data_5PGX
#
_model_server_result.job_id            LnoCnCGCcLdfvI2brzvsCQ 
_model_server_result.datetime_utc      '2025-07-17 22:20:13' 
_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          5pgx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":302}' 
#
_entry.id    5PGX 
#
_exptl.entry_id    5PGX 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              355.471 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            2-(2-BENZYL-6-HYDROXYADAMANTAN-2-YL)-1-(3-HYDROXYAZETIDIN-1-YL)ETHAN-1-ONE 
_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            5PGX 
_cell.length_a            74.6 
_cell.length_b            93.3 
_cell.length_c            168.5 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5PGX 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,H,M,N 1 1 
C,D,I,J,K,L,O,P 2 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
? 3 F N N 
? 3 H N N 
? 3 J N N 
? 3 L N N 
#
_chem_comp.formula           'C22 H29 N O3' 
_chem_comp.formula_weight    355.471 
_chem_comp.id                8KD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              2-(2-BENZYL-6-HYDROXYADAMANTAN-2-YL)-1-(3-HYDROXYAZETIDIN-1-YL)ETHAN-1-ONE 
_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
O26 C8 8KD sing 1 n n 
C5 C8 8KD sing 2 n n 
C5 C4 8KD sing 3 n n 
C5 C6 8KD sing 4 n n 
C8 C9 8KD sing 5 n n 
C4 C3 8KD sing 6 n n 
C6 C1 8KD sing 7 n n 
C9 C10 8KD sing 8 n n 
C9 C7 8KD sing 9 n n 
C10 C3 8KD sing 10 n n 
C3 C2 8KD sing 11 n n 
C1 C7 8KD sing 12 n n 
C1 C2 8KD sing 13 n n 
C11 C2 8KD sing 14 n n 
C11 C14 8KD sing 15 n n 
C2 C12 8KD sing 16 n n 
C21 C14 8KD doub 17 n y 
C21 C20 8KD sing 18 n y 
C14 C13 8KD sing 19 n y 
C20 C19 8KD doub 20 n y 
C12 C15 8KD sing 21 n n 
C13 C18 8KD doub 22 n y 
C19 C18 8KD sing 23 n y 
C15 O17 8KD doub 24 n n 
C15 N16 8KD sing 25 n n 
N16 C22 8KD sing 26 n n 
N16 C24 8KD sing 27 n n 
C22 C23 8KD sing 28 n n 
C24 C23 8KD sing 29 n n 
C23 O25 8KD sing 30 n n 
C13 H44 8KD sing 31 n n 
C18 H45 8KD sing 32 n n 
C19 H46 8KD sing 33 n n 
C20 H47 8KD sing 34 n n 
C21 H48 8KD sing 35 n n 
C22 H50 8KD sing 36 n n 
C22 H49 8KD sing 37 n n 
C23 H51 8KD sing 38 n n 
C24 H52 8KD sing 39 n n 
C24 H53 8KD sing 40 n n 
C11 H40 8KD sing 41 n n 
C11 H41 8KD sing 42 n n 
C12 H42 8KD sing 43 n n 
C12 H43 8KD sing 44 n n 
C1 H27 8KD sing 45 n n 
C3 H28 8KD sing 46 n n 
C4 H29 8KD sing 47 n n 
C4 H30 8KD sing 48 n n 
C5 H31 8KD sing 49 n n 
C6 H33 8KD sing 50 n n 
C6 H32 8KD sing 51 n n 
C7 H34 8KD sing 52 n n 
C7 H35 8KD sing 53 n n 
C8 H36 8KD sing 54 n n 
C9 H37 8KD sing 55 n n 
C10 H39 8KD sing 56 n n 
C10 H38 8KD sing 57 n n 
O25 H54 8KD sing 58 n n 
O26 H55 8KD sing 59 n n 
#
_atom_sites.entry_id                     5PGX 
_atom_sites.fract_transf_matrix[1][1]    0.013405 
_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]    0.010718 
_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]    0.005935 
_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 NAP A 1 301 301 NAP NAP . 
F 3 8KD A 1 302 302 8KD LG1 . 
G 2 NAP B 1 301 301 NAP NAP . 
H 3 8KD B 1 302 302 8KD LG1 . 
I 2 NAP D 1 301 301 NAP NAP . 
J 3 8KD D 1 302 302 8KD LG1 . 
K 2 NAP E 1 301 301 NAP NAP . 
L 3 8KD E 1 302 302 8KD LG1 . 
M 4 HOH A 1 401 9 HOH HOH . 
M 4 HOH A 2 402 3 HOH HOH . 
M 4 HOH A 3 403 30 HOH HOH . 
M 4 HOH A 4 404 8 HOH HOH . 
M 4 HOH A 5 405 5 HOH HOH . 
M 4 HOH A 6 406 18 HOH HOH . 
N 4 HOH B 1 401 35 HOH HOH . 
N 4 HOH B 2 402 19 HOH HOH . 
N 4 HOH B 3 403 14 HOH HOH . 
N 4 HOH B 4 404 31 HOH HOH . 
N 4 HOH B 5 405 11 HOH HOH . 
N 4 HOH B 6 406 23 HOH HOH . 
N 4 HOH B 7 407 2 HOH HOH . 
N 4 HOH B 8 408 10 HOH HOH . 
N 4 HOH B 9 409 24 HOH HOH . 
N 4 HOH B 10 410 33 HOH HOH . 
N 4 HOH B 11 411 32 HOH HOH . 
O 4 HOH D 1 401 7 HOH HOH . 
O 4 HOH D 2 402 4 HOH HOH . 
O 4 HOH D 3 403 37 HOH HOH . 
O 4 HOH D 4 404 16 HOH HOH . 
O 4 HOH D 5 405 12 HOH HOH . 
O 4 HOH D 6 406 1 HOH HOH . 
O 4 HOH D 7 407 13 HOH HOH . 
O 4 HOH D 8 408 6 HOH HOH . 
O 4 HOH D 9 409 29 HOH HOH . 
O 4 HOH D 10 410 15 HOH HOH . 
O 4 HOH D 11 411 22 HOH HOH . 
O 4 HOH D 12 412 28 HOH HOH . 
O 4 HOH D 13 413 17 HOH HOH . 
O 4 HOH D 14 414 36 HOH HOH . 
O 4 HOH D 15 415 25 HOH HOH . 
P 4 HOH E 1 401 39 HOH HOH . 
P 4 HOH E 2 402 20 HOH HOH . 
P 4 HOH E 3 403 21 HOH HOH . 
P 4 HOH E 4 404 38 HOH HOH . 
P 4 HOH E 5 405 34 HOH HOH . 
P 4 HOH E 6 406 27 HOH HOH . 
P 4 HOH E 7 407 26 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 C C13 8KD . . . H 3 36.599 35.752 94.225 1 26.11 ? C13 8KD 302 B 1 
HETATM 2 C C18 8KD . . . H 3 36.885 36.045 95.548 1 27.06 ? C18 8KD 302 B 1 
HETATM 3 C C15 8KD . . . H 3 33.602 35.61 93.151 1 39.91 ? C15 8KD 302 B 1 
HETATM 4 C C19 8KD . . . H 3 37.091 35.025 96.455 1 30.94 ? C19 8KD 302 B 1 
HETATM 5 C C20 8KD . . . H 3 37.008 33.707 96.034 1 28.96 ? C20 8KD 302 B 1 
HETATM 6 C C21 8KD . . . H 3 36.717 33.418 94.711 1 27.49 ? C21 8KD 302 B 1 
HETATM 7 C C22 8KD . . . H 3 33.588 35.433 95.719 1 36.22 ? C22 8KD 302 B 1 
HETATM 8 C C23 8KD . . . H 3 33.753 36.836 96.386 1 33.18 ? C23 8KD 302 B 1 
HETATM 9 C C24 8KD . . . H 3 33.512 37.449 94.968 1 34.34 ? C24 8KD 302 B 1 
HETATM 10 C C11 8KD . . . H 3 36.164 34.126 92.354 1 28.91 ? C11 8KD 302 B 1 
HETATM 11 C C12 8KD . . . H 3 33.635 34.111 92.961 1 36.62 ? C12 8KD 302 B 1 
HETATM 12 C C1 8KD . . . H 3 34.473 33.747 90.55 1 29.61 ? C1 8KD 302 B 1 
HETATM 13 C C2 8KD . . . H 3 34.761 33.51 92.053 1 31.89 ? C2 8KD 302 B 1 
HETATM 14 C C3 8KD . . . H 3 34.765 31.96 92.176 1 32.91 ? C3 8KD 302 B 1 
HETATM 15 C C4 8KD . . . H 3 35.843 31.296 91.304 1 32.37 ? C4 8KD 302 B 1 
HETATM 16 C C5 8KD . . . H 3 35.587 31.627 89.829 1 31.49 ? C5 8KD 302 B 1 
HETATM 17 C C6 8KD . . . H 3 35.562 33.145 89.648 1 30.31 ? C6 8KD 302 B 1 
HETATM 18 C C7 8KD . . . H 3 33.121 33.171 90.098 1 30.49 ? C7 8KD 302 B 1 
HETATM 19 C C8 8KD . . . H 3 34.235 31.06 89.401 1 32.55 ? C8 8KD 302 B 1 
HETATM 20 C C9 8KD . . . H 3 33.137 31.653 90.283 1 32.66 ? C9 8KD 302 B 1 
HETATM 21 C C10 8KD . . . H 3 33.427 31.334 91.757 1 32.28 ? C10 8KD 302 B 1 
HETATM 22 C C14 8KD . . . H 3 36.506 34.437 93.791 1 27.07 ? C14 8KD 302 B 1 
