data_6XD3
#
_model_server_result.job_id            nB3pfuVYjkPGFPs-TA2gEg 
_model_server_result.datetime_utc      '2024-11-21 17:47:06' 
_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          6xd3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":401}' 
#
_entry.id    6XD3 
#
_exptl.entry_id    6XD3 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              568.069 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-(3-{[5-chloro-4-(1H-indol-3-yl)pyrimidin-2-yl]amino}phenyl)-4-{[4-(dimethylamino)butanoyl]amino}benzamide 
_entity.pdbx_number_of_molecules    1 
_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            6XD3 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6XD3 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 C C GLY 166 J GLY 163 1_555 C N SEP 167 J SEP 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? 
covale ? covale2 C C SEP 167 J SEP 164 1_555 C N PRO 168 J PRO 165 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? 
covale ? covale3 C SG CYS 315 J CYS 312 1_555 D C19 V0G . J V0G 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.735 ? 
#
_chem_comp.formula           'C31 H30 Cl N7 O2' 
_chem_comp.formula_weight    568.069 
_chem_comp.id                V0G 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-(3-{[5-chloro-4-(1H-indol-3-yl)pyrimidin-2-yl]amino}phenyl)-4-{[4-(dimethylamino)butanoyl]amino}benzamide 
_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
C23 N21 V0G sing 374 n n 
C18 C19 V0G sing 375 n n 
C18 C17 V0G sing 376 n n 
N21 C20 V0G sing 377 n n 
N21 C22 V0G sing 378 n n 
C19 C20 V0G sing 379 n n 
C17 N16 V0G sing 380 n n 
C17 O24 V0G doub 381 n n 
N16 C15 V0G sing 382 n n 
C25 C15 V0G doub 383 n y 
C25 C26 V0G sing 384 n y 
C15 C14 V0G sing 385 n y 
C26 C12 V0G doub 386 n y 
C14 C13 V0G doub 387 n y 
C12 C13 V0G sing 388 n y 
C12 C11 V0G sing 389 n n 
N10 C11 V0G sing 390 n n 
N10 C09 V0G sing 391 n n 
C11 O27 V0G doub 392 n n 
C08 C09 V0G doub 393 n y 
C08 C07 V0G sing 394 n y 
N04 C03 V0G doub 395 n y 
N04 C05 V0G sing 396 n y 
N06 C07 V0G sing 397 n n 
N06 C05 V0G sing 398 n n 
C09 C28 V0G sing 399 n y 
C03 C02 V0G sing 400 n y 
C07 C30 V0G doub 401 n y 
C05 N31 V0G doub 402 n y 
C28 C29 V0G doub 403 n y 
C02 CL01 V0G sing 404 n n 
C02 C32 V0G doub 405 n y 
C30 C29 V0G sing 406 n y 
N31 C32 V0G sing 407 n y 
C32 C33 V0G sing 408 n n 
C33 C41 V0G sing 409 n y 
C33 C34 V0G doub 410 n y 
C40 C41 V0G doub 411 n y 
C40 C39 V0G sing 412 n y 
C41 C36 V0G sing 413 n y 
C34 N35 V0G sing 414 n y 
C39 C38 V0G doub 415 n y 
C36 N35 V0G sing 416 n y 
C36 C37 V0G doub 417 n y 
C38 C37 V0G sing 418 n y 
C13 H1 V0G sing 419 n n 
C20 H2 V0G sing 420 n n 
C20 H3 V0G sing 421 n n 
C22 H4 V0G sing 422 n n 
C22 H5 V0G sing 423 n n 
C22 H6 V0G sing 424 n n 
C26 H7 V0G sing 425 n n 
C28 H8 V0G sing 426 n n 
C03 H9 V0G sing 427 n n 
C08 H10 V0G sing 428 n n 
C14 H11 V0G sing 429 n n 
C18 H12 V0G sing 430 n n 
C18 H13 V0G sing 431 n n 
C19 H14 V0G sing 432 n n 
C19 H15 V0G sing 433 n n 
C23 H16 V0G sing 434 n n 
C23 H17 V0G sing 435 n n 
C23 H18 V0G sing 436 n n 
C25 H19 V0G sing 437 n n 
C29 H20 V0G sing 438 n n 
C30 H21 V0G sing 439 n n 
C34 H22 V0G sing 440 n n 
C37 H23 V0G sing 441 n n 
C38 H24 V0G sing 442 n n 
C39 H25 V0G sing 443 n n 
C40 H26 V0G sing 444 n n 
N06 H27 V0G sing 445 n n 
N10 H28 V0G sing 446 n n 
N16 H29 V0G sing 447 n n 
N35 H31 V0G sing 448 n n 
#
_atom_sites.entry_id                     6XD3 
_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 
#
_pdbx_nonpoly_scheme.asym_id          D 
_pdbx_nonpoly_scheme.entity_id        4 
_pdbx_nonpoly_scheme.mon_id           V0G 
_pdbx_nonpoly_scheme.pdb_strand_id    J 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      401 
