data_8YB4
#
_model_server_result.job_id            zKyz4W0vdlale0ManlXvTw 
_model_server_result.datetime_utc      '2024-12-21 17:10:03' 
_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          8yb4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1201}' 
#
_entry.id    8YB4 
#
_exptl.entry_id    8YB4 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              586.678 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '3-[5-[[(3~{R},4~{R})-3-ethyl-4-methyl-5-oxidanylidene-3,4-dihydropyrrol-2-yl]methyl]-2-[[5-[(4-ethyl-3-methyl-5-oxidanylidene-pyrrol-2-yl)methyl]-3-(3-hydroxy-3-oxopropyl)-4-methyl-1~{H}-pyrrol-2-yl]methyl]-4-methyl-1~{H}-pyrrol-3-yl]propanoic acid' 
_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         90 
_cell.entry_id            8YB4 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8YB4 
_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    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E 
_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
? 3 D N N 
? 3 E 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 362 B CYS 357 1_555 D CAC O6E . B O6E 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.765 ? 
covale ? covale2 B SG CYS 362 A CYS 357 1_555 E CAC O6E . A O6E 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.766 ? 
#
_chem_comp.formula           'C33 H38 N4 O6' 
_chem_comp.formula_weight    586.678 
_chem_comp.id                O6E 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '3-[5-[[(3~{R},4~{R})-3-ethyl-4-methyl-5-oxidanylidene-3,4-dihydropyrrol-2-yl]methyl]-2-[[5-[(4-ethyl-3-methyl-5-oxidanylidene-pyrrol-2-yl)methyl]-3-(3-hydroxy-3-oxopropyl)-4-methyl-1~{H}-pyrrol-2-yl]methyl]-4-methyl-1~{H}-pyrrol-3-yl]propanoic acid' 
_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
CAG CAB O6E doub 235 n n 
CAB CBI O6E sing 236 n n 
OAK CBM O6E doub 237 n n 
CBI CBM O6E sing 238 n n 
CBI CBC O6E doub 239 n n 
CBM NAJ O6E sing 240 n n 
CBC CAS O6E sing 241 n n 
CBC CAW O6E sing 242 n n 
NAJ CAW O6E sing 243 n n 
CAW CAP O6E doub 244 z n 
CAP CBL O6E sing 245 n n 
CAR CBH O6E sing 246 n n 
CBL CBH O6E sing 247 n n 
CBL NAE O6E doub 248 n n 
CBH CBB O6E doub 249 n n 
OBF CAL O6E doub 250 n n 
NAE CAV O6E sing 251 n n 
CBB CAA O6E sing 252 n n 
CBB CAV O6E sing 253 n n 
OBQ CAX O6E doub 254 n n 
CAL CAF O6E sing 255 n n 
CAL OAZ O6E sing 256 n n 
CAF CAA O6E sing 257 n n 
CAV CAO O6E doub 258 z n 
CAX NBP O6E sing 259 n n 
CAX CBD O6E sing 260 n n 
NBP CBN O6E sing 261 n n 
CAO CBO O6E sing 262 n n 
CBD CAT O6E sing 263 n n 
CBD CBJ O6E sing 264 n n 
NAN CBO O6E sing 265 n y 
