data_5M7K
#
_model_server_result.job_id            Q3KdfBHCV2MmKXLCD3lAvQ 
_model_server_result.datetime_utc      '2024-11-08 13:27:13' 
_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          5m7k 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":404}' 
#
_entry.id    5M7K 
#
_exptl.entry_id    5M7K 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              618.503 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'HEME C' 
_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            5M7K 
_cell.length_a            57.9 
_cell.length_b            84.8 
_cell.length_c            384.3 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5M7K 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_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
? 5 E N N 
? 5 F N N 
? 5 G N N 
? 5 H 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
covale ? covale1 D C FME 1 D FME 1 1_555 D N TYR 2 D TYR 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
metalc ? metalc1 A NE2 HIS 111 A HIS 91 1_555 E FE HEC . A HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? 
metalc ? metalc2 A NE2 HIS 144 A HIS 124 1_555 H FE HEC . A HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? 
metalc ? metalc3 A NE2 HIS 156 A HIS 136 1_555 F FE HEC . A HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.538 ? 
metalc ? metalc4 A NE2 HIS 268 A HIS 248 1_555 G FE HEC . A HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? 
metalc ? metalc5 A NE2 HIS 329 A HIS 309 1_555 H FE HEC . A HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? 
metalc ? metalc6 B NE2 HIS 191 B HIS 190 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? 
metalc ? metalc7 B NE2 HIS 231 B HIS 230 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? 
metalc ? metalc8 C NE2 HIS 218 C HIS 217 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? 
metalc ? metalc9 C OE1 GLU 233 C GLU 232 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? 
metalc ? metalc10 C OE2 GLU 233 C GLU 232 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? 
metalc ? metalc11 C NE2 HIS 265 C HIS 264 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? 
#
_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 561 n n 
FE NB HEC sing 562 n n 
FE NC HEC sing 563 n n 
FE ND HEC sing 564 n n 
CHA C1A HEC doub 565 n n 
CHA C4D HEC sing 566 n n 
CHA HHA HEC sing 567 n n 
CHB C4A HEC doub 568 n n 
CHB C1B HEC sing 569 n n 
CHB HHB HEC sing 570 n n 
CHC C4B HEC doub 571 n n 
CHC C1C HEC sing 572 n n 
CHC HHC HEC sing 573 n n 
CHD C4C HEC doub 574 n n 
CHD C1D HEC sing 575 n n 
CHD HHD HEC sing 576 n n 
NA C1A HEC sing 577 n y 
NA C4A HEC sing 578 n y 
C1A C2A HEC sing 579 n y 
C2A C3A HEC doub 580 n y 
C2A CAA HEC sing 581 n n 
C3A C4A HEC sing 582 n y 
C3A CMA HEC sing 583 n n 
CMA HMA1 HEC sing 584 n n 
CMA HMA2 HEC sing 585 n n 
CMA HMA3 HEC sing 586 n n 
CAA CBA HEC sing 587 n n 
CAA HAA1 HEC sing 588 n n 
CAA HAA2 HEC sing 589 n n 
