data_5EZG
#
_model_server_result.job_id            6yfTwiwSc5sywHKulUDwIA 
_model_server_result.datetime_utc      '2024-10-20 03:25:07' 
_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          5ezg 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":302}' 
#
_entry.id    5EZG 
#
_exptl.entry_id    5EZG 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              289.376 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ~{N}-[(1-pyrimidin-2-ylpiperidin-4-yl)methyl]pyrrolidine-1-carboxamide 
_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            5EZG 
_cell.length_a            121.49 
_cell.length_b            121.49 
_cell.length_c            33.84 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5EZG 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               software_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    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 B N N 
? 2 C N N 
#
_chem_comp.formula           'C15 H23 N5 O' 
_chem_comp.formula_weight    289.376 
_chem_comp.id                5T4 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              ~{N}-[(1-pyrimidin-2-ylpiperidin-4-yl)methyl]pyrrolidine-1-carboxamide 
_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
N1 C 5T4 doub 1 n y 
N1 C3 5T4 sing 2 n y 
C C1 5T4 sing 3 n y 
C8 N2 5T4 sing 4 n n 
C8 C7 5T4 sing 5 n n 
N2 C3 5T4 sing 6 n n 
N2 C4 5T4 sing 7 n n 
C3 N 5T4 doub 8 n y 
C1 C2 5T4 doub 9 n y 
C4 C5 5T4 sing 10 n n 
N C2 5T4 sing 11 n y 
C7 C6 5T4 sing 12 n n 
C6 C5 5T4 sing 13 n n 
C6 C9 5T4 sing 14 n n 
C11 C12 5T4 sing 15 n n 
C11 N4 5T4 sing 16 n n 
C12 C13 5T4 sing 17 n n 
N3 C9 5T4 sing 18 n n 
N3 C10 5T4 sing 19 n n 
N4 C10 5T4 sing 20 n n 
N4 C14 5T4 sing 21 n n 
C10 O 5T4 doub 22 n n 
C13 C14 5T4 sing 23 n n 
C1 H1 5T4 sing 24 n n 
C2 H2 5T4 sing 25 n n 
C4 H3 5T4 sing 26 n n 
C4 H4 5T4 sing 27 n n 
C5 H5 5T4 sing 28 n n 
C5 H6 5T4 sing 29 n n 
C6 H7 5T4 sing 30 n n 
C8 H8 5T4 sing 31 n n 
C8 H9 5T4 sing 32 n n 
C9 H10 5T4 sing 33 n n 
C9 H11 5T4 sing 34 n n 
C13 H12 5T4 sing 35 n n 
C13 H13 5T4 sing 36 n n 
C14 H14 5T4 sing 37 n n 
C14 H15 5T4 sing 38 n n 
C12 H16 5T4 sing 39 n n 
C12 H17 5T4 sing 40 n n 
C11 H18 5T4 sing 41 n n 
C11 H19 5T4 sing 42 n n 
N3 H20 5T4 sing 43 n n 
C7 H21 5T4 sing 44 n n 
C7 H22 5T4 sing 45 n n 
C H23 5T4 sing 46 n n 
#
_atom_sites.entry_id                     5EZG 
_atom_sites.fract_transf_matrix[1][1]    0.008231 
_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]    0.008231 
_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]    0.029551 
_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
B 2 5T4 A 1 301 1 5T4 741 . 
C 2 5T4 A 1 302 1 5T4 741 . 
D 3 SO4 A 1 303 1 SO4 SO4 . 
E 4 HOH A 1 401 48 HOH HOH . 
E 4 HOH A 2 402 59 HOH HOH . 
E 4 HOH A 3 403 30 HOH HOH . 
E 4 HOH A 4 404 25 HOH HOH . 
E 4 HOH A 5 405 14 HOH HOH . 
E 4 HOH A 6 406 78 HOH HOH . 
E 4 HOH A 7 407 8 HOH HOH . 
E 4 HOH A 8 408 46 HOH HOH . 
