data_8DYI
#
_model_server_result.job_id            4OjrZYEOPRV2_Hv3VMCNBQ 
_model_server_result.datetime_utc      '2024-12-23 05:03:52' 
_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          8dyi 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":201}' 
#
_entry.id    8DYI 
#
_exptl.entry_id    8DYI 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              428.529 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (5P)-5-[5-(benzylamino)pyridin-3-yl]-N-[2-(morpholin-4-yl)ethyl]-1H-indazol-3-amine 
_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          102.71 
_cell.angle_gamma         90 
_cell.entry_id            8DYI 
_cell.length_a            172.938 
_cell.length_b            30.507 
_cell.length_c            50.239 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8DYI 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    'C 2y' 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_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    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 C N N 
? 2 D 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
disulf ? disulf1 A SG CYS 66 A CYS 94 1_555 A SG CYS 116 A CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
disulf ? disulf2 A SG CYS 71 A CYS 99 1_555 A SG CYS 118 A CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
disulf ? disulf3 B SG CYS 66 B CYS 94 1_555 B SG CYS 116 B CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? 
disulf ? disulf4 B SG CYS 71 B CYS 99 1_555 B SG CYS 118 B CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? 
#
_chem_comp.formula           'C25 H28 N6 O' 
_chem_comp.formula_weight    428.529 
_chem_comp.id                U6C 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (5P)-5-[5-(benzylamino)pyridin-3-yl]-N-[2-(morpholin-4-yl)ethyl]-1H-indazol-3-amine 
_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
C29 O30 U6C sing 358 n n 
C29 C28 U6C sing 359 n n 
O30 C31 U6C sing 360 n n 
C31 C32 U6C sing 361 n n 
C28 N27 U6C sing 362 n n 
C32 N27 U6C sing 363 n n 
N27 C26 U6C sing 364 n n 
C26 C25 U6C sing 365 n n 
C25 N10 U6C sing 366 n n 
N8 C9 U6C doub 367 n y 
N8 N7 U6C sing 368 n y 
N10 C9 U6C sing 369 n n 
C9 C2 U6C sing 370 n y 
N7 C1 U6C sing 371 n y 
C2 C1 U6C doub 372 n y 
C2 C3 U6C sing 373 n y 
C1 C6 U6C sing 374 n y 
C3 C4 U6C doub 375 n y 
C6 C5 U6C doub 376 n y 
C4 C5 U6C sing 377 n y 
C4 C11 U6C sing 378 n n 
C11 C12 U6C doub 379 n y 
C11 C16 U6C sing 380 n y 
C12 N13 U6C sing 381 n y 
C16 C15 U6C doub 382 n y 
N13 C14 U6C doub 383 n y 
C15 C14 U6C sing 384 n y 
C15 N17 U6C sing 385 n n 
N17 C18 U6C sing 386 n n 
C18 C19 U6C sing 387 n n 
C19 C20 U6C doub 388 n y 
C19 C24 U6C sing 389 n y 
C20 C21 U6C sing 390 n y 
C24 C23 U6C doub 391 n y 
C21 C22 U6C doub 392 n y 
C23 C22 U6C sing 393 n y 
C12 H38 U6C sing 394 n n 
C14 H39 U6C sing 395 n n 
C16 H40 U6C sing 396 n n 
C18 H42 U6C sing 397 n n 
C18 H43 U6C sing 398 n n 
C20 H44 U6C sing 399 n n 
C21 H45 U6C sing 400 n n 
C22 H46 U6C sing 401 n n 
C23 H47 U6C sing 402 n n 
C24 H48 U6C sing 403 n n 
C25 H50 U6C sing 404 n n 
C25 H49 U6C sing 405 n n 
C26 H52 U6C sing 406 n n 
C26 H51 U6C sing 407 n n 
C28 H55 U6C sing 408 n n 
C28 H54 U6C sing 409 n n 
C29 H56 U6C sing 410 n n 
C29 H57 U6C sing 411 n n 
C3 H33 U6C sing 412 n n 
C31 H58 U6C sing 413 n n 
C31 H59 U6C sing 414 n n 
C32 H61 U6C sing 415 n n 
C32 H60 U6C sing 416 n n 
C5 H34 U6C sing 417 n n 
C6 H35 U6C sing 418 n n 
N10 H37 U6C sing 419 n n 
N17 H41 U6C sing 420 n n 
N7 H36 U6C sing 421 n n 
#
_atom_sites.entry_id                     8DYI 
_atom_sites.fract_transf_matrix[1][1]    0.005782 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001304 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.032779 
_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]    0.020405 
_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
C 2 U6C A 1 201 1 U6C UNL . 
