data_5XTE
#
_model_server_result.job_id            Stz79v3AQVpBgp9b0pwE0A 
_model_server_result.datetime_utc      '2025-07-31 06:15:49' 
_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          5xte 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"DA","auth_seq_id":402}' 
#
_entry.id    5XTE 
#
_exptl.entry_id    5XTE 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              616.487 
_entity.id                          16 
_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         90 
_cell.entry_id            5XTE 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               1 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5XTE 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    22-meric 
_pdbx_struct_assembly.oligomeric_count      22 
_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,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA 
_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
? 16 CA N N 
? 16 DA N N 
? 16 RA N N 
? 16 SA 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 C SG CYS 144 C CYS 222 1_555 C SG CYS 160 C CYS 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 N SG CYS 144 P CYS 222 1_555 N SG CYS 160 P CYS 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
metalc ? metalc1 C ND1 HIS 141 C HIS 219 1_555 X FE2 FES . C FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? 
metalc ? metalc2 C ND1 HIS 161 C HIS 239 1_555 X FE2 FES . C FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.499 ? 
metalc ? metalc3 H NE2 HIS 41 H HIS 125 1_555 AA FE HEC . H HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? 
metalc ? metalc4 I NE2 HIS 82 J HIS 83 1_555 CA FE HEM . J HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? 
metalc ? metalc5 I NE2 HIS 96 J HIS 97 1_555 DA FE HEM . J HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? 
metalc ? metalc6 I NE2 HIS 181 J HIS 182 1_555 CA FE HEM . J HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? 
metalc ? metalc7 I NE2 HIS 195 J HIS 196 1_555 DA FE HEM . J HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.54 ? 
metalc ? metalc8 N ND1 HIS 161 P HIS 239 1_555 LA FE2 FES . P FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? 
metalc ? metalc9 S NE2 HIS 41 U HIS 125 1_555 PA FE HEC . U HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.647 ? 
metalc ? metalc10 T NE2 HIS 82 V HIS 83 1_555 RA FE HEM . V HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? 
metalc ? metalc11 T NE2 HIS 96 V HIS 97 1_555 SA FE HEM . V HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.54 ? 
metalc ? metalc12 T NE2 HIS 181 V HIS 182 1_555 RA FE HEM . V HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.734 ? 
metalc ? metalc13 T NE2 HIS 195 V HIS 196 1_555 SA FE HEM . V HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.678 ? 
#
_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 472 n n 
CHA C4D HEM doub 473 n n 
CHA HHA HEM sing 474 n n 
CHB C4A HEM sing 475 n n 
CHB C1B HEM doub 476 n n 
CHB HHB HEM sing 477 n n 
CHC C4B HEM sing 478 n n 
CHC C1C HEM doub 479 n n 
CHC HHC HEM sing 480 n n 
CHD C4C HEM doub 481 n n 
CHD C1D HEM sing 482 n n 
CHD HHD HEM sing 483 n n 
C1A C2A HEM doub 484 n y 
C1A NA HEM sing 485 n y 
C2A C3A HEM sing 486 n y 
C2A CAA HEM sing 487 n n 
C3A C4A HEM doub 488 n y 
C3A CMA HEM sing 489 n n 
C4A NA HEM sing 490 n y 
CMA HMA HEM sing 491 n n 
CMA HMAA HEM sing 492 n n 
CMA HMAB HEM sing 493 n n 
CAA CBA HEM sing 494 n n 
CAA HAA HEM sing 495 n n 
CAA HAAA HEM sing 496 n n 
CBA CGA HEM sing 497 n n 
CBA HBA HEM sing 498 n n 
CBA HBAA HEM sing 499 n n 
CGA O1A HEM doub 500 n n 
CGA O2A HEM sing 501 n n 
C1B C2B HEM sing 502 n n 
C1B NB HEM sing 503 n n 
C2B C3B HEM doub 504 n n 
C2B CMB HEM sing 505 n n 
C3B C4B HEM sing 506 n n 
C3B CAB HEM sing 507 n n 
C4B NB HEM doub 508 n n 
CMB HMB HEM sing 509 n n 
CMB HMBA HEM sing 510 n n 
CMB HMBB HEM sing 511 n n 
CAB CBB HEM doub 512 n n 
CAB HAB HEM sing 513 n n 
CBB HBB HEM sing 514 n n 
CBB HBBA HEM sing 515 n n 
C1C C2C HEM sing 516 n y 
C1C NC HEM sing 517 n y 
C2C C3C HEM doub 518 n y 
C2C CMC HEM sing 519 n n 
C3C C4C HEM sing 520 n y 
C3C CAC HEM sing 521 n n 
C4C NC HEM sing 522 n y 
CMC HMC HEM sing 523 n n 
CMC HMCA HEM sing 524 n n 
CMC HMCB HEM sing 525 n n 
CAC CBC HEM doub 526 n n 
CAC HAC HEM sing 527 n n 
CBC HBC HEM sing 528 n n 
CBC HBCA HEM sing 529 n n 
C1D C2D HEM sing 530 n n 
C1D ND HEM doub 531 n n 
C2D C3D HEM doub 532 n n 
C2D CMD HEM sing 533 n n 
C3D C4D HEM sing 534 n n 
C3D CAD HEM sing 535 n n 
C4D ND HEM sing 536 n n 
CMD HMD HEM sing 537 n n 
CMD HMDA HEM sing 538 n n 
CMD HMDB HEM sing 539 n n 
CAD CBD HEM sing 540 n n 
CAD HAD HEM sing 541 n n 
CAD HADA HEM sing 542 n n 
CBD CGD HEM sing 543 n n 
CBD HBD HEM sing 544 n n 
CBD HBDA HEM sing 545 n n 
CGD O1D HEM doub 546 n n 
CGD O2D HEM sing 547 n n 
O2A H2A HEM sing 548 n n 
O2D H2D HEM sing 549 n n 
FE NA HEM sing 550 n n 
FE NB HEM sing 551 n n 
FE NC HEM sing 552 n n 
FE ND HEM sing 553 n n 
#
_atom_sites.entry_id                     5XTE 
_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
W 12 CDL A 1 101 101 CDL CDL . 
X 13 FES C 1 301 301 FES FES . 
Y 12 CDL G 1 101 101 CDL CDL . 
Z 14 PEE H 1 401 302 PEE PEE . 
AA 15 HEC H 1 402 401 HEC HEC . 
BA 12 CDL H 1 403 402 CDL CDL . 
CA 16 HEM J 1 401 401 HEM HEM . 
DA 16 HEM J 1 402 402 HEM HEM . 
EA 14 PEE J 1 403 403 PEE PEE . 
FA 12 CDL J 1 404 404 CDL CDL . 
GA 12 CDL J 1 405 102 CDL CDL . 
HA 17 PLX L 1 501 501 PLX PLX . 
IA 12 CDL L 1 502 502 CDL CDL . 
JA 14 PEE L 1 503 503 PEE PEE . 
KA 12 CDL N 1 101 101 CDL CDL . 
LA 13 FES P 1 301 301 FES FES . 
MA 17 PLX Q 1 101 101 PLX PLX . 
NA 17 PLX T 1 101 101 PLX PLX . 
OA 14 PEE U 1 401 302 PEE PEE . 
PA 15 HEC U 1 402 401 HEC HEC . 
QA 12 CDL U 1 403 402 CDL CDL . 
RA 16 HEM V 1 401 401 HEM HEM . 
SA 16 HEM V 1 402 402 HEM HEM . 
TA 14 PEE V 1 403 403 PEE PEE . 
UA 12 CDL Y 1 501 501 CDL CDL . 
VA 14 PEE Y 1 502 502 PEE PEE . 
#
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 . . . DA 16 231.996 277.715 252.368 1 7.22 ? CHA HEM 402 J 1 
HETATM 2 C CHB HEM . . . DA 16 232.513 281.061 248.908 1 2.16 ? CHB HEM 402 J 1 
HETATM 3 C CHC HEM . . . DA 16 230.033 278.248 245.835 1 5.68 ? CHC HEM 402 J 1 
HETATM 4 C CHD HEM . . . DA 16 228.813 275.361 249.499 1 5.79 ? CHD HEM 402 J 1 
HETATM 5 C C1A HEM . . . DA 16 232.472 278.797 251.663 1 6.65 ? C1A HEM 402 J 1 
HETATM 6 C C2A HEM . . . DA 16 233.554 279.688 252.049 1 6.33 ? C2A HEM 402 J 1 