NAN CAY O6E sing 266 n y 
CBO CBK O6E doub 267 n y 
CBN CBJ O6E sing 268 n n 
CBN CAQ O6E doub 269 z n 
CAY CAQ O6E sing 270 n n 
CAY CBE O6E doub 271 n y 
CBJ CAC O6E sing 272 n n 
CBK CBE O6E sing 273 n y 
CBK CAD O6E sing 274 n n 
CAC CAH O6E sing 275 n n 
CAI CAD O6E sing 276 n n 
CAI CAM O6E sing 277 n n 
CBE CAU O6E sing 278 n n 
CAM OBA O6E doub 279 n n 
CAM OBG O6E sing 280 n n 
CAH H1 O6E sing 281 n n 
CAH H2 O6E sing 282 n n 
CAH H3 O6E sing 283 n n 
CAC H4 O6E sing 284 n n 
CAC H5 O6E sing 285 n n 
CBJ H6 O6E sing 286 n n 
CBD H7 O6E sing 287 n n 
CAT H8 O6E sing 288 n n 
CAT H9 O6E sing 289 n n 
CAT H10 O6E sing 290 n n 
CAQ H11 O6E sing 291 n n 
NAN H13 O6E sing 292 n n 
CAU H14 O6E sing 293 n n 
CAU H15 O6E sing 294 n n 
CAU H16 O6E sing 295 n n 
CAD H17 O6E sing 296 n n 
CAD H18 O6E sing 297 n n 
CAI H19 O6E sing 298 n n 
CAI H20 O6E sing 299 n n 
OBG H21 O6E sing 300 n n 
CAO H22 O6E sing 301 n n 
CAA H25 O6E sing 302 n n 
CAA H26 O6E sing 303 n n 
CAF H27 O6E sing 304 n n 
CAF H28 O6E sing 305 n n 
OAZ H29 O6E sing 306 n n 
CAR H30 O6E sing 307 n n 
CAR H31 O6E sing 308 n n 
CAR H32 O6E sing 309 n n 
CAP H33 O6E sing 310 n n 
CAS H35 O6E sing 311 n n 
CAS H36 O6E sing 312 n n 
CAS H37 O6E sing 313 n n 
CAB H38 O6E sing 314 n n 
CAG H40 O6E sing 315 n n 
CAG H41 O6E sing 316 n n 
NBP H43 O6E sing 317 n n 
NAJ H12 O6E sing 318 n n 
#
_atom_sites.entry_id                     8YB4 
_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
D 3 O6E B 1 1201 701 O6E O6E . 
E 3 O6E A 1 1201 701 O6E O6E . 
#
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 CAH O6E . . . D 3 105.694 125.36 125.301 1 30.94 ? CAH O6E 1201 B 1 
HETATM 2 C CAC O6E . . . D 3 104.283 125.76 124.918 1 30.94 ? CAC O6E 1201 B 1 
HETATM 3 C CBJ O6E . . . D 3 104.012 125.699 123.403 1 30.94 ? CBJ O6E 1201 B 1 
HETATM 4 C CBD O6E . . . D 3 102.839 126.624 123.026 1 30.94 ? CBD O6E 1201 B 1 
HETATM 5 C CAT O6E . . . D 3 103.244 127.815 122.222 1 30.94 ? CAT O6E 1201 B 1 
HETATM 6 C CAX O6E . . . D 3 101.866 125.712 122.301 1 30.94 ? CAX O6E 1201 B 1 
HETATM 7 O OBQ O6E . . . D 3 100.775 126.036 121.859 1 30.94 ? OBQ O6E 1201 B 1 
HETATM 8 N NBP O6E . . . D 3 102.409 124.452 122.233 1 30.94 ? NBP O6E 1201 B 1 
HETATM 9 C CBN O6E . . . D 3 103.573 124.325 122.963 1 30.94 ? CBN O6E 1201 B 1 
HETATM 10 C CAQ O6E . . . D 3 104.215 123.147 123.229 1 30.94 ? CAQ O6E 1201 B 1 
HETATM 11 C CAY O6E . . . D 3 103.864 121.877 122.787 1 30.94 ? CAY O6E 1201 B 1 
HETATM 12 N NAN O6E . . . D 3 102.821 121.566 121.95 1 30.94 ? NAN O6E 1201 B 1 
HETATM 13 C CBE O6E . . . D 3 104.507 120.641 123.121 1 30.94 ? CBE O6E 1201 B 1 
HETATM 14 C CAU O6E . . . D 3 105.701 120.504 124.02 1 30.94 ? CAU O6E 1201 B 1 
HETATM 15 C CBK O6E . . . D 3 103.844 119.627 122.474 1 30.94 ? CBK O6E 1201 B 1 
HETATM 16 C CAD O6E . . . D 3 104.163 118.161 122.526 1 30.94 ? CAD O6E 1201 B 1 
HETATM 17 C CAI O6E . . . D 3 103.41 117.408 123.618 1 30.94 ? CAI O6E 1201 B 1 
HETATM 18 C CAM O6E . . . D 3 103.72 115.917 123.703 1 30.94 ? CAM O6E 1201 B 1 
HETATM 19 O OBG O6E . . . D 3 102.79 115.112 123.487 1 30.94 ? OBG O6E 1201 B 1 
HETATM 20 O OBA O6E . . . D 3 104.886 115.576 123.99 1 30.94 ? OBA O6E 1201 B 1 
HETATM 21 C CBO O6E . . . D 3 102.773 120.211 121.731 1 30.94 ? CBO O6E 1201 B 1 
HETATM 22 C CAO O6E . . . D 3 101.852 119.541 120.93 1 30.94 ? CAO O6E 1201 B 1 
HETATM 23 C CAV O6E . . . D 3 100.805 120.009 120.176 1 30.94 ? CAV O6E 1201 B 1 
HETATM 24 N NAE O6E . . . D 3 100.434 121.318 120.079 1 30.94 ? NAE O6E 1201 B 1 
HETATM 25 C CBB O6E . . . D 3 99.947 119.185 119.338 1 30.94 ? CBB O6E 1201 B 1 
HETATM 26 C CAA O6E . . . D 3 100.106 117.725 119.052 1 30.94 ? CAA O6E 1201 B 1 
HETATM 27 C CAF O6E . . . D 3 99.46 116.819 120.082 1 30.94 ? CAF O6E 1201 B 1 
HETATM 28 C CAL O6E . . . D 3 97.967 117.028 120.224 1 30.94 ? CAL O6E 1201 B 1 
HETATM 29 O OBF O6E . . . D 3 97.268 116.963 119.193 1 30.94 ? OBF O6E 1201 B 1 
HETATM 30 O OAZ O6E . . . D 3 97.51 117.244 121.366 1 30.94 ? OAZ O6E 1201 B 1 
HETATM 31 C CBH O6E . . . D 3 99.02 120.041 118.826 1 30.94 ? CBH O6E 1201 B 1 
HETATM 32 C CAR O6E . . . D 3 98.082 119.767 117.686 1 30.94 ? CAR O6E 1201 B 1 
HETATM 33 C CBL O6E . . . D 3 99.18 121.305 119.531 1 30.94 ? CBL O6E 1201 B 1 
HETATM 34 C CAP O6E . . . D 3 98.329 122.399 119.529 1 30.94 ? CAP O6E 1201 B 1 
HETATM 35 C CAW O6E . . . D 3 96.973 122.606 119.315 1 30.94 ? CAW O6E 1201 B 1 
HETATM 36 C CBC O6E . . . D 3 95.854 121.709 119.282 1 30.94 ? CBC O6E 1201 B 1 
HETATM 37 C CAS O6E . . . D 3 95.736 120.449 120.077 1 30.94 ? CAS O6E 1201 B 1 
HETATM 38 N NAJ O6E . . . D 3 96.46 123.862 118.988 1 30.94 ? NAJ O6E 1201 B 1 
HETATM 39 C CBM O6E . . . D 3 95.332 123.708 118.232 1 30.94 ? CBM O6E 1201 B 1 
HETATM 40 O OAK O6E . . . D 3 94.814 124.566 117.54 1 30.94 ? OAK O6E 1201 B 1 
HETATM 41 C CBI O6E . . . D 3 94.889 122.296 118.435 1 30.94 ? CBI O6E 1201 B 1 
HETATM 42 C CAB O6E . . . D 3 93.762 121.662 117.931 1 30.94 ? CAB O6E 1201 B 1 
HETATM 43 C CAG O6E . . . D 3 92.859 122.197 117.159 1 30.94 ? CAG O6E 1201 B 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           277 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           43 
#