D 2 U6C B 1 201 2 U6C UNL . 
E 3 HOH A 1 301 27 HOH HOH . 
E 3 HOH A 2 302 45 HOH HOH . 
E 3 HOH A 3 303 12 HOH HOH . 
E 3 HOH A 4 304 5 HOH HOH . 
E 3 HOH A 5 305 9 HOH HOH . 
E 3 HOH A 6 306 62 HOH HOH . 
E 3 HOH A 7 307 60 HOH HOH . 
E 3 HOH A 8 308 55 HOH HOH . 
E 3 HOH A 9 309 18 HOH HOH . 
E 3 HOH A 10 310 49 HOH HOH . 
E 3 HOH A 11 311 39 HOH HOH . 
E 3 HOH A 12 312 15 HOH HOH . 
E 3 HOH A 13 313 52 HOH HOH . 
E 3 HOH A 14 314 53 HOH HOH . 
E 3 HOH A 15 315 61 HOH HOH . 
E 3 HOH A 16 316 13 HOH HOH . 
E 3 HOH A 17 317 43 HOH HOH . 
E 3 HOH A 18 318 30 HOH HOH . 
E 3 HOH A 19 319 41 HOH HOH . 
E 3 HOH A 20 320 3 HOH HOH . 
E 3 HOH A 21 321 21 HOH HOH . 
E 3 HOH A 22 322 10 HOH HOH . 
E 3 HOH A 23 323 35 HOH HOH . 
E 3 HOH A 24 324 1 HOH HOH . 
E 3 HOH A 25 325 64 HOH HOH . 
E 3 HOH A 26 326 4 HOH HOH . 
E 3 HOH A 27 327 29 HOH HOH . 
E 3 HOH A 28 328 36 HOH HOH . 
E 3 HOH A 29 329 25 HOH HOH . 
E 3 HOH A 30 330 50 HOH HOH . 
E 3 HOH A 31 331 65 HOH HOH . 
E 3 HOH A 32 332 67 HOH HOH . 
E 3 HOH A 33 333 23 HOH HOH . 
E 3 HOH A 34 334 17 HOH HOH . 
E 3 HOH A 35 335 59 HOH HOH . 
E 3 HOH A 36 336 57 HOH HOH . 
E 3 HOH A 37 337 66 HOH HOH . 
F 3 HOH B 1 301 40 HOH HOH . 
F 3 HOH B 2 302 46 HOH HOH . 
F 3 HOH B 3 303 28 HOH HOH . 
F 3 HOH B 4 304 47 HOH HOH . 
F 3 HOH B 5 305 2 HOH HOH . 
F 3 HOH B 6 306 48 HOH HOH . 
F 3 HOH B 7 307 63 HOH HOH . 
F 3 HOH B 8 308 8 HOH HOH . 
F 3 HOH B 9 309 51 HOH HOH . 
F 3 HOH B 10 310 58 HOH HOH . 
F 3 HOH B 11 311 26 HOH HOH . 
F 3 HOH B 12 312 22 HOH HOH . 
F 3 HOH B 13 313 68 HOH HOH . 
F 3 HOH B 14 314 7 HOH HOH . 
F 3 HOH B 15 315 20 HOH HOH . 
F 3 HOH B 16 316 16 HOH HOH . 
F 3 HOH B 17 317 6 HOH HOH . 
F 3 HOH B 18 318 14 HOH HOH . 
F 3 HOH B 19 319 32 HOH HOH . 
F 3 HOH B 20 320 44 HOH HOH . 
F 3 HOH B 21 321 42 HOH HOH . 
F 3 HOH B 22 322 31 HOH HOH . 
F 3 HOH B 23 323 11 HOH HOH . 
