data_8IBC
#
_model_server_result.job_id            EFQ6R4kIjZeixYADFye7QA 
_model_server_result.datetime_utc      '2025-01-01 14:00:23' 
_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          8ibc 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"IA","auth_seq_id":401}' 
#
_entry.id    8IBC 
#
_exptl.entry_id    8IBC 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              618.503 
_entity.id                          15 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'HEME C' 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    21-meric 
_pdbx_struct_assembly.oligomeric_count      21 
_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 
_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
? 15 AA N N 
? 15 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 A SG CYS 338 AA CYS 338 1_555 A SG CYS 360 AA CYS 360 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? 
disulf ? disulf2 E SG CYS 217 AE CYS 217 1_555 E SG CYS 236 AE CYS 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? 
disulf ? disulf3 E SG CYS 222 AE CYS 222 1_555 E SG CYS 238 AE CYS 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? 
disulf ? disulf4 H SG CYS 51 AH CYS 51 1_555 H SG CYS 65 AH CYS 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
disulf ? disulf5 L SG CYS 338 Aa CYS 338 1_555 L SG CYS 360 Aa CYS 360 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf6 P SG CYS 222 Ae CYS 222 1_555 P SG CYS 238 Ae CYS 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? 
disulf ? disulf7 S SG CYS 35 Ah CYS 35 1_555 S SG CYS 79 Ah CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf8 S SG CYS 51 Ah CYS 51 1_555 S SG CYS 65 Ah CYS 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
covale ? covale1 HA C33 CDL . Ac CDL 406 1_555 JA OB7 CDL . Ag CDL 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.408 ? 
metalc ? metalc1 C NE2 HIS 83 AC HIS 83 1_555 V FE HEM . AC HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? 
metalc ? metalc2 C NE2 HIS 97 AC HIS 97 1_555 W FE HEM . AC HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? 
metalc ? metalc3 C NE2 HIS 182 AC HIS 182 1_555 V FE HEM . AC HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
metalc ? metalc4 C NE2 HIS 196 AC HIS 196 1_555 W FE HEM . AC HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? 
metalc ? metalc5 D NE2 HIS 125 AD HIS 125 1_555 AA FE HEC . AD HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.927 ? 
metalc ? metalc6 D SD MET 244 AD MET 244 1_555 AA FE HEC . AD HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.193 ? 
metalc ? metalc7 N NE2 HIS 83 Ac HIS 83 1_555 CA FE HEM . Ac HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? 
metalc ? metalc8 N NE2 HIS 97 Ac HIS 97 1_555 DA FE HEM . Ac HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? 
metalc ? metalc9 N NE2 HIS 182 Ac HIS 182 1_555 CA FE HEM . Ac HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? 
metalc ? metalc10 N NE2 HIS 196 Ac HIS 196 1_555 DA FE HEM . Ac HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? 
metalc ? metalc11 O NE2 HIS 125 Ad HIS 125 1_555 IA FE HEC . Ad HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? 
metalc ? metalc12 O SD MET 244 Ad MET 244 1_555 IA FE HEC . Ad HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.959 ? 
#
_chem_comp.formula           'C34 H34 Fe N4 O4' 
_chem_comp.formula_weight    618.503 