_pdbx_nonpoly_scheme.auth_seq_num     401 
_pdbx_nonpoly_scheme.pdb_mon_id       V0G 
_pdbx_nonpoly_scheme.auth_mon_id      LIG 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
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 V0G . . . D 4 119.415 96.922 78.951 1 70.98 ? C13 V0G 401 J 1 
HETATM 2 C C15 V0G . . . D 4 120.455 96.86 76.784 1 70.98 ? C15 V0G 401 J 1 
HETATM 3 C C17 V0G . . . D 4 122.005 98.524 75.716 1 70.98 ? C17 V0G 401 J 1 
HETATM 4 C C20 V0G . . . D 4 124.969 97.265 75.804 1 70.98 ? C20 V0G 401 J 1 
HETATM 5 C C22 V0G . . . D 4 127.355 97.175 75.908 1 70.98 ? C22 V0G 401 J 1 
HETATM 6 C C26 V0G . . . D 4 118.204 96.04 77.07 1 70.98 ? C26 V0G 401 J 1 
HETATM 7 C C28 V0G . . . D 4 115.314 94.82 81.566 1 70.98 ? C28 V0G 401 J 1 
HETATM 8 C C02 V0G . . . D 4 108.218 92.213 81.756 1 70.98 ? C02 V0G 401 J 1 
HETATM 9 C C03 V0G . . . D 4 108.236 92.449 80.391 1 70.98 ? C03 V0G 401 J 1 
HETATM 10 C C05 V0G . . . D 4 110.363 93.296 80.573 1 70.98 ? C05 V0G 401 J 1 
HETATM 11 C C07 V0G . . . D 4 112.811 94.205 80.505 1 70.98 ? C07 V0G 401 J 1 
HETATM 12 C C08 V0G . . . D 4 113.914 94.366 79.672 1 70.98 ? C08 V0G 401 J 1 
HETATM 13 C C09 V0G . . . D 4 115.162 94.668 80.197 1 70.98 ? C09 V0G 401 J 1 
HETATM 14 C C11 V0G . . . D 4 117.061 96.088 79.343 1 70.98 ? C11 V0G 401 J 1 
HETATM 15 C C12 V0G . . . D 4 118.268 96.347 78.42 1 70.98 ? C12 V0G 401 J 1 
HETATM 16 C C14 V0G . . . D 4 120.511 97.175 78.133 1 70.98 ? C14 V0G 401 J 1 
HETATM 17 C C18 V0G . . . D 4 123.199 98.873 74.81 1 70.98 ? C18 V0G 401 J 1 
HETATM 18 C C19 V0G . . . D 4 124.572 98.708 75.472 1 70.98 ? C19 V0G 401 J 1 
HETATM 19 C C23 V0G . . . D 4 126.291 97.412 73.79 1 70.98 ? C23 V0G 401 J 1 
HETATM 20 C C25 V0G . . . D 4 119.302 96.295 76.25 1 70.98 ? C25 V0G 401 J 1 
HETATM 21 C C29 V0G . . . D 4 114.217 94.668 82.404 1 70.98 ? C29 V0G 401 J 1 
HETATM 22 C C30 V0G . . . D 4 112.972 94.365 81.871 1 70.98 ? C30 V0G 401 J 1 
HETATM 23 C C32 V0G . . . D 4 109.329 92.556 82.508 1 70.98 ? C32 V0G 401 J 1 
HETATM 24 C C33 V0G . . . D 4 109.42 92.339 84.022 1 70.98 ? C33 V0G 401 J 1 
HETATM 25 C C34 V0G . . . D 4 108.381 92.295 84.938 1 70.98 ? C34 V0G 401 J 1 
HETATM 26 C C36 V0G . . . D 4 110.258 92.015 86.047 1 70.98 ? C36 V0G 401 J 1 
HETATM 27 C C37 V0G . . . D 4 111.25 91.815 87.04 1 70.98 ? C37 V0G 401 J 1 
HETATM 28 C C38 V0G . . . D 4 112.59 91.772 86.68 1 70.98 ? C38 V0G 401 J 1 
HETATM 29 C C39 V0G . . . D 4 112.964 91.925 85.345 1 70.98 ? C39 V0G 401 J 1 
HETATM 30 C C40 V0G . . . D 4 111.989 92.122 84.374 1 70.98 ? C40 V0G 401 J 1 
HETATM 31 C C41 V0G . . . D 4 110.622 92.167 84.74 1 70.98 ? C41 V0G 401 J 1 
HETATM 32 N N04 V0G . . . D 4 109.313 92.985 79.849 1 70.98 ? N04 V0G 401 J 1 
HETATM 33 N N06 V0G . . . D 4 111.517 93.887 79.893 1 70.98 ? N06 V0G 401 J 1 
HETATM 34 N N10 V0G . . . D 4 116.308 94.834 79.296 1 70.98 ? N10 V0G 401 J 1 
HETATM 35 N N16 V0G . . . D 4 121.606 97.134 75.921 1 70.98 ? N16 V0G 401 J 1 
HETATM 36 N N21 V0G . . . D 4 126.184 96.838 75.121 1 70.98 ? N21 V0G 401 J 1 
HETATM 37 N N31 V0G . . . D 4 110.359 93.083 81.873 1 70.98 ? N31 V0G 401 J 1 
HETATM 38 N N35 V0G . . . D 4 108.899 92.095 86.147 1 70.98 ? N35 V0G 401 J 1 
HETATM 39 O O24 V0G . . . D 4 121.395 99.391 76.238 1 70.98 ? O24 V0G 401 J 1 
HETATM 40 O O27 V0G . . . D 4 116.739 96.942 80.096 1 70.98 ? O27 V0G 401 J 1 
HETATM 41 CL CL01 V0G . . . D 4 106.763 91.494 82.496 1 70.98 ? CL01 V0G 401 J 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           19 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           288 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           41 
#