F 3 HOH B 24 324 33 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 U6C . . . D 2 -55.714 -9.293 19.492 1 43.57 ? C1 U6C 201 B 1 
HETATM 2 C C11 U6C . . . D 2 -57.028 -8.825 15.614 1 42.94 ? C11 U6C 201 B 1 
HETATM 3 C C12 U6C . . . D 2 -57.661 -7.708 15.123 1 41.56 ? C12 U6C 201 B 1 
HETATM 4 C C14 U6C . . . D 2 -57.762 -8.58 13.044 1 35.98 ? C14 U6C 201 B 1 
HETATM 5 C C15 U6C . . . D 2 -57.133 -9.741 13.426 1 37.94 ? C15 U6C 201 B 1 
HETATM 6 C C16 U6C . . . D 2 -56.761 -9.853 14.741 1 39.74 ? C16 U6C 201 B 1 
HETATM 7 C C18 U6C . . . D 2 -57.556 -10.877 11.311 1 39.61 ? C18 U6C 201 B 1 
HETATM 8 C C19 U6C . . . D 2 -56.781 -10.244 10.209 1 38.81 ? C19 U6C 201 B 1 
HETATM 9 C C2 U6C . . . D 2 -57.046 -8.994 19.298 1 47.77 ? C2 U6C 201 B 1 
HETATM 10 C C20 U6C . . . D 2 -57.447 -9.564 9.22 1 37.03 ? C20 U6C 201 B 1 
HETATM 11 C C21 U6C . . . D 2 -56.75 -8.974 8.196 1 31.92 ? C21 U6C 201 B 1 
HETATM 12 C C22 U6C . . . D 2 -55.383 -9.061 8.156 1 31.57 ? C22 U6C 201 B 1 
HETATM 13 C C23 U6C . . . D 2 -54.715 -9.744 9.143 1 35.76 ? C23 U6C 201 B 1 
HETATM 14 C C24 U6C . . . D 2 -55.413 -10.336 10.167 1 35.32 ? C24 U6C 201 B 1 
HETATM 15 C C25 U6C . . . D 2 -59.434 -8.761 22.152 1 63.96 ? C25 U6C 201 B 1 
HETATM 16 C C26 U6C . . . D 2 -59.819 -10.189 22.462 1 65.89 ? C26 U6C 201 B 1 
HETATM 17 C C28 U6C . . . D 2 -60.276 -11.762 24.25 1 84.82 ? C28 U6C 201 B 1 
HETATM 18 C C29 U6C . . . D 2 -60.501 -11.911 25.736 1 90.07 ? C29 U6C 201 B 1 
HETATM 19 C C3 U6C . . . D 2 -57.531 -8.828 18.012 1 45.43 ? C3 U6C 201 B 1 
HETATM 20 C C31 U6C . . . D 2 -61.139 -9.714 25.95 1 87.73 ? C31 U6C 201 B 1 
HETATM 21 C C32 U6C . . . D 2 -60.986 -9.437 24.475 1 81 ? C32 U6C 201 B 1 
HETATM 22 C C4 U6C . . . D 2 -56.626 -8.968 16.982 1 41.99 ? C4 U6C 201 B 1 
HETATM 23 C C5 U6C . . . D 2 -55.303 -9.269 17.211 1 39.53 ? C5 U6C 201 B 1 
HETATM 24 C C6 U6C . . . D 2 -54.802 -9.441 18.477 1 41.74 ? C6 U6C 201 B 1 
HETATM 25 C C9 U6C . . . D 2 -57.603 -8.939 20.602 1 48.65 ? C9 U6C 201 B 1 
HETATM 26 N N10 U6C . . . D 2 -58.912 -8.67 20.807 1 47.21 ? N10 U6C 201 B 1 
HETATM 27 N N13 U6C . . . D 2 -58.04 -7.556 13.852 1 39.5 ? N13 U6C 201 B 1 
HETATM 28 N N17 U6C . . . D 2 -56.839 -10.824 12.574 1 39.72 ? N17 U6C 201 B 1 
HETATM 29 N N27 U6C . . . D 2 -59.947 -10.347 23.936 1 77.9 ? N27 U6C 201 B 1 
HETATM 30 N N7 U6C . . . D 2 -55.552 -9.391 20.843 1 45.38 ? N7 U6C 201 B 1 
HETATM 31 N N8 U6C . . . D 2 -56.68 -9.184 21.537 1 51.44 ? N8 U6C 201 B 1 