E 4 HOH A 9 409 44 HOH HOH . 
E 4 HOH A 10 410 21 HOH HOH . 
E 4 HOH A 11 411 62 HOH HOH . 
E 4 HOH A 12 412 58 HOH HOH . 
E 4 HOH A 13 413 57 HOH HOH . 
E 4 HOH A 14 414 64 HOH HOH . 
E 4 HOH A 15 415 19 HOH HOH . 
E 4 HOH A 16 416 6 HOH HOH . 
E 4 HOH A 17 417 23 HOH HOH . 
E 4 HOH A 18 418 18 HOH HOH . 
E 4 HOH A 19 419 4 HOH HOH . 
E 4 HOH A 20 420 3 HOH HOH . 
E 4 HOH A 21 421 41 HOH HOH . 
E 4 HOH A 22 422 42 HOH HOH . 
E 4 HOH A 23 423 31 HOH HOH . 
E 4 HOH A 24 424 28 HOH HOH . 
E 4 HOH A 25 425 20 HOH HOH . 
E 4 HOH A 26 426 11 HOH HOH . 
E 4 HOH A 27 427 32 HOH HOH . 
E 4 HOH A 28 428 38 HOH HOH . 
E 4 HOH A 29 429 17 HOH HOH . 
E 4 HOH A 30 430 51 HOH HOH . 
E 4 HOH A 31 431 10 HOH HOH . 
E 4 HOH A 32 432 63 HOH HOH . 
E 4 HOH A 33 433 13 HOH HOH . 
E 4 HOH A 34 434 55 HOH HOH . 
E 4 HOH A 35 435 9 HOH HOH . 
E 4 HOH A 36 436 7 HOH HOH . 
E 4 HOH A 37 437 56 HOH HOH . 
E 4 HOH A 38 438 72 HOH HOH . 
E 4 HOH A 39 439 76 HOH HOH . 
E 4 HOH A 40 440 69 HOH HOH . 
E 4 HOH A 41 441 26 HOH HOH . 
E 4 HOH A 42 442 35 HOH HOH . 
E 4 HOH A 43 443 39 HOH HOH . 
E 4 HOH A 44 444 5 HOH HOH . 
E 4 HOH A 45 445 70 HOH HOH . 
E 4 HOH A 46 446 1 HOH HOH . 
E 4 HOH A 47 447 43 HOH HOH . 
E 4 HOH A 48 448 47 HOH HOH . 
E 4 HOH A 49 449 15 HOH HOH . 
E 4 HOH A 50 450 2 HOH HOH . 
E 4 HOH A 51 451 24 HOH HOH . 
E 4 HOH A 52 452 52 HOH HOH . 
E 4 HOH A 53 453 74 HOH HOH . 
E 4 HOH A 54 454 45 HOH HOH . 
E 4 HOH A 55 455 22 HOH HOH . 
E 4 HOH A 56 456 27 HOH HOH . 
E 4 HOH A 57 457 60 HOH HOH . 
E 4 HOH A 58 458 16 HOH HOH . 
E 4 HOH A 59 459 68 HOH HOH . 
E 4 HOH A 60 460 53 HOH HOH . 
E 4 HOH A 61 461 12 HOH HOH . 
E 4 HOH A 62 462 49 HOH HOH . 
E 4 HOH A 63 463 86 HOH HOH . 
E 4 HOH A 64 464 65 HOH HOH . 
E 4 HOH A 65 465 50 HOH HOH . 
E 4 HOH A 66 466 61 HOH HOH . 
E 4 HOH A 67 467 83 HOH HOH . 
E 4 HOH A 68 468 77 HOH HOH . 
E 4 HOH A 69 469 67 HOH HOH . 
E 4 HOH A 70 470 71 HOH HOH . 
E 4 HOH A 71 471 84 HOH HOH . 
E 4 HOH A 72 472 40 HOH HOH . 
E 4 HOH A 73 473 87 HOH HOH . 
E 4 HOH A 74 474 80 HOH HOH . 