CBA CGA HEC sing 590 n n 
CBA HBA1 HEC sing 591 n n 
CBA HBA2 HEC sing 592 n n 
CGA O1A HEC doub 593 n n 
CGA O2A HEC sing 594 n n 
O2A H2A HEC sing 595 n n 
NB C1B HEC sing 596 n y 
NB C4B HEC sing 597 n y 
C1B C2B HEC doub 598 n y 
C2B C3B HEC sing 599 n y 
C2B CMB HEC sing 600 n n 
C3B C4B HEC sing 601 n y 
C3B CAB HEC doub 602 e n 
CMB HMB1 HEC sing 603 n n 
CMB HMB2 HEC sing 604 n n 
CMB HMB3 HEC sing 605 n n 
CAB CBB HEC sing 606 n n 
CAB HAB HEC sing 607 n n 
CBB HBB1 HEC sing 608 n n 
CBB HBB2 HEC sing 609 n n 
CBB HBB3 HEC sing 610 n n 
NC C1C HEC sing 611 n y 
NC C4C HEC sing 612 n y 
C1C C2C HEC doub 613 n y 
C2C C3C HEC sing 614 n y 
C2C CMC HEC sing 615 n n 
C3C C4C HEC sing 616 n y 
C3C CAC HEC doub 617 e n 
CMC HMC1 HEC sing 618 n n 
CMC HMC2 HEC sing 619 n n 
CMC HMC3 HEC sing 620 n n 
CAC CBC HEC sing 621 n n 
CAC HAC HEC sing 622 n n 
CBC HBC1 HEC sing 623 n n 
CBC HBC2 HEC sing 624 n n 
CBC HBC3 HEC sing 625 n n 
ND C1D HEC sing 626 n y 
ND C4D HEC sing 627 n y 
C1D C2D HEC doub 628 n y 
C2D C3D HEC sing 629 n y 
C2D CMD HEC sing 630 n n 
C3D C4D HEC doub 631 n y 
C3D CAD HEC sing 632 n n 
CMD HMD1 HEC sing 633 n n 
CMD HMD2 HEC sing 634 n n 
CMD HMD3 HEC sing 635 n n 
CAD CBD HEC sing 636 n n 
CAD HAD1 HEC sing 637 n n 
CAD HAD2 HEC sing 638 n n 
CBD CGD HEC sing 639 n n 
CBD HBD1 HEC sing 640 n n 
CBD HBD2 HEC sing 641 n n 
CGD O1D HEC doub 642 n n 
CGD O2D HEC sing 643 n n 
O2D H2D HEC sing 644 n n 
#
_atom_sites.entry_id                     5M7K 
_atom_sites.fract_transf_matrix[1][1]    0.017271 
_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]    0.011792 
_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]    0.002602 
_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
E 5 HEC A 1 401 1333 HEC HEM . 
F 5 HEC A 1 402 1334 HEC HEM . 
G 5 HEC A 1 403 1335 HEC HEM . 
H 5 HEC A 1 404 1336 HEC HEM . 
I 6 DGA A 1 405 1278 DGA DGA . 
J 7 BCL B 1 301 1274 BCL BCL . 
K 7 BCL B 1 302 1275 BCL BCL . 
L 7 BCL B 1 303 1276 BCL BCL . 
M 8 BPB B 1 304 1277 BPB BPB . 
N 9 MPG B 1 305 1279 MPG MPG . 
O 9 MPG B 1 306 1280 MPG MPG . 
P 7 BCL C 1 401 1324 BCL BCL . 
Q 8 BPB C 1 402 1325 BPB BPB . 
R 10 FE2 C 1 403 1326 FE2 FE2 . 
S 11 MQ7 C 1 404 1327 MQ7 MQ7 . 
T 12 NS5 C 1 405 1328 NS5 NS5 . 
U 13 OTP C 1 406 1329 OTP OTP . 
V 9 MPG C 1 407 1330 MPG MPG . 
W 14 PO4 C 1 408 1331 PO4 PO4 . 
X 14 PO4 C 1 409 1332 PO4 PO4 . 
#
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 . . . H 5 -5.908 -22.992 87.989 1 43.15 ? FE HEC 404 A 1 
HETATM 2 C CHA HEC . . . H 5 -7.544 -20.035 88.323 1 44.12 ? CHA HEC 404 A 1 
HETATM 3 C CHB HEC . . . H 5 -4.513 -21.919 85.037 1 40.01 ? CHB HEC 404 A 1 
HETATM 4 C CHC HEC . . . H 5 -4.402 -26.036 87.579 1 44.73 ? CHC HEC 404 A 1 
HETATM 5 C CHD HEC . . . H 5 -7.19 -24.076 91.001 1 46.09 ? CHD HEC 404 A 1 
HETATM 6 N NA HEC . . . H 5 -6.024 -21.294 86.864 1 42.64 ? NA HEC 404 A 1 
HETATM 7 C C1A HEC . . . H 5 -6.729 -20.159 87.215 1 43.26 ? C1A HEC 404 A 1 
HETATM 8 C C2A HEC . . . H 5 -6.459 -19.143 86.21 1 41.08 ? C2A HEC 404 A 1 
HETATM 9 C C3A HEC . . . H 5 -5.622 -19.669 85.307 1 40.09 ? C3A HEC 404 A 1 
HETATM 10 C C4A HEC . . . H 5 -5.332 -21.031 85.699 1 40.09 ? C4A HEC 404 A 1 
HETATM 11 C CMA HEC . . . H 5 -5.052 -18.967 84.056 1 38.58 ? CMA HEC 404 A 1 
HETATM 12 C CAA HEC . . . H 5 -7.036 -17.71 86.19 1 37.88 ? CAA HEC 404 A 1 
HETATM 13 C CBA HEC . . . H 5 -8.201 -17.662 85.206 1 36.19 ? CBA HEC 404 A 1 
HETATM 14 C CGA HEC . . . H 5 -8.893 -16.329 85.298 1 37.49 ? CGA HEC 404 A 1 
HETATM 15 O O1A HEC . . . H 5 -8.402 -15.466 86.067 1 43.03 ? O1A HEC 404 A 1 
HETATM 16 O O2A HEC . . . H 5 -9.928 -16.127 84.61 1 36 ? O2A HEC 404 A 1 
HETATM 17 N NB HEC . . . H 5 -4.799 -23.889 86.468 1 40.7 ? NB HEC 404 A 1 
HETATM 18 C C1B HEC . . . H 5 -4.107 -23.133 85.544 1 39.19 ? C1B HEC 404 A 1 
HETATM 19 C C2B HEC . . . H 5 -2.886 -23.833 85.207 1 42.4 ? C2B HEC 404 A 1 
HETATM 20 C C3B HEC . . . H 5 -2.857 -24.981 85.906 1 41.41 ? C3B HEC 404 A 1 
HETATM 21 C C4B HEC . . . H 5 -4.059 -25.03 86.708 1 42.82 ? C4B HEC 404 A 1 
HETATM 22 C CMB HEC . . . H 5 -1.853 -23.294 84.195 1 46.67 ? CMB HEC 404 A 1 
HETATM 23 C CAB HEC . . . H 5 -1.784 -26.097 85.957 1 42.17 ? CAB HEC 404 A 1 
HETATM 24 C CBB HEC . . . H 5 -0.613 -26.079 85.308 1 44.92 ? CBB HEC 404 A 1 
HETATM 25 N NC HEC . . . H 5 -5.874 -24.76 89.056 1 45.64 ? NC HEC 404 A 1 
HETATM 26 C C1C HEC . . . H 5 -5.065 -25.838 88.765 1 45.21 ? C1C HEC 404 A 1 
HETATM 27 C C2C HEC . . . H 5 -5.037 -26.726 89.907 1 46.76 ? C2C HEC 404 A 1 
HETATM 28 C C3C HEC . . . H 5 -5.818 -26.189 90.862 1 50.38 ? C3C HEC 404 A 1 
HETATM 29 C C4C HEC . . . H 5 -6.35 -24.941 90.338 1 47.87 ? C4C HEC 404 A 1 
HETATM 30 C CMC HEC . . . H 5 -4.228 -28.041 89.948 1 45.55 ? CMC HEC 404 A 1 
HETATM 31 C CAC HEC . . . H 5 -6.123 -26.714 92.292 1 49.18 ? CAC HEC 404 A 1 
HETATM 32 C CBC HEC . . . H 5 -5.565 -27.798 92.854 1 46.03 ? CBC HEC 404 A 1 
HETATM 33 N ND HEC . . . H 5 -7.102 -22.189 89.425 1 41.97 ? ND HEC 404 A 1 
HETATM 34 C C1D HEC . . . H 5 -7.582 -22.834 90.551 1 45.51 ? C1D HEC 404 A 1 
HETATM 35 C C2D HEC . . . H 5 -8.573 -21.978 91.172 1 45.66 ? C2D HEC 404 A 1 
HETATM 36 C C3D HEC . . . H 5 -8.672 -20.864 90.44 1 45.99 ? C3D HEC 404 A 1 
HETATM 37 C C4D HEC . . . H 5 -7.75 -20.973 89.32 1 44.05 ? C4D HEC 404 A 1 
HETATM 38 C CMD HEC . . . H 5 -9.369 -22.295 92.459 1 42.29 ? CMD HEC 404 A 1 
HETATM 39 C CAD HEC . . . H 5 -9.613 -19.676 90.734 1 45.4 ? CAD HEC 404 A 1 
HETATM 40 C CBD HEC . . . H 5 -8.757 -18.447 91.013 1 48.1 ? CBD HEC 404 A 1 
HETATM 41 C CGD HEC . . . H 5 -9.582 -17.206 90.826 1 51.64 ? CGD HEC 404 A 1 
HETATM 42 O O1D HEC . . . H 5 -10.816 -17.263 91.07 1 50.08 ? O1D HEC 404 A 1 
HETATM 43 O O2D HEC . . . H 5 -8.997 -16.16 90.44 1 53.55 ? O2D HEC 404 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           237 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           43 
#