data_4I7Z # _model_server_result.job_id DNA247Gw_cKWkr4j52CzXQ _model_server_result.datetime_utc '2024-11-26 01:16:05' _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 4i7z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":302}' # _entry.id 4I7Z # _exptl.entry_id 4I7Z _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 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 120 _cell.entry_id 4I7Z _cell.length_a 159.451 _cell.length_b 159.451 _cell.length_c 362.746 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4I7Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 12_565 x,x-y+1,-z+1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -79.7255 138.088617 60.457667 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 9 I N N ? 9 J N N ? 9 K N N ? 9 U 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 OE2 GLU 75 A GLU 75 1_555 Q CD CD . A CD 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? metalc ? metalc2 A NE2 HIS 86 A HIS 86 1_555 I FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc3 A NE2 HIS 100 A HIS 100 1_555 J FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? metalc ? metalc4 A NE2 HIS 187 A HIS 187 1_555 I FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc5 A NE2 HIS 202 A HIS 202 1_555 J FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc6 K FE HEM . A HEM 303 1_555 BA O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc7 Q CD CD . A CD 309 1_555 C NE2 HIS 143 C HIS 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.476 ? metalc ? metalc8 Q CD CD . A CD 309 1_555 DA O HOH . C HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? metalc ? metalc9 B OD1 ASP 58 B ASP 58 1_555 S CD CD . B CD 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.448 ? metalc ? metalc10 R MG CLA . B CLA 201 1_555 CA O HOH . B HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? metalc ? metalc11 S CD CD . B CD 202 1_555 F OE2 GLU 4 F GLU 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.525 ? metalc ? metalc12 C N TYR 1 C TYR 1 1_555 U FE HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc13 C NE2 HIS 26 C HIS 26 1_555 U FE HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? # _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 469 n n CHA C4D HEM doub 470 n n CHA HHA HEM sing 471 n n CHB C4A HEM sing 472 n n CHB C1B HEM doub 473 n n CHB HHB HEM sing 474 n n CHC C4B HEM sing 475 n n CHC C1C HEM doub 476 n n CHC HHC HEM sing 477 n n CHD C4C HEM doub 478 n n CHD C1D HEM sing 479 n n CHD HHD HEM sing 480 n n C1A C2A HEM doub 481 n y C1A NA HEM sing 482 n y C2A C3A HEM sing 483 n y C2A CAA HEM sing 484 n n C3A C4A HEM doub 485 n y C3A CMA HEM sing 486 n n C4A NA HEM sing 487 n y CMA HMA HEM sing 488 n n CMA HMAA HEM sing 489 n n CMA HMAB HEM sing 490 n n CAA CBA HEM sing 491 n n CAA HAA HEM sing 492 n n CAA HAAA HEM sing 493 n n CBA CGA HEM sing 494 n n CBA HBA HEM sing 495 n n CBA HBAA HEM sing 496 n n CGA O1A HEM doub 497 n n CGA O2A HEM sing 498 n n C1B C2B