E 4 HOH A 75 475 34 HOH HOH . 
E 4 HOH A 76 476 82 HOH HOH . 
E 4 HOH A 77 477 85 HOH HOH . 
E 4 HOH A 78 478 54 HOH HOH . 
E 4 HOH A 79 479 79 HOH HOH . 
E 4 HOH A 80 480 81 HOH HOH . 
E 4 HOH A 81 481 33 HOH HOH . 
E 4 HOH A 82 482 37 HOH HOH . 
E 4 HOH A 83 483 36 HOH HOH . 
E 4 HOH A 84 484 75 HOH HOH . 
E 4 HOH A 85 485 73 HOH HOH . 
E 4 HOH A 86 486 29 HOH HOH . 
E 4 HOH A 87 487 90 HOH HOH . 
E 4 HOH A 88 488 88 HOH HOH . 
E 4 HOH A 89 489 66 HOH HOH . 
E 4 HOH A 90 490 89 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 C1 5T4 . . . C 2 38.691 20.563 -4.09 1 26.78 ? C1 5T4 302 A 1 
HETATM 2 C C2 5T4 . . . C 2 38.555 20.179 -2.731 1 26.86 ? C2 5T4 302 A 1 
HETATM 3 C C3 5T4 . . . C 2 37.355 22.178 -2.322 1 27.31 ? C3 5T4 302 A 1 
HETATM 4 C C4 5T4 . . . C 2 36.358 22.471 -0.066 1 24.31 ? C4 5T4 302 A 1 
HETATM 5 C C5 5T4 . . . C 2 34.986 21.837 -0.348 1 24.03 ? C5 5T4 302 A 1 
HETATM 6 C C6 5T4 . . . C 2 33.979 22.874 -0.879 1 23.36 ? C6 5T4 302 A 1 
HETATM 7 C C8 5T4 . . . C 2 35.835 24.123 -1.9 1 23.52 ? C8 5T4 302 A 1 
HETATM 8 C C9 5T4 . . . C 2 32.62 22.219 -1.141 1 23.66 ? C9 5T4 302 A 1 
HETATM 9 C C10 5T4 . . . C 2 32.032 20.969 0.922 1 23.36 ? C10 5T4 302 A 1 
HETATM 10 C C13 5T4 . . . C 2 31.968 17.629 2.228 1 23.61 ? C13 5T4 302 A 1 
HETATM 11 C C14 5T4 . . . C 2 32.459 18.539 1.075 1 23.56 ? C14 5T4 302 A 1 
HETATM 12 O O 5T4 . . . C 2 31.76 22.004 1.552 1 24.62 ? O 5T4 302 A 1 
HETATM 13 N N4 5T4 . . . C 2 32.054 19.826 1.614 1 22.21 ? N4 5T4 302 A 1 
HETATM 14 C C12 5T4 . . . C 2 32.232 18.474 3.475 1 22.94 ? C12 5T4 302 A 1 
HETATM 15 C C11 5T4 . . . C 2 31.743 19.863 3.089 1 23.52 ? C11 5T4 302 A 1 
HETATM 16 N N3 5T4 . . . C 2 32.332 20.967 -0.389 1 22.36 ? N3 5T4 302 A 1 
HETATM 17 C C7 5T4 . . . C 2 34.489 23.483 -2.221 1 20.82 ? C7 5T4 302 A 1 
HETATM 18 N N2 5T4 . . . C 2 36.617 22.964 -1.427 1 25.72 ? N2 5T4 302 A 1 
HETATM 19 N N1 5T4 . . . C 2 37.409 22.548 -3.646 1 24.71 ? N1 5T4 302 A 1 
HETATM 20 C C 5T4 . . . C 2 38.107 21.784 -4.52 1 25.91 ? C 5T4 302 A 1 
HETATM 21 N N 5T4 . . . C 2 37.893 20.999 -1.876 1 26.34 ? N 5T4 302 A 1 
#
_model_server_stats.io_time_ms              30 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           270 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           21 
#