HEM 301 C 1 HETATM 30 C C2D HEM . . . X 9 87.21 -43.14 56.245 1 59.93 ? C2D HEM 301 C 1 HETATM 31 C C3D HEM . . . X 9 86.649 -42.839 55.021 1 59.93 ? C3D HEM 301 C 1 HETATM 32 C C4D HEM . . . X 9 85.616 -41.84 55.33 1 59.93 ? C4D HEM 301 C 1 HETATM 33 C CMD HEM . . . X 9 88.343 -44.132 56.508 1 59.93 ? CMD HEM 301 C 1 HETATM 34 C CAD HEM . . . X 9 86.839 -43.253 53.608 1 59.93 ? CAD HEM 301 C 1 HETATM 35 C CBD HEM . . . X 9 85.913 -44.394 53.107 1 59.93 ? CBD HEM 301 C 1 HETATM 36 C CGD HEM . . . X 9 86.213 -44.679 51.626 1 59.93 ? CGD HEM 301 C 1 HETATM 37 O O1D HEM . . . X 9 86.785 -45.755 51.306 1 59.93 ? O1D HEM 301 C 1 HETATM 38 O O2D HEM . . . X 9 85.845 -43.795 50.792 1 59.93 ? O2D HEM 301 C 1 HETATM 39 N NA HEM . . . X 9 83.461 -39.806 55.747 1 59.93 ? NA HEM 301 C 1 HETATM 40 N NB HEM . . . X 9 83.031 -38.947 58.461 1 59.93 ? NB HEM 301 C 1 HETATM 41 N NC HEM . . . X 9 85.128 -40.703 59.403 1 59.93 ? NC HEM 301 C 1 HETATM 42 N ND HEM . . . X 9 85.589 -41.583 56.654 1 59.93 ? ND HEM 301 C 1 HETATM 43 FE FE HEM . . . X 9 84.312 -40.255 57.524 1 36.58 ? FE HEM 301 C 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 43 #