HEM sing 499 n n C1B NB HEM sing 500 n n C2B C3B HEM doub 501 n n C2B CMB HEM sing 502 n n C3B C4B HEM sing 503 n n C3B CAB HEM sing 504 n n C4B NB HEM doub 505 n n CMB HMB HEM sing 506 n n CMB HMBA HEM sing 507 n n CMB HMBB HEM sing 508 n n CAB CBB HEM doub 509 n n CAB HAB HEM sing 510 n n CBB HBB HEM sing 511 n n CBB HBBA HEM sing 512 n n C1C C2C HEM sing 513 n y C1C NC HEM sing 514 n y C2C C3C HEM doub 515 n y C2C CMC HEM sing 516 n n C3C C4C HEM sing 517 n y C3C CAC HEM sing 518 n n C4C NC HEM sing 519 n y CMC HMC HEM sing 520 n n CMC HMCA HEM sing 521 n n CMC HMCB HEM sing 522 n n CAC CBC HEM doub 523 n n CAC HAC HEM sing 524 n n CBC HBC HEM sing 525 n n CBC HBCA HEM sing 526 n n C1D C2D HEM sing 527 n n C1D ND HEM doub 528 n n C2D C3D HEM doub 529 n n C2D CMD HEM sing 530 n n C3D C4D HEM sing 531 n n C3D CAD HEM sing 532 n n C4D ND HEM sing 533 n n CMD HMD HEM sing 534 n n CMD HMDA HEM sing 535 n n CMD HMDB HEM sing 536 n n CAD CBD HEM sing 537 n n CAD HAD HEM sing 538 n n CAD HADA HEM sing 539 n n CBD CGD HEM sing 540 n n CBD HBD HEM sing 541 n n CBD HBDA HEM sing 542 n n CGD O1D HEM doub 543 n n CGD O2D HEM sing 544 n n O2A H2A HEM sing 545 n n O2D H2D HEM sing 546 n n FE NA HEM sing 547 n n FE NB HEM sing 548 n n FE NC HEM sing 549 n n FE ND HEM sing 550 n n # _atom_sites.entry_id 4I7Z _atom_sites.fract_transf_matrix[1][1] 0.006272 _atom_sites.fract_transf_matrix[1][2] 0.003621 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007242 _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] 0.002757 _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 I 9 HEM A 1 301 301 HEM HEM . J 9 HEM A 1 302 302 HEM HEM . K 9 HEM A 1 303 303 HEM HEM . L 10 MYS A 1 304 306 MYS MYS . M 11 8K6 A 1 305 308 8K6 8K6 . N 12 UMQ A 1 306 1102 UMQ UMQ . O 12 UMQ A 1 307 1103 UMQ UMQ . P 12 UMQ A 1 308 1104 UMQ UMQ . Q 13 CD A 1 309 1 CD CD . R 14 CLA B 1 201 201 CLA CLA . S 13 CD B 1 202 2 CD CD . T 15 OZ2 B 1 203 3 OZ2 OZ2 . U 9 HEM C 1 301 301 HEM HEM . V 13 CD C 1 302 3 CD CD . W 15 OZ2 C 1 303 1 OZ2 OZ2 . X 16 1E2 D 1 201 201 1E2 1E2 . Y 17 OCT F 1 101 102 OCT OCT . Z 18 BCR G 1 101 101 BCR BCR . AA 15 OZ2 G 1 102 2 OZ2 OZ2 . BA 19 HOH A 1 401 3 HOH HOH . BA 19 HOH A 2 402 4 HOH HOH . BA 19 HOH A 3 403 6 HOH HOH . BA 19 HOH A 4 404 8 HOH HOH . BA 19 HOH A 5 405 10 HOH HOH . BA 19 HOH A 6 406 11 HOH HOH . BA 19 HOH A 7 407 12 HOH HOH . BA 19 HOH A 8 408 13 HOH HOH . CA 19 HOH B 1 301 1 HOH HOH . CA 19 HOH B 2 302 2 HOH HOH . CA 19 HOH B 3 303 5 HOH HOH . CA 19 HOH B 4 304 9 HOH HOH . DA 19 HOH C 1 401 7 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 . . . J 9 -27.048 73.531 12.821 1 69.05 ? CHA HEM 302 A 1 HETATM 2 C CHB HEM . . . J 9 -31.538 73.131 14.611 1 60.21 ? CHB HEM 302 A 1 HETATM 3 C CHC HEM . . . J 9 -31.708 68.483 13.252 1 63.56 ? CHC HEM 302 A 1 HETATM 4 C CHD HEM . . . J 9 -27.034 68.715 12.02 1 73.77 ? CHD HEM 302 A 1 HETATM 5 C C1A HEM . . . J 9 -28.285 73.837 13.344 1 64.46 ? C1A HEM 302 A 1 HETATM 6 C C2A HEM . . . J 9 -28.758 75.165 13.664 1 60.35 ? C2A HEM 302 A 1 HETATM 7 C C3A HEM . . . J 9 -29.992 75.064 14.153 1 60.35 ? C3A HEM 302 A 1 HETATM 8 C C4A HEM . . . J 9 -30.35 73.659 14.172 1 61.4 ? C4A HEM 302 A 1 HETATM 9 C CMA HEM . . . J 9 -30.866 76.251 14.619 1 56.57 ? CMA HEM 302 A 1 HETATM 10 C CAA HEM . . . J 9 -27.993 76.485 13.461 1 56.74 ? CAA HEM 302 A 1 HETATM 11 C CBA HEM . . . J 9 -27.508 76.613 12.019 1 59.85 ? CBA HEM 302 A 1 HETATM 12 C CGA HEM . . . J 9 -28.582 76.535 10.957 1 64.92 ? CGA HEM 302 A 1 HETATM 13 O O1A HEM . . . J 9 -28.199 76.373 9.77 1 65.54 ? O1A HEM 302 A 1 HETATM 14 O O2A HEM . . . J 9 -29.805 76.637 11.256 1 68.37 ? O2A HEM 302 A 1 HETATM 15 C C1B HEM . . . J 9 -31.969 71.84 14.406 1 60.36 ? C1B HEM 302 A 1 HETATM 16 C C2B HEM . . . J 9 -33.251 71.298 14.818 1 57.25 ? C2B HEM 302 A 1 HETATM 17 C C3B HEM . . . J 9 -33.304 70.018 14.443 1 59.47 ? C3B HEM 302 A 1 HETATM 18 C C4B HEM . . . J 9 -32.05 69.704 13.786 1 61.24 ? C4B HEM 302 A 1 HETATM 19 C CMB HEM . . . J 9 -34.349 72.099 15.549 1 51.73 ? CMB HEM 302 A 1 HETATM 20 C CAB HEM . . . J 9 -34.458 69.017 14.667 1 57.74 ? CAB HEM 302 A 1 HETATM 21 C CBB HEM . . . J 9 -35.508 69.331 15.424 1 58.25 ? CBB HEM 302 A 1 HETATM 22 C C1C HEM . . . J 9 -30.485 68.188 12.703 1 67.69 ? C1C HEM 302 A 1 HETATM 23 C C2C HEM . . . J 9 -30.191 67.033 11.89 1 67.47 ? C2C HEM 302 A 1 HETATM 24 C C3C HEM . . . J 9 -28.901 67.1 11.542 1 71.17 ? C3C HEM 302 A 1 HETATM 25 C C4C HEM . . . J 9 -28.34 68.298 12.134 1 70.88 ? C4C HEM 302 A 1 HETATM 26 C CMC HEM . . . J 9 -31.224 65.949 11.515 1 62.77 ? CMC HEM 302 A 1 HETATM 27 C CAC HEM . . . J 9 -28.09 66.098 10.686 1 76.72 ? CAC HEM 302 A 1 HETATM 28 C CBC HEM . . . J 9 -28.622 64.948 10.259 1 79.41 ? CBC HEM 302 A 1 HETATM 29 C C1D HEM . . . J 9 -26.576 70.006 12.146 1 73.33 ? C1D HEM 302 A 1 HETATM 30 C C2D HEM . . . J 9 -25.209 70.43 11.938 1 73.12 ? C2D HEM 302 A 1 HETATM 31 C C3D HEM . . . J 9 -25.211 71.939 12.194 1 72.24 ? C3D HEM 302 A 1 HETATM 32 C C4D HEM . . . J 9 -26.579 72.271 12.523 1 71.7 ? C4D HEM 302 A 1 HETATM 33 C CMD HEM . . . J 9 -24.01 69.544 11.547 1 73.43 ? CMD HEM 302 A 1 HETATM 34 C CAD HEM . . . J 9 -24.014 72.901 12.104 1 73.25 ? CAD HEM 302 A 1 HETATM 35 C CBD HEM . . . J 9 -23.572 73.004 10.65 1 74.13 ? CBD HEM 302 A 1 HETATM 36 C CGD HEM . . . J 9 -22.593 74.14 10.503 1 74.46 ? CGD HEM 302 A 1 HETATM 37 O O1D HEM . . . J 9 -21.97 74.526 11.525 1 77.47 ? O1D HEM 302 A 1 HETATM 38 O O2D HEM . . . J 9 -22.434 74.655 9.366 1 72.93 ? O2D HEM 302 A 1 HETATM 39 N NA HEM . . . J 9 -29.284 72.938 13.672 1 63.32 ? NA HEM 302 A 1 HETATM 40 N NB HEM . . . J 9 -31.257 70.84 13.776 1 60.76 ? NB HEM 302 A 1 HETATM 41 N NC HEM . . . J 9 -29.335 68.943 12.835 1 69.46 ? NC HEM 302 A 1 HETATM 42 N ND HEM . . . J 9 -27.346 71.11 12.49 1 72.22 ? ND HEM 302 A 1 HETATM 43 FE FE HEM . . . J 9 -29.287 70.976 13.187 1 61.53 ? FE HEM 302 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #