data_6GD8
#
_model_server_result.job_id            8sUPUix0MwOAJND-sImtQQ 
_model_server_result.datetime_utc      '2024-11-18 03:34:25' 
_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          6gd8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":201}' 
#
_entry.id    6GD8 
#
_exptl.entry_id    6GD8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              618.503 
_entity.id                          2 
_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         120 
_cell.entry_id            6GD8 
_cell.length_a            66.68 
_cell.length_b            66.68 
_cell.length_c            142.881 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6GD8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        144 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,G,M 1 1 
B,H,I,N 2 1 
C,J,K,O 3 1 
D,L,P 4 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
? 2 E N N 
? 2 H N N 
? 2 J N N 
? 2 L 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 A SG CYS 19 A CYS 14 1_555 E CAB HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.724 ? 
covale ? covale2 A SG CYS 22 A CYS 17 1_555 E CAC HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.739 ? 
covale ? covale3 B SG CYS 19 B CYS 14 1_555 H CAB HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.713 ? 
covale ? covale4 B SG CYS 22 B CYS 17 1_555 H CAC HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.732 ? 
covale ? covale5 C SG CYS 19 C CYS 14 1_555 J CAB HEC . C HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.713 ? 
covale ? covale6 C SG CYS 19 C CYS 14 1_555 J CBB HEC . C HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? 
covale ? covale7 C SG CYS 22 C CYS 17 1_555 J CAC HEC . C HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.735 ? 
covale ? covale8 D SG CYS 19 D CYS 14 1_555 L CAB HEC . D HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.709 ? 
covale ? covale9 D SG CYS 22 D CYS 17 1_555 L CAC HEC . D HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.739 ? 
metalc ? metalc1 A NE2 HIS 23 A HIS 18 1_555 E FE HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? 
metalc ? metalc2 A SD MET 85 A MET 80 1_555 E FE HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.541 ? 
metalc ? metalc3 B NE2 HIS 23 B HIS 18 1_555 H FE HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? 
metalc ? metalc4 B SD MET 85 B MET 80 1_555 H FE HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? 
metalc ? metalc5 C NE2 HIS 23 C HIS 18 1_555 J FE HEC . C HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? 
metalc ? metalc6 C SD MET 85 C MET 80 1_555 J FE HEC . C HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.603 ? 
metalc ? metalc7 D NE2 HIS 23 D HIS 18 1_555 L FE HEC . D HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? 
metalc ? metalc8 D SD MET 85 D MET 80 1_555 L FE HEC . D HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? 
#
_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 281 n n 
FE NB HEC sing 282 n n 
FE NC HEC sing 283 n n 
FE ND HEC sing 284 n n 
CHA C1A HEC doub 285 n n 
CHA C4D HEC sing 286 n n 
CHA HHA HEC sing 287 n n 
CHB C4A HEC doub 288 n n 
CHB C1B HEC sing 289 n n 
CHB HHB HEC sing 290 n n 
CHC C4B HEC doub 291 n n 
CHC C1C HEC sing 292 n n 
CHC HHC HEC sing 293 n n 
CHD C4C HEC doub 294 n n 
CHD C1D HEC sing 295 n n 
CHD HHD HEC sing 296 n n 
NA C1A HEC sing 297 n y 
NA C4A HEC sing 298 n y 
C1A C2A HEC sing 299 n y 
C2A C3A HEC doub 300 n y 
C2A CAA HEC sing 301 n n 
C3A C4A HEC sing 302 n y 
C3A CMA HEC sing 303 n n 
CMA HMA1 HEC sing 304 n n 
CMA HMA2 HEC sing 305 n n 
CMA HMA3 HEC sing 306 n n 
CAA CBA HEC sing 307 n n 
CAA HAA1 HEC sing 308 n n 
CAA HAA2 HEC sing 309 n n 
CBA CGA HEC sing 310 n n 
CBA HBA1 HEC sing 311 n n 
CBA HBA2 HEC sing 312 n n 
CGA O1A HEC doub 313 n n 
CGA O2A HEC sing 314 n n 
O2A H2A HEC sing 315 n n 
NB C1B HEC sing 316 n y 
NB C4B HEC sing 317 n y 
C1B C2B HEC doub 318 n y 
C2B C3B HEC sing 319 n y 
C2B CMB HEC sing 320 n n 
C3B C4B HEC sing 321 n y 
C3B CAB HEC doub 322 e n 
CMB HMB1 HEC sing 323 n n 
CMB HMB2 HEC sing 324 n n 
CMB HMB3 HEC sing 325 n n 
CAB CBB HEC sing 326 n n 
CAB HAB HEC sing 327 n n 
CBB HBB1 HEC sing 328 n n 
CBB HBB2 HEC sing 329 n n 
CBB HBB3 HEC sing 330 n n 
NC C1C HEC sing 331 n y 
NC C4C HEC sing 332 n y 
C1C C2C HEC doub 333 n y 
C2C C3C HEC sing 334 n y 
C2C CMC HEC sing 335 n n 
C3C C4C HEC sing 336 n y 
C3C CAC HEC doub 337 e n 
CMC HMC1 HEC sing 338 n n 
CMC HMC2 HEC sing 339 n n 
CMC HMC3 HEC sing 340 n n 
CAC CBC HEC sing 341 n n 
CAC HAC HEC sing 342 n n 
CBC HBC1 HEC sing 343 n n 
CBC HBC2 HEC sing 344 n n 
CBC HBC3 HEC sing 345 n n 
ND C1D HEC sing 346 n y 
ND C4D HEC sing 347 n y 
C1D C2D HEC doub 348 n y 
C2D C3D HEC sing 349 n y 
C2D CMD HEC sing 350 n n 
C3D C4D HEC doub 351 n y 
C3D CAD HEC sing 352 n n 
CMD HMD1 HEC sing 353 n n 
CMD HMD2 HEC sing 354 n n 
CMD HMD3 HEC sing 355 n n 
CAD CBD HEC sing 356 n n 
CAD HAD1 HEC sing 357 n n 
CAD HAD2 HEC sing 358 n n 
CBD CGD HEC sing 359 n n 
CBD HBD1 HEC sing 360 n n 
CBD HBD2 HEC sing 361 n n 
CGD O1D HEC doub 362 n n 
CGD O2D HEC sing 363 n n 
O2D H2D HEC sing 364 n n 
#
_atom_sites.entry_id                     6GD8 
_atom_sites.fract_transf_matrix[1][1]    0.014997 
_atom_sites.fract_transf_matrix[1][2]    0.008659 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017317 
_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]    0.006999 
_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 2 HEC A 1 201 201 HEC HEM . 
F 3 EVB A 1 202 2 EVB SC8 . 
G 3 EVB A 1 203 3 EVB SC8 . 
H 2 HEC B 1 201 201 HEC HEM . 
I 3 EVB B 1 202 1 EVB SC8 . 
J 2 HEC C 1 201 201 HEC HEM . 
K 3 EVB C 1 202 4 EVB SC8 . 
L 2 HEC D 1 201 201 HEC HEM . 
M 4 HOH A 1 301 37 HOH HOH . 
M 4 HOH A 2 302 15 HOH HOH . 
M 4 HOH A 3 303 19 HOH HOH . 
M 4 HOH A 4 304 18 HOH HOH . 
M 4 HOH A 5 305 17 HOH HOH . 
M 4 HOH A 6 306 32 HOH HOH . 
M 4 HOH A 7 307 24 HOH HOH . 
M 4 HOH A 8 308 16 HOH HOH . 
M 4 HOH A 9 309 34 HOH HOH . 
M 4 HOH A 10 310 29 HOH HOH . 
M 4 HOH A 11 311 41 HOH HOH . 
M 4 HOH A 12 312 33 HOH HOH . 
M 4 HOH A 13 313 30 HOH HOH . 
M 4 HOH A 14 314 28 HOH HOH . 
N 4 HOH B 1 301 2 HOH HOH . 
N 4 HOH B 2 302 1 HOH HOH . 
N 4 HOH B 3 303 7 HOH HOH . 
N 4 HOH B 4 304 8 HOH HOH . 
N 4 HOH B 5 305 6 HOH HOH . 
N 4 HOH B 6 306 4 HOH HOH . 
N 4 HOH B 7 307 5 HOH HOH . 
N 4 HOH B 8 308 27 HOH HOH . 
N 4 HOH B 9 309 36 HOH HOH . 
N 4 HOH B 10 310 11 HOH HOH . 
N 4 HOH B 11 311 3 HOH HOH . 
O 4 HOH C 1 301 23 HOH HOH . 
O 4 HOH C 2 302 25 HOH HOH . 
O 4 HOH C 3 303 38 HOH HOH . 
O 4 HOH C 4 304 40 HOH HOH . 
O 4 HOH C 5 305 22 HOH HOH . 
O 4 HOH C 6 306 21 HOH HOH . 
O 4 HOH C 7 307 26 HOH HOH . 
O 4 HOH C 8 308 20 HOH HOH . 
P 4 HOH D 1 301 35 HOH HOH . 
P 4 HOH D 2 302 39 HOH HOH . 
P 4 HOH D 3 303 14 HOH HOH . 
P 4 HOH D 4 304 12 HOH HOH . 
P 4 HOH D 5 305 31 HOH HOH . 
P 4 HOH D 6 306 9 HOH HOH . 
P 4 HOH D 7 307 13 HOH HOH . 
P 4 HOH D 8 308 10 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 FE FE HEC . . . H 2 52.162 41.028 -34.583 1 35.93 ? FE HEC 201 B 1 
HETATM 2 C CHA HEC . . . H 2 53.736 40.662 -31.618 1 37.09 ? CHA HEC 201 B 1 
HETATM 3 C CHB HEC . . . H 2 49.544 42.625 -33.035 1 36.67 ? CHB HEC 201 B 1 
HETATM 4 C CHC HEC . . . H 2 50.956 42 -37.678 1 37.77 ? CHC HEC 201 B 1 
HETATM 5 C CHD HEC . . . H 2 54.353 38.932 -36.11 1 38.23 ? CHD HEC 201 B 1 
HETATM 6 N NA HEC . . . H 2 51.718 41.511 -32.695 1 37.12 ? NA HEC 201 B 1 
HETATM 7 C C1A HEC . . . H 2 52.538 41.325 -31.612 1 36.72 ? C1A HEC 201 B 1 
HETATM 8 C C2A HEC . . . H 2 51.909 41.849 -30.455 1 35.86 ? C2A HEC 201 B 1 
HETATM 9 C C3A HEC . . . H 2 50.722 42.389 -30.847 1 36.96 ? C3A HEC 201 B 1 
HETATM 10 C C4A HEC . . . H 2 50.604 42.189 -32.249 1 37.27 ? C4A HEC 201 B 1 
HETATM 11 C CMA HEC . . . H 2 49.714 43.072 -29.942 1 36.18 ? CMA HEC 201 B 1 
HETATM 12 C CAA HEC . . . H 2 52.442 41.82 -29.038 1 34.64 ? CAA HEC 201 B 1 
HETATM 13 C CBA HEC . . . H 2 51.994 40.509 -28.372 1 33.77 ? CBA HEC 201 B 1 
HETATM 14 C CGA HEC . . . H 2 52.166 40.503 -26.869 1 32.43 ? CGA HEC 201 B 1 
HETATM 15 O O1A HEC . . . H 2 51.795 39.511 -26.196 1 32.19 ? O1A HEC 201 B 1 
HETATM 16 O O2A HEC . . . H 2 52.68 41.47 -26.279 1 30.84 ? O2A HEC 201 B 1 
HETATM 17 N NB HEC . . . H 2 50.504 42.128 -35.242 1 37.23 ? NB HEC 201 B 1 
HETATM 18 C C1B HEC . . . H 2 49.571 42.658 -34.443 1 37.1 ? C1B HEC 201 B 1 
HETATM 19 C C2B HEC . . . H 2 48.602 43.35 -35.241 1 37 ? C2B HEC 201 B 1 
HETATM 20 C C3B HEC . . . H 2 48.967 43.196 -36.562 1 37.76 ? C3B HEC 201 B 1 
HETATM 21 C C4B HEC . . . H 2 50.238 42.405 -36.532 1 38.19 ? C4B HEC 201 B 1 
HETATM 22 C CMB HEC . . . H 2 47.382 44.082 -34.727 1 36.57 ? CMB HEC 201 B 1 
HETATM 23 C CAB HEC . . . H 2 48.339 43.749 -37.801 1 38.38 ? CAB HEC 201 B 1 
HETATM 24 C CBB HEC . . . H 2 47.417 44.724 -37.855 1 39.16 ? CBB HEC 201 B 1 
HETATM 25 N NC HEC . . . H 2 52.585 40.539 -36.573 1 38.12 ? NC HEC 201 B 1 
HETATM 26 C C1C HEC . . . H 2 52.011 41.075 -37.689 1 38.04 ? C1C HEC 201 B 1 
HETATM 27 C C2C HEC . . . H 2 52.572 40.44 -38.83 1 38.94 ? C2C HEC 201 B 1 
HETATM 28 C C3C HEC . . . H 2 53.55 39.537 -38.393 1 39.28 ? C3C HEC 201 B 1 
HETATM 29 C C4C HEC . . . H 2 53.541 39.635 -36.961 1 38.39 ? C4C HEC 201 B 1 
HETATM 30 C CMC HEC . . . H 2 52.187 40.738 -40.261 1 38.29 ? CMC HEC 201 B 1 
HETATM 31 C CAC HEC . . . H 2 54.445 38.612 -39.172 1 40.93 ? CAC HEC 201 B 1 
HETATM 32 C CBC HEC . . . H 2 54.509 38.447 -40.495 1 39.91 ? CBC HEC 201 B 1 
HETATM 33 N ND HEC . . . H 2 53.667 40.03 -34.002 1 37.46 ? ND HEC 201 B 1 
HETATM 34 C C1D HEC . . . H 2 54.44 39.214 -34.747 1 37.14 ? C1D HEC 201 B 1 
HETATM 35 C C2D HEC . . . H 2 55.524 38.638 -33.933 1 37.21 ? C2D HEC 201 B 1 
HETATM 36 C C3D HEC . . . H 2 55.357 39.117 -32.685 1 36.95 ? C3D HEC 201 B 1 
HETATM 37 C C4D HEC . . . H 2 54.191 40.01 -32.751 1 37.1 ? C4D HEC 201 B 1 
HETATM 38 C CMD HEC . . . H 2 56.607 37.69 -34.397 1 36.78 ? CMD HEC 201 B 1 
HETATM 39 C CAD HEC . . . H 2 56.226 38.84 -31.479 1 36.58 ? CAD HEC 201 B 1 
HETATM 40 C CBD HEC . . . H 2 57.189 40.031 -31.391 1 36.44 ? CBD HEC 201 B 1 
HETATM 41 C CGD HEC . . . H 2 58.305 39.873 -30.389 1 37.01 ? CGD HEC 201 B 1 
HETATM 42 O O1D HEC . . . H 2 58.552 38.778 -29.836 1 37.98 ? O1D HEC 201 B 1 
HETATM 43 O O2D HEC . . . H 2 59.007 40.874 -30.115 1 36.87 ? O2D HEC 201 B 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           245 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           43 
#