HETATM 23 N N16 8KD . . . H 3 33.574 36.094 94.413 1 35.45 ? N16 8KD 302 B 1 
HETATM 24 O O17 8KD . . . H 3 33.597 36.348 92.177 1 44.86 ? O17 8KD 302 B 1 
HETATM 25 O O25 8KD . . . H 3 32.691 37.003 97.316 1 30.72 ? O25 8KD 302 B 1 
HETATM 26 O O26 8KD . . . H 3 34.247 29.639 89.456 1 34.6 ? O26 8KD 302 B 1 
HETATM 27 H H44 8KD . . . H 3 36.432 36.571 93.527 0 26.13 ? H44 8KD 302 B 1 
HETATM 28 H H45 8KD . . . H 3 36.915 37.086 95.864 0 27.07 ? H45 8KD 302 B 1 
HETATM 29 H H46 8KD . . . H 3 37.314 35.255 97.496 0 30.94 ? H46 8KD 302 B 1 
HETATM 30 H H47 8KD . . . H 3 37.176 32.896 96.741 0 28.96 ? H47 8KD 302 B 1 
HETATM 31 H H48 8KD . . . H 3 36.655 32.374 94.411 0 27.41 ? H48 8KD 302 B 1 
HETATM 32 H H50 8KD . . . H 3 34.395 34.723 95.889 0 36.24 ? H50 8KD 302 B 1 
HETATM 33 H H49 8KD . . . H 3 32.673 34.895 95.957 0 36.24 ? H49 8KD 302 B 1 
HETATM 34 H H51 8KD . . . H 3 34.715 37.053 96.848 0 33.2 ? H51 8KD 302 B 1 
HETATM 35 H H52 8KD . . . H 3 32.56 37.956 94.822 0 34.35 ? H52 8KD 302 B 1 
HETATM 36 H H53 8KD . . . H 3 34.289 38.136 94.639 0 34.35 ? H53 8KD 302 B 1 
HETATM 37 H H40 8KD . . . H 3 36.272 35.048 91.786 0 28.9 ? H40 8KD 302 B 1 
HETATM 38 H H41 8KD . . . H 3 36.978 33.519 91.967 0 28.9 ? H41 8KD 302 B 1 
HETATM 39 H H42 8KD . . . H 3 33.74 33.611 93.922 0 36.62 ? H42 8KD 302 B 1 
HETATM 40 H H43 8KD . . . H 3 32.635 33.832 92.639 0 36.62 ? H43 8KD 302 B 1 
HETATM 41 H H27 8KD . . . H 3 34.446 34.816 90.367 0 29.56 ? H27 8KD 302 B 1 
HETATM 42 H H28 8KD . . . H 3 34.945 31.692 93.216 0 32.92 ? H28 8KD 302 B 1 
HETATM 43 H H29 8KD . . . H 3 36.863 31.543 91.59 0 32.41 ? H29 8KD 302 B 1 
HETATM 44 H H30 8KD . . . H 3 35.808 30.219 91.458 0 32.41 ? H30 8KD 302 B 1 
HETATM 45 H H31 8KD . . . H 3 36.38 31.194 89.223 0 31.47 ? H31 8KD 302 B 1 
HETATM 46 H H33 8KD . . . H 3 35.324 33.356 88.607 0 30.29 ? H33 8KD 302 B 1 
HETATM 47 H H32 8KD . . . H 3 36.547 33.587 89.78 0 30.29 ? H32 8KD 302 B 1 
HETATM 48 H H34 8KD . . . H 3 32.264 33.624 90.59 0 30.45 ? H34 8KD 302 B 1 
HETATM 49 H H35 8KD . . . H 3 32.961 33.413 89.048 0 30.45 ? H35 8KD 302 B 1 
HETATM 50 H H36 8KD . . . H 3 34.036 31.348 88.37 0 32.54 ? H36 8KD 302 B 1 
HETATM 51 H H37 8KD . . . H 3 32.175 31.229 89.999 0 32.63 ? H37 8KD 302 B 1 
HETATM 52 H H39 8KD . . . H 3 33.495 30.258 91.902 0 32.32 ? H39 8KD 302 B 1 
HETATM 53 H H38 8KD . . . H 3 32.598 31.626 92.399 0 32.32 ? H38 8KD 302 B 1 
HETATM 54 H H54 8KD . . . H 3 33.055 37.562 98.052 0 30.72 ? H54 8KD 302 B 1 
HETATM 55 H H55 8KD . . . H 3 34.515 29.32 88.554 0 34.68 ? H55 8KD 302 B 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           317 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           55 
#