_chem_comp.id                HEC 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'HEME C' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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
FE NA HEC sing 516 n n 
FE NB HEC sing 517 n n 
FE NC HEC sing 518 n n 
FE ND HEC sing 519 n n 
CHA C1A HEC doub 520 n n 
CHA C4D HEC sing 521 n n 
CHA HHA HEC sing 522 n n 
CHB C4A HEC doub 523 n n 
CHB C1B HEC sing 524 n n 
CHB HHB HEC sing 525 n n 
CHC C4B HEC doub 526 n n 
CHC C1C HEC sing 527 n n 
CHC HHC HEC sing 528 n n 
CHD C4C HEC doub 529 n n 
CHD C1D HEC sing 530 n n 
CHD HHD HEC sing 531 n n 
NA C1A HEC sing 532 n y 
NA C4A HEC sing 533 n y 
C1A C2A HEC sing 534 n y 
C2A C3A HEC doub 535 n y 
C2A CAA HEC sing 536 n n 
C3A C4A HEC sing 537 n y 
C3A CMA HEC sing 538 n n 
CMA HMA1 HEC sing 539 n n 
CMA HMA2 HEC sing 540 n n 
CMA HMA3 HEC sing 541 n n 
CAA CBA HEC sing 542 n n 
CAA HAA1 HEC sing 543 n n 
CAA HAA2 HEC sing 544 n n 
CBA CGA HEC sing 545 n n 
CBA HBA1 HEC sing 546 n n 
CBA HBA2 HEC sing 547 n n 
CGA O1A HEC doub 548 n n 
CGA O2A HEC sing 549 n n 
O2A H2A HEC sing 550 n n 
NB C1B HEC sing 551 n y 
NB C4B HEC sing 552 n y 
C1B C2B HEC doub 553 n y 
C2B C3B HEC sing 554 n y 
C2B CMB HEC sing 555 n n 
C3B C4B HEC sing 556 n y 
C3B CAB HEC doub 557 e n 
CMB HMB1 HEC sing 558 n n 
CMB HMB2 HEC sing 559 n n 
CMB HMB3 HEC sing 560 n n 
CAB CBB HEC sing 561 n n 
CAB HAB HEC sing 562 n n 
CBB HBB1 HEC sing 563 n n 
CBB HBB2 HEC sing 564 n n 
CBB HBB3 HEC sing 565 n n 
NC C1C HEC sing 566 n y 
NC C4C HEC sing 567 n y 
C1C C2C HEC doub 568 n y 
C2C C3C HEC sing 569 n y 
C2C CMC HEC sing 570 n n 
C3C C4C HEC sing 571 n y 
C3C CAC HEC doub 572 e n 
CMC HMC1 HEC sing 573 n n 
CMC HMC2 HEC sing 574 n n 
CMC HMC3 HEC sing 575 n n 
CAC CBC HEC sing 576 n n 
CAC HAC HEC sing 577 n n 
CBC HBC1 HEC sing 578 n n 
CBC HBC2 HEC sing 579 n n 
CBC HBC3 HEC sing 580 n n 
ND C1D HEC sing 581 n y 
ND C4D HEC sing 582 n y 
C1D C2D HEC doub 583 n y 
C2D C3D HEC sing 584 n y 
C2D CMD HEC sing 585 n n 
C3D C4D HEC doub 586 n y 
C3D CAD HEC sing 587 n n 
CMD HMD1 HEC sing 588 n n 
CMD HMD2 HEC sing 589 n n 
CMD HMD3 HEC sing 590 n n 
CAD CBD HEC sing 591 n n 
CAD HAD1 HEC sing 592 n n 
CAD HAD2 HEC sing 593 n n 
CBD CGD HEC sing 594 n n 
CBD HBD1 HEC sing 595 n n 
CBD HBD2 HEC sing 596 n n 
CGD O1D HEC doub 597 n n 
CGD O2D HEC sing 598 n n 
O2D H2D HEC sing 599 n n 
#
_atom_sites.entry_id                     8IBC 
_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
V 11 HEM AC 1 401 401 HEM HEM . 
W 11 HEM AC 1 402 402 HEM HEM . 
X 12 3PE AC 1 403 403 3PE 3PE . 
Y 13 U10 AC 1 404 505 U10 U10 . 
Z 14 UQ6 AC 1 405 506 UQ6 UQ6 . 
AA 15 HEC AD 1 401 395 HEC HEC . 
BA 16 CDL Aa 1 501 536 CDL CDL . 
CA 11 HEM Ac 1 401 401 HEM HEM . 
DA 11 HEM Ac 1 402 402 HEM HEM . 
EA 12 3PE Ac 1 403 403 3PE 3PE . 
FA 13 U10 Ac 1 404 505 U10 U10 . 
GA 14 UQ6 Ac 1 405 506 UQ6 UQ6 . 
HA 16 CDL Ac 1 406 102 CDL CDL . 
IA 15 HEC Ad 1 401 395 HEC HEC . 
JA 16 CDL Ag 1 101 103 CDL CDL . 
#
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 HEC . . . IA 15 138.95 186.577 156.286 1 50.59 0 FE HEC 401 Ad 1 
HETATM 2 C CHA HEC . . . IA 15 141.242 184.103 157.083 1 52.24 0 CHA HEC 401 Ad 1 
HETATM 3 C CHB HEC . . . IA 15 140.13 188.497 158.918 1 49.02 0 CHB HEC 401 Ad 1 
HETATM 4 C CHC HEC . . . IA 15 136.711 189.116 155.474 1 53.23 0 CHC HEC 401 Ad 1 
HETATM 5 C CHD HEC . . . IA 15 137.84 184.713 153.588 1 58.81 0 CHD HEC 401 Ad 1 
HETATM 6 N NA HEC . . . IA 15 140.432 186.339 157.756 1 54.58 0 NA HEC 401 Ad 1 
HETATM 7 C C1A HEC . . . IA 15 141.266 185.299 157.939 1 51.4 0 C1A HEC 401 Ad 1 
HETATM 8 C C2A HEC . . . IA 15 142.213 185.437 159.076 1 52.28 0 C2A HEC 401 Ad 1 
HETATM 9 C C3A HEC . . . IA 15 141.872 186.757 159.623 1 53.47 0 C3A HEC 401 Ad 1 
HETATM 10 C C4A HEC . . . IA 15 140.78 187.198 158.731 1 51.86 0 C4A HEC 401 Ad 1 
HETATM 11 C CMA HEC . . . IA 15 142.474 187.49 160.792 1 40.97 0 CMA HEC 401 Ad 1 
HETATM 12 C CAA HEC . . . IA 15 143.266 184.476 159.563 1 56.01 0 CAA HEC 401 Ad 1 
HETATM 13 C CBA HEC . . . IA 15 144.627 185.147 159.441 1 58.51 0 CBA HEC 401 Ad 1 
HETATM 14 C CGA HEC . . . IA 15 145.625 184.416 160.304 1 62.81 0 CGA HEC 401 Ad 1 
HETATM 15 O O1A HEC . . . IA 15 145.717 183.176 160.187 1 63.66 0 O1A HEC 401 Ad 1 
HETATM 16 O O2A HEC . . . IA 15 146.324 185.077 161.1 1 67.24 0 O2A HEC 401 Ad 1 
HETATM 17 N NB HEC . . . IA 15 138.478 188.455 157.068 1 53 0 NB HEC 401 Ad 1 
HETATM 18 C C1B HEC . . . IA 15 139.042 189.037 158.127 1 51.39 0 C1B HEC 401 Ad 1 
HETATM 19 C C2B HEC . . . IA 15 138.558 190.352 158.499 1 53.29 0 C2B HEC 401 Ad 1 
HETATM 20 C C3B HEC . . . IA 15 137.544 190.577 157.467 1 55.98 0 C3B HEC 401 Ad 1 
HETATM 21 C C4B HEC . . . IA 15 137.58 189.354 156.635 1 51.5 0 C4B HEC 401 Ad 1 
HETATM 22 C CMB HEC . . . IA 15 139.079 191.083 159.69 1 48.95 0 CMB HEC 401 Ad 1 
HETATM 23 C CAB HEC . . . IA 15 136.698 191.762 157.251 1 53.82 0 CAB HEC 401 Ad 1 
HETATM 24 C CBB HEC . . . IA 15 136.737 192.943 158.181 1 31.46 0 CBB HEC 401 Ad 1 
HETATM 25 N NC HEC . . . IA 15 137.505 186.86 154.786 1 57.03 0 NC HEC 401 Ad 1 
HETATM 26 C C1C HEC . . . IA 15 136.702 187.933 154.595 1 54.55 0 C1C HEC 401 Ad 1 
HETATM 27 C C2C HEC . . . IA 15 135.786 187.852 153.429 1 52.87 0 C2C HEC 401 Ad 1 
HETATM 28 C C3C HEC . . . IA 15 136.14 186.539 152.887 1 58.57 0 C3C HEC 401 Ad 1 
HETATM 29 C C4C HEC . . . IA 15 137.197 186.023 153.778 1 59.92 0 C4C HEC 401 Ad 1 
HETATM 30 C CMC HEC . . . IA 15 134.772 188.853 152.952 1 31.67 0 CMC HEC 401 Ad 1 
HETATM 31 C CAC HEC . . . IA 15 135.583 185.867 151.69 1 58.17 0 CAC HEC 401 Ad 1 
HETATM 32 C CBC HEC . . . IA 15 134.492 186.484 150.85 1 54.91 0 CBC HEC 401 Ad 1 
HETATM 33 N ND HEC . . . IA 15 139.449 184.714 155.478 1 54.29 0 ND HEC 401 Ad 1 
HETATM 34 C C1D HEC . . . IA 15 138.916 184.115 154.398 1 58.05 0 C1D HEC 401 Ad 1 
HETATM 35 C C2D HEC . . . IA 15 139.5 182.798 154.067 1 57.84 0 C2D HEC 401 Ad 1 
HETATM 36 C C3D HEC . . . IA 15 140.51 182.614 155.117 1 57.65 0 C3D HEC 401 Ad 1 
HETATM 37 C C4D HEC . . . IA 15 140.392 183.856 155.907 1 56.74 0 C4D HEC 401 Ad 1 
HETATM 38 C CMD HEC . . . IA 15 139.132 181.88 152.938 1 47.9 0 CMD HEC 401 Ad 1 
HETATM 39 C CAD HEC . . . IA 15 141.468 181.477 155.332 1 53.35 0 CAD HEC 401 Ad 1 
HETATM 40 C CBD HEC . . . IA 15 142.81 181.994 154.827 1 49.78 0 CBD HEC 401 Ad 1 
HETATM 41 C CGD HEC . . . IA 15 143.946 181.216 155.441 1 54.81 0 CGD HEC 401 Ad 1 
HETATM 42 O O1D HEC . . . IA 15 145.073 181.297 154.908 1 59.37 0 O1D HEC 401 Ad 1 
HETATM 43 O O2D HEC . . . IA 15 143.715 180.526 156.457 1 57.75 0 O2D HEC 401 Ad 1 
#
_model_server_stats.io_time_ms              38 
_model_server_stats.parse_time_ms           37 
_model_server_stats.create_model_time_ms    103 
_model_server_stats.query_time_ms           319 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           43 
#