data_6ZFU # _model_server_result.job_id lBGFo5koppcRFC0Vt-KXRg _model_server_result.datetime_utc '2024-11-05 04:56:10' _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 6zfu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":401}' # _entry.id 6ZFU # _exptl.entry_id 6ZFU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 14 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _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 120 _cell.entry_id 6ZFU _cell.length_a 210.74 _cell.length_b 210.74 _cell.length_c 343.935 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ZFU _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details decameric _pdbx_struct_assembly.oligomeric_count 10 _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 _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 ? 14 N N N ? 14 O 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 144 E CYS 144 1_555 E SG CYS 160 E CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf2 H SG CYS 12 H CYS 24 1_555 H SG CYS 56 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 H SG CYS 28 H CYS 40 1_555 H SG CYS 42 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc1 C NE2 HIS 82 C HIS 83 1_555 N FE HEM . C HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc2 C NE2 HIS 96 C HIS 97 1_555 O FE HEM . C HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc3 C NE2 HIS 181 C HIS 182 1_555 N FE HEM . C HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? metalc ? metalc4 C NE2 HIS 195 C HIS 196 1_555 O FE HEM . C HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc5 D NE2 HIS 40 D HIS 41 1_555 V FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc6 D SD MET 159 D MET 160 1_555 V FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? # _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 531 n n CHA C4D HEM doub 532 n n CHA HHA HEM sing 533 n n CHB C4A HEM sing 534 n n CHB C1B HEM doub 535 n n CHB HHB HEM sing 536 n n CHC C4B HEM sing 537 n n CHC C1C HEM doub 538 n n CHC HHC HEM sing 539 n n CHD C4C HEM doub 540 n n CHD C1D HEM sing 541 n n CHD HHD HEM sing 542 n n C1A C2A HEM doub 543 n y C1A NA HEM sing 544 n y C2A C3A HEM sing 545 n y C2A CAA HEM sing 546 n n C3A C4A HEM doub 547 n y C3A CMA HEM sing 548 n n C4A NA HEM sing 549 n y CMA HMA HEM sing 550 n n CMA HMAA HEM sing 551 n n CMA HMAB HEM sing 552 n n CAA CBA HEM sing 553 n n CAA HAA HEM sing 554 n n CAA HAAA HEM sing 555 n n CBA CGA HEM sing 556 n n CBA HBA HEM sing 557 n n CBA HBAA HEM sing 558 n n CGA O1A HEM doub 559 n n CGA O2A HEM sing 560 n n C1B C2B HEM sing 561 n n C1B NB HEM sing 562 n n C2B C3B HEM doub 563 n n C2B CMB HEM sing 564 n n C3B C4B HEM sing 565 n n C3B CAB HEM sing 566 n n C4B NB HEM doub 567 n n CMB HMB HEM sing 568 n n CMB HMBA HEM sing 569 n n CMB HMBB HEM sing 570 n n CAB CBB HEM doub 571 n n CAB HAB HEM sing 572 n n CBB