HETATM 7 C C3A HEM . . . DA 16 233.687 280.604 251.092 1 5.74 ? C3A HEM 402 J 1 
HETATM 8 C C4A HEM . . . DA 16 232.702 280.342 250.065 1 2.16 ? C4A HEM 402 J 1 
HETATM 9 C CMA HEM . . . DA 16 234.722 281.747 251.092 1 4.26 ? CMA HEM 402 J 1 
HETATM 10 C CAA HEM . . . DA 16 234.428 279.626 253.324 1 5.21 ? CAA HEM 402 J 1 
HETATM 11 C CBA HEM . . . DA 16 235.1 278.268 253.484 1 9.28 ? CBA HEM 402 J 1 
HETATM 12 C CGA HEM . . . DA 16 236.025 278.026 252.324 1 7.04 ? CGA HEM 402 J 1 
HETATM 13 O O1A HEM . . . DA 16 236.539 279.018 251.748 1 12.08 ? O1A HEM 402 J 1 
HETATM 14 O O2A HEM . . . DA 16 236.257 276.838 251.985 1 2.22 ? O2A HEM 402 J 1 
HETATM 15 C C1B HEM . . . DA 16 231.86 280.608 247.782 1 4.75 ? C1B HEM 402 J 1 
HETATM 16 C C2B HEM . . . DA 16 231.696 281.336 246.542 1 2.16 ? C2B HEM 402 J 1 
HETATM 17 C C3B HEM . . . DA 16 231.013 280.554 245.688 1 5.88 ? C3B HEM 402 J 1 
HETATM 18 C C4B HEM . . . DA 16 230.722 279.313 246.37 1 5.51 ? C4B HEM 402 J 1 
HETATM 19 C CMB HEM . . . DA 16 232.249 282.76 246.315 1 2.16 ? CMB HEM 402 J 1 
HETATM 20 C CAB HEM . . . DA 16 230.555 280.824 244.231 1 6.07 ? CAB HEM 402 J 1 
HETATM 21 C CBB HEM . . . DA 16 230.679 281.991 243.593 1 8.66 ? CBB HEM 402 J 1 
HETATM 22 C C1C HEM . . . DA 16 229.526 277.188 246.548 1 6.15 ? C1C HEM 402 J 1 
HETATM 23 C C2C HEM . . . DA 16 228.843 276.036 246.001 1 2.16 ? C2C HEM 402 J 1 
HETATM 24 C C3C HEM . . . DA 16 228.504 275.231 247.023 1 2.16 ? C3C HEM 402 J 1 
HETATM 25 C C4C HEM . . . DA 16 228.967 275.866 248.234 1 6.01 ? C4C HEM 402 J 1 
HETATM 26 C CMC HEM . . . DA 16 228.591 275.839 244.491 1 7.42 ? CMC HEM 402 J 1 
HETATM 27 C CAC HEM . . . DA 16 227.762 273.872 247.039 1 4.81 ? CAC HEM 402 J 1 
HETATM 28 C CBC HEM . . . DA 16 227.325 273.226 245.953 1 2.8 ? CBC HEM 402 J 1 
HETATM 29 C C1D HEM . . . DA 16 229.587 275.677 250.587 1 5.93 ? C1D HEM 402 J 1 
HETATM 30 C C2D HEM . . . DA 16 229.617 274.92 251.812 1 2.16 ? C2D HEM 402 J 1 
HETATM 31 C C3D HEM . . . DA 16 230.615 275.644 252.717 1 6.28 ? C3D HEM 402 J 1 
HETATM 32 C C4D HEM . . . DA 16 231.08 276.777 251.945 1 6.05 ? C4D HEM 402 J 1 
HETATM 33 C CMD HEM . . . DA 16 228.814 273.645 252.132 1 6.78 ? CMD HEM 402 J 1 
HETATM 34 C CAD HEM . . . DA 16 231.001 275.233 254.154 1 2.16 ? CAD HEM 402 J 1 
HETATM 35 C CBD HEM . . . DA 16 232.492 274.937 254.253 1 2.16 ? CBD HEM 402 J 1 
HETATM 36 C CGD HEM . . . DA 16 232.895 274.837 255.699 1 4.71 ? CGD HEM 402 J 1 
HETATM 37 O O1D HEM . . . DA 16 232.003 274.959 256.575 1 2.16 ? O1D HEM 402 J 1 
HETATM 38 O O2D HEM . . . DA 16 234.104 274.64 255.972 1 2.52 ? O2D HEM 402 J 1 
HETATM 39 N NA HEM . . . DA 16 231.977 279.233 250.447 1 4.53 ? NA HEM 402 J 1 
HETATM 40 N NB HEM . . . DA 16 231.253 279.378 247.642 1 6.68 ? NB HEM 402 J 1 
HETATM 41 N NC HEM . . . DA 16 229.587 277.053 247.917 1 2.16 ? NC HEM 402 J 1 
HETATM 42 N ND HEM . . . DA 16 230.458 276.758 250.701 1 2.16 ? ND HEM 402 J 1 
HETATM 43 FE FE HEM . . . DA 16 230.898 278.061 249.152 1 2.58 ? FE HEM 402 J 1 
#
_model_server_stats.io_time_ms              24 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    296 
_model_server_stats.query_time_ms           289 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           43 
#