data_8FC7
#
_model_server_result.job_id            Xm0XfYr6xex5yIbtuPOt_g 
_model_server_result.datetime_utc      '2024-11-22 00:25:07' 
_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          8fc7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"S","auth_seq_id":1001}' 
#
_entry.id    8FC7 
#
_exptl.entry_id    8FC7 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              460.528 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1-({(5S,7S)-3-[5-(2-hydroxypropan-2-yl)pyrazin-2-yl]-7-methyl-2-oxo-1-oxa-3-azaspiro[4.5]decan-7-yl}methyl)-1H-benzimidazole-6-carbonitrile 
_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            8FC7 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8FC7 
_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    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_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 
_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 I N N 
? 3 R N N 
? 3 S N N 
? 3 T 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
metalc ? metalc1 B OG1 THR 19 E THR 19 1_555 J MG MG . E MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? 
metalc ? metalc2 B O THR 37 E THR 37 1_555 J MG MG . E MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? 
metalc ? metalc3 J MG MG . E MG 301 1_555 K O1B GDP . E GDP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
metalc ? metalc4 C OG1 THR 19 F THR 19 1_555 L MG MG . F MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? 
metalc ? metalc5 C O THR 37 F THR 37 1_555 L MG MG . F MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? 
metalc ? metalc6 L MG MG . F MG 301 1_555 M O1B GDP . F GDP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
metalc ? metalc7 D OG1 THR 19 G THR 19 1_555 N MG MG . G MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? 
metalc ? metalc8 D O THR 37 G THR 37 1_555 N MG MG . G MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? 
metalc ? metalc9 N MG MG . G MG 301 1_555 O O1B GDP . G GDP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
metalc ? metalc10 E OG1 THR 19 H THR 19 1_555 P MG MG . H MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? 
metalc ? metalc11 E O THR 37 H THR 37 1_555 P MG MG . H MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? 
metalc ? metalc12 P MG MG . H MG 301 1_555 Q O1B GDP . H GDP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
#
_chem_comp.formula           'C25 H28 N6 O3' 
_chem_comp.formula_weight    460.528 
_chem_comp.id                XPW 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1-({(5S,7S)-3-[5-(2-hydroxypropan-2-yl)pyrazin-2-yl]-7-methyl-2-oxo-1-oxa-3-azaspiro[4.5]decan-7-yl}methyl)-1H-benzimidazole-6-carbonitrile 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GSK2798745 
#
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
C25 C24 XPW doub 419 n y 
C25 C26 XPW sing 420 n y 
C24 C23 XPW sing 421 n y 
N30 C29 XPW trip 422 n n 
C29 C26 XPW sing 423 n n 
C26 C27 XPW doub 424 n y 
C23 N22 XPW sing 425 n y 
C23 C28 XPW doub 426 n y 
N22 C21 XPW doub 427 n y 
C27 C28 XPW sing 428 n y 
C28 N20 XPW sing 429 n y 
C21 N20 XPW sing 430 n y 
N20 C19 XPW sing 431 n n 
C19 C17 XPW sing 432 n n 
C17 C16 XPW sing 433 n n 
C17 C18 XPW sing 434 n n 
C17 C31 XPW sing 435 n n 
C16 C15 XPW sing 436 n n 
C31 C13 XPW sing 437 n n 
C15 C14 XPW sing 438 n n 
C13 C14 XPW sing 439 n n 
C13 C12 XPW sing 440 n n 
C13 O32 XPW sing 441 n n 
C12 N11 XPW sing 442 n n 
O32 C33 XPW sing 443 n n 
N07 C06 XPW doub 444 n y 
N07 C08 XPW sing 445 n y 
N11 C33 XPW sing 446 n n 
N11 C08 XPW sing 447 n n 
C06 C05 XPW sing 448 n y 
C33 O34 XPW doub 449 n n 
C08 C09 XPW doub 450 n y 
O04 C02 XPW sing 451 n n 
C05 C02 XPW sing 452 n n 
C05 N10 XPW doub 453 n y 
C09 N10 XPW sing 454 n y 
C02 C01 XPW sing 455 n n 
C02 C03 XPW sing 456 n n 
C12 H1 XPW sing 457 n n 
C12 H2 XPW sing 458 n n 
C14 H3 XPW sing 459 n n 
C14 H4 XPW sing 460 n n 
C15 H5 XPW sing 461 n n 
C15 H6 XPW sing 462 n n 
C16 H7 XPW sing 463 n n 
C16 H8 XPW sing 464 n n 
C18 H9 XPW sing 465 n n 
C18 H10 XPW sing 466 n n 
C18 H11 XPW sing 467 n n 
C19 H12 XPW sing 468 n n 
C19 H13 XPW sing 469 n n 
C01 H14 XPW sing 470 n n 
C01 H15 XPW sing 471 n n 
C01 H16 XPW sing 472 n n 
C03 H17 XPW sing 473 n n 
C03 H18 XPW sing 474 n n 
C03 H19 XPW sing 475 n n 
O04 H20 XPW sing 476 n n 
C06 H21 XPW sing 477 n n 
C09 H22 XPW sing 478 n n 
C21 H23 XPW sing 479 n n 
C24 H24 XPW sing 480 n n 
C25 H25 XPW sing 481 n n 
C27 H26 XPW sing 482 n n 
C31 H27 XPW sing 483 n n 
C31 H28 XPW sing 484 n n 
#
_atom_sites.entry_id                     8FC7 
_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
I 3 XPW A 1 1001 1001 XPW GSK . 
J 4 MG E 1 301 301 MG MG . 
K 5 GDP E 1 302 302 GDP GDP . 
L 4 MG F 1 301 301 MG MG . 
M 5 GDP F 1 302 302 GDP GDP . 
N 4 MG G 1 301 301 MG MG . 
O 5 GDP G 1 302 302 GDP GDP . 
P 4 MG H 1 301 301 MG MG . 
Q 5 GDP H 1 302 302 GDP GDP . 
R 3 XPW B 1 1001 1001 XPW GSK . 
S 3 XPW C 1 1001 1001 XPW GSK . 
T 3 XPW D 1 1001 1001 XPW GSK . 
#
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 C12 XPW . . . S 3 162.755 163.654 156.937 1 67.16 ? C12 XPW 1001 C 1 
HETATM 2 C C13 XPW . . . S 3 161.738 164.496 156.293 1 67.16 ? C13 XPW 1001 C 1 
HETATM 3 C C14 XPW . . . S 3 160.364 163.835 156.443 1 67.16 ? C14 XPW 1001 C 1 
HETATM 4 C C15 XPW . . . S 3 159.278 164.386 155.512 1 67.16 ? C15 XPW 1001 C 1 
HETATM 5 C C16 XPW . . . S 3 159.739 164.621 154.074 1 67.16 ? C16 XPW 1001 C 1 
HETATM 6 C C17 XPW . . . S 3 161.066 165.37 153.99 1 67.16 ? C17 XPW 1001 C 1 
HETATM 7 C C18 XPW . . . S 3 160.839 166.798 154.482 1 67.16 ? C18 XPW 1001 C 1 
HETATM 8 C C19 XPW . . . S 3 161.546 165.392 152.523 1 67.16 ? C19 XPW 1001 C 1 
HETATM 9 C C23 XPW . . . S 3 165.071 166.145 152.341 1 67.16 ? C23 XPW 1001 C 1 
HETATM 10 C C01 XPW . . . S 3 169.447 164.596 160.122 1 67.16 ? C01 XPW 1001 C 1 
HETATM 11 C C02 XPW . . . S 3 168.823 163.34 159.522 1 67.16 ? C02 XPW 1001 C 1 
HETATM 12 C C03 XPW . . . S 3 168.732 162.256 160.596 1 67.16 ? C03 XPW 1001 C 1 
HETATM 13 O O04 XPW . . . S 3 169.611 162.887 158.461 1 67.16 ? O04 XPW 1001 C 1 
HETATM 14 C C05 XPW . . . S 3 167.412 163.665 159.014 1 67.16 ? C05 XPW 1001 C 1 
HETATM 15 C C06 XPW . . . S 3 167.179 163.788 157.652 1 67.16 ? C06 XPW 1001 C 1 
HETATM 16 N N07 XPW . . . S 3 165.957 164.069 157.221 1 67.16 ? N07 XPW 1001 C 1 
HETATM 17 C C08 XPW . . . S 3 164.974 164.228 158.09 1 67.16 ? C08 XPW 1001 C 1 
HETATM 18 C C09 XPW . . . S 3 165.209 164.102 159.448 1 67.16 ? C09 XPW 1001 C 1 
HETATM 19 N N10 XPW . . . S 3 166.429 163.822 159.881 1 67.16 ? N10 XPW 1001 C 1 
HETATM 20 N N11 XPW . . . S 3 163.63 164.536 157.619 1 67.16 ? N11 XPW 1001 C 1 
HETATM 21 N N20 XPW . . . S 3 162.887 165.946 152.451 1 67.16 ? N20 XPW 1001 C 1 
HETATM 22 C C21 XPW . . . S 3 163.196 167.235 152.421 1 67.16 ? C21 XPW 1001 C 1 
HETATM 23 N N22 XPW . . . S 3 164.509 167.384 152.356 1 67.16 ? N22 XPW 1001 C 1 
HETATM 24 C C24 XPW . . . S 3 166.413 165.697 152.281 1 67.16 ? C24 XPW 1001 C 1 
HETATM 25 C C25 XPW . . . S 3 166.694 164.334 152.282 1 67.16 ? C25 XPW 1001 C 1 
HETATM 26 C C26 XPW . . . S 3 165.651 163.411 152.342 1 67.16 ? C26 XPW 1001 C 1 
HETATM 27 C C27 XPW . . . S 3 164.333 163.847 152.402 1 67.16 ? C27 XPW 1001 C 1 
HETATM 28 C C28 XPW . . . S 3 164.049 165.239 152.399 1 67.16 ? C28 XPW 1001 C 1 
HETATM 29 C C29 XPW . . . S 3 165.965 161.919 152.343 1 67.16 ? C29 XPW 1001 C 1 
HETATM 30 N N30 XPW . . . S 3 166.198 160.81 152.343 1 67.16 ? N30 XPW 1001 C 1 
HETATM 31 C C31 XPW . . . S 3 162.151 164.708 154.841 1 67.16 ? C31 XPW 1001 C 1 
HETATM 32 O O32 XPW . . . S 3 161.737 165.754 156.975 1 67.16 ? O32 XPW 1001 C 1 
HETATM 33 C C33 XPW . . . S 3 162.938 165.815 157.765 1 67.16 ? C33 XPW 1001 C 1 
HETATM 34 O O34 XPW . . . S 3 163.301 166.734 158.416 1 67.16 ? O34 XPW 1001 C 1 
#
_model_server_stats.io_time_ms              52 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    119 
_model_server_stats.query_time_ms           627 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           34 
#