HBB HEM sing 573 n n CBB HBBA HEM sing 574 n n C1C C2C HEM sing 575 n y C1C NC HEM sing 576 n y C2C C3C HEM doub 577 n y C2C CMC HEM sing 578 n n C3C C4C HEM sing 579 n y C3C CAC HEM sing 580 n n C4C NC HEM sing 581 n y CMC HMC HEM sing 582 n n CMC HMCA HEM sing 583 n n CMC HMCB HEM sing 584 n n CAC CBC HEM doub 585 n n CAC HAC HEM sing 586 n n CBC HBC HEM sing 587 n n CBC HBCA HEM sing 588 n n C1D C2D HEM sing 589 n n C1D ND HEM doub 590 n n C2D C3D HEM doub 591 n n C2D CMD HEM sing 592 n n C3D C4D HEM sing 593 n n C3D CAD HEM sing 594 n n C4D ND HEM sing 595 n n CMD HMD HEM sing 596 n n CMD HMDA HEM sing 597 n n CMD HMDB HEM sing 598 n n CAD CBD HEM sing 599 n n CAD HAD HEM sing 600 n n CAD HADA HEM sing 601 n n CBD CGD HEM sing 602 n n CBD HBD HEM sing 603 n n CBD HBDA HEM sing 604 n n CGD O1D HEM doub 605 n n CGD O2D HEM sing 606 n n O2A H2A HEM sing 607 n n O2D H2D HEM sing 608 n n FE NA HEM sing 609 n n FE NB HEM sing 610 n n FE NC HEM sing 611 n n FE ND HEM sing 612 n n # _atom_sites.entry_id 6ZFU _atom_sites.fract_transf_matrix[1][1] 0.004745 _atom_sites.fract_transf_matrix[1][2] 0.00274 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005479 _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] 0.002908 _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 K 11 PG4 A 1 501 501 PG4 PG4 . L 12 6PE A 1 502 502 6PE 6PE . M 13 CDL A 1 503 401 CDL CDL . N 14 HEM C 1 401 402 HEM HEM . O 14 HEM C 1 402 403 HEM HEM . P 15 LMT C 1 403 405 LMT LMT . Q 11 PG4 C 1 404 406 PG4 PG4 . R 11 PG4 C 1 405 407 PG4 PG4 . S 13 CDL C 1 406 408 CDL CDL . T 16 PEE C 1 407 409 PEE PEE . U 17 JHE C 1 408 404 JHE RKA . V 18 HEC D 1 501 501 HEC HEC . W 19 PO4 D 1 502 502 PO4 PO4 . X 13 CDL D 1 503 503 CDL CDL . Y 20 FES E 1 201 201 FES FES . Z 21 PX4 E 1 202 202 PX4 PX4 . AA 16 PEE E 1 203 204 PEE PEE . BA 13 CDL E 1 204 205 CDL CDL . CA 19 PO4 F 1 501 501 PO4 PO4 . DA 19 PO4 G 1 101 101 PO4 PO4 . EA 19 PO4 G 1 102 102 PO4 PO4 . FA 19 PO4 G 1 103 103 PO4 PO4 . GA 22 HOH A 1 601 503 HOH HOH . GA 22 HOH A 2 602 505 HOH HOH . GA 22 HOH A 3 603 504 HOH HOH . HA 22 HOH C 1 501 501 HOH HOH . IA 22 HOH G 1 201 104 HOH HOH . JA 22 HOH I 1 501 501 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 . . . N 14 -48.402 -81.46 33.307 1 107.84 ? CHA HEM 401 C 1 HETATM 2 C CHB HEM . . . N 14 -51.617 -78.506 35.364 1 106.34 ? CHB HEM 401 C 1 HETATM 3 C CHC HEM . . . N 14 -54.942 -79.903 32.094 1 104.37 ? CHC HEM 401 C 1 HETATM 4 C CHD HEM . . . N 14 -51.769 -83.07 30.248 1 106.57 ? CHD HEM 401 C 1 HETATM 5 C C1A HEM . . . N 14 -48.991 -80.517 34.114 1 107.23 ? C1A HEM 401 C 1 HETATM 6 C C2A HEM . . . N 14 -48.312 -79.8 35.135 1 108.25 ? C2A HEM 401 C 1 HETATM 7 C C3A HEM . . . N 14 -49.198 -78.961 35.726 1 107.81 ? C3A HEM 401 C 1 HETATM 8 C C4A HEM . . . N 14 -50.441 -79.171 35.066 1 106.92 ? C4A HEM 401 C 1 HETATM 9 C