HETATM 32 O O30 U6C . . . D 2 -61.566 -11.057 26.125 1 87.85 ? O30 U6C 201 B 1 
HETATM 33 H H38 U6C . . . D 2 -57.884 -6.876 15.781 1 49.51 ? H38 U6C 201 B 1 
HETATM 34 H H39 U6C . . . D 2 -58.071 -8.45 12.013 1 42.81 ? H39 U6C 201 B 1 
HETATM 35 H H40 U6C . . . D 2 -56.259 -10.748 15.091 1 47.32 ? H40 U6C 201 B 1 
HETATM 36 H H42 U6C . . . D 2 -58.51 -10.356 11.417 1 47.17 ? H42 U6C 201 B 1 
HETATM 37 H H43 U6C . . . D 2 -57.75 -11.921 11.051 1 47.17 ? H43 U6C 201 B 1 
HETATM 38 H H44 U6C . . . D 2 -58.528 -9.493 9.247 1 44.07 ? H44 U6C 201 B 1 
HETATM 39 H H45 U6C . . . D 2 -57.281 -8.438 7.418 1 37.94 ? H45 U6C 201 B 1 
HETATM 40 H H46 U6C . . . D 2 -54.831 -8.592 7.35 1 37.52 ? H46 U6C 201 B 1 
HETATM 41 H H47 U6C . . . D 2 -53.634 -9.816 9.114 1 42.55 ? H47 U6C 201 B 1 
HETATM 42 H H48 U6C . . . D 2 -54.883 -10.876 10.943 1 42.02 ? H48 U6C 201 B 1 
HETATM 43 H H50 U6C . . . D 2 -58.67 -8.421 22.856 1 76.38 ? H50 U6C 201 B 1 
HETATM 44 H H49 U6C . . . D 2 -60.31 -8.113 22.241 1 76.38 ? H49 U6C 201 B 1 
HETATM 45 H H52 U6C . . . D 2 -60.782 -10.463 22.024 1 78.71 ? H52 U6C 201 B 1 
HETATM 46 H H51 U6C . . . D 2 -59.063 -10.904 22.126 1 78.71 ? H51 U6C 201 B 1 
HETATM 47 H H55 U6C . . . D 2 -61.168 -12.018 23.672 1 101.42 ? H55 U6C 201 B 1 
HETATM 48 H H54 U6C . . . D 2 -59.44 -12.37 23.898 1 101.42 ? H54 U6C 201 B 1 
HETATM 49 H H56 U6C . . . D 2 -60.766 -12.941 25.988 1 107.72 ? H56 U6C 201 B 1 
HETATM 50 H H57 U6C . . . D 2 -59.604 -11.631 26.295 1 107.72 ? H57 U6C 201 B 1 
HETATM 51 H H33 U6C . . . D 2 -58.4 -8.201 17.851 1 54.15 ? H33 U6C 201 B 1 
HETATM 52 H H58 U6C . . . D 2 -60.187 -9.578 26.47 1 104.92 ? H58 U6C 201 B 1 
HETATM 53 H H59 U6C . . . D 2 -61.882 -9.048 26.394 1 104.92 ? H59 U6C 201 B 1 
HETATM 54 H H61 U6C . . . D 2 -60.658 -8.413 24.276 1 96.84 ? H61 U6C 201 B 1 
HETATM 55 H H60 U6C . . . D 2 -61.907 -9.627 23.919 1 96.84 ? H60 U6C 201 B 1 
HETATM 56 H H34 U6C . . . D 2 -54.635 -9.374 16.364 1 47.08 ? H34 U6C 201 B 1 
HETATM 57 H H35 U6C . . . D 2 -53.762 -9.195 18.66 1 49.72 ? H35 U6C 201 B 1 
HETATM 58 H H37 U6C . . . D 2 -59.557 -9.091 20.141 1 56.29 ? H37 U6C 201 B 1 
HETATM 59 H H41 U6C . . . D 2 -55.842 -10.765 12.377 1 47.3 ? H41 U6C 201 B 1 
HETATM 60 H H36 U6C . . . D 2 -54.705 -9.596 21.358 1 54.09 ? H36 U6C 201 B 1 
HETATM 61 H H53 U6C . . . D 2 -59.053 -10.099 24.379 1 93.11 ? H53 U6C 201 B 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           249 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           61 
#