CMA HEM . . . N 14 -48.887 -77.998 36.868 1 108.02 ? CMA HEM 401 C 1 HETATM 10 C CAA HEM . . . N 14 -46.848 -79.899 35.499 1 110.02 ? CAA HEM 401 C 1 HETATM 11 C CBA HEM . . . N 14 -46.077 -79.01 34.507 1 110.92 ? CBA HEM 401 C 1 HETATM 12 C CGA HEM . . . N 14 -44.594 -79.23 34.625 1 112.29 ? CGA HEM 401 C 1 HETATM 13 O O1A HEM . . . N 14 -43.978 -78.926 35.678 1 114.1 ? O1A HEM 401 C 1 HETATM 14 O O2A HEM . . . N 14 -43.978 -79.714 33.656 1 111.7 ? O2A HEM 401 C 1 HETATM 15 C C1B HEM . . . N 14 -52.794 -78.645 34.609 1 105.36 ? C1B HEM 401 C 1 HETATM 16 C C2B HEM . . . N 14 -53.949 -77.892 34.944 1 105.11 ? C2B HEM 401 C 1 HETATM 17 C C3B HEM . . . N 14 -54.923 -78.262 34.053 1 105.13 ? C3B HEM 401 C 1 HETATM 18 C C4B HEM . . . N 14 -54.283 -79.275 33.154 1 104.55 ? C4B HEM 401 C 1 HETATM 19 C CMB HEM . . . N 14 -54.033 -76.889 36.083 1 104.98 ? CMB HEM 401 C 1 HETATM 20 C CAB HEM . . . N 14 -56.331 -77.767 33.958 1 105.79 ? CAB HEM 401 C 1 HETATM 21 C CBB HEM . . . N 14 -57.02 -77.139 34.923 1 105.6 ? CBB HEM 401 C 1 HETATM 22 C C1C HEM . . . N 14 -54.398 -80.901 31.292 1 104.41 ? C1C HEM 401 C 1 HETATM 23 C C2C HEM . . . N 14 -55.066 -81.64 30.283 1 104.63 ? C2C HEM 401 C 1 HETATM 24 C C3C HEM . . . N 14 -54.147 -82.555 29.754 1 105.6 ? C3C HEM 401 C 1 HETATM 25 C C4C HEM . . . N 14 -52.923 -82.349 30.469 1 105.88 ? C4C HEM 401 C 1 HETATM 26 C CMC HEM . . . N 14 -56.507 -81.46 29.861 1 103.69 ? CMC HEM 401 C 1 HETATM 27 C CAC HEM . . . N 14 -54.312 -83.569 28.67 1 105.66 ? CAC HEM 401 C 1 HETATM 28 C CBC HEM . . . N 14 -55.445 -83.814 28.019 1 105.4 ? CBC HEM 401 C 1 HETATM 29 C C1D HEM . . . N 14 -50.583 -82.864 30.947 1 106.53 ? C1D HEM 401 C 1 HETATM 30 C C2D HEM . . . N 14 -49.359 -83.643 30.656 1 107.12 ? C2D HEM 401 C 1 HETATM 31 C C3D HEM . . . N 14 -48.42 -83.196 31.5 1 107.66 ? C3D HEM 401 C 1 HETATM 32 C C4D HEM . . . N 14 -49.083 -82.145 32.308 1 107.31 ? C4D HEM 401 C 1 HETATM 33 C CMD HEM . . . N 14 -49.158 -84.728 29.624 1 106.99 ? CMD HEM 401 C 1 HETATM 34 C CAD HEM . . . N 14 -46.994 -83.702 31.575 1 108.54 ? CAD HEM 401 C 1 HETATM 35 C CBD HEM . . . N 14 -46.088 -82.884 30.653 1 110.84 ? CBD HEM 401 C 1 HETATM 36 C CGD HEM . . . N 14 -45.487 -81.704 31.398 1 112.78 ? CGD HEM 401 C 1 HETATM 37 O O1D HEM . . . N 14 -44.884 -81.884 32.483 1 113.07 ? O1D HEM 401 C 1 HETATM 38 O O2D HEM . . . N 14 -45.576 -80.537 30.934 1 113.56 ? O2D HEM 401 C 1 HETATM 39 N NA HEM . . . N 14 -50.31 -80.141 34.087 1 106.27 ? NA HEM 401 C 1 HETATM 40 N NB HEM . . . N 14 -53.019 -79.454 33.553 1 104.72 ? NB HEM 401 C 1 HETATM 41 N NC HEM . . . N 14 -53.124 -81.372 31.41 1 104.79 ? NC HEM 401 C 1 HETATM 42 N ND HEM . . . N 14 -50.371 -81.982 31.938 1 106.16 ? ND HEM 401 C 1 HETATM 43 FE FE HEM . . . N 14 -51.601 -80.772 32.691 1 104.84 ? FE HEM 401 C 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #