data_7GVD
#
_model_server_result.job_id            Ct_vQ05mkEJ9T04Hf7hY0A 
_model_server_result.datetime_utc      '2025-01-09 06:12:37' 
_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          7gvd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":201}' 
#
_entry.id    7GVD 
#
_exptl.entry_id    7GVD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              295.124 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            5-[(5,6-dichloropyrimidin-4-yl)amino]-1,3-dihydro-2H-indol-2-one 
_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         120 
_cell.entry_id            7GVD 
_cell.length_a            67.61 
_cell.length_b            67.61 
_cell.length_c            166.49 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7GVD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        178 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 61 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,G 
_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' 12_545 x,x-y-1,-z+1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 33.805 -58.551978 27.748333 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_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 B C ACE 1 D ACE 0 1_555 B N TRP 2 D TRP 1 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.329 ? 
covale ? covale2 B C ACE 1 D ACE 0 1_555 B N TRP 2 D TRP 1 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.334 ? 
#
_chem_comp.formula           'C12 H8 Cl2 N4 O' 
_chem_comp.formula_weight    295.124 
_chem_comp.id                A1ACL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              5-[(5,6-dichloropyrimidin-4-yl)amino]-1,3-dihydro-2H-indol-2-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
CL C A1ACL sing 1 n n 
N3 C A1ACL doub 2 n y 
N3 C11 A1ACL sing 3 n y 
C C1 A1ACL sing 4 n y 
C11 N2 A1ACL doub 5 n y 
C1 CL1 A1ACL sing 6 n n 
C1 C2 A1ACL doub 7 n y 
N2 C2 A1ACL sing 8 n y 
C2 N A1ACL sing 9 n n 
N C3 A1ACL sing 10 n n 
C3 C4 A1ACL doub 11 n y 
C3 C10 A1ACL sing 12 n y 
C4 C5 A1ACL sing 13 n y 
C10 C9 A1ACL doub 14 n y 
C5 C6 A1ACL doub 15 n y 
C9 C6 A1ACL sing 16 n y 
C9 C8 A1ACL sing 17 n n 
C6 N1 A1ACL sing 18 n n 
C8 C7 A1ACL sing 19 n n 
N1 C7 A1ACL sing 20 n n 
C7 O A1ACL doub 21 n n 
N1 H1 A1ACL sing 22 n n 
C4 H2 A1ACL sing 23 n n 
C5 H3 A1ACL sing 24 n n 
C8 H4 A1ACL sing 25 n n 
C8 H5 A1ACL sing 26 n n 
C10 H6 A1ACL sing 27 n n 
C11 H7 A1ACL sing 28 n n 
N H8 A1ACL sing 29 n n 
#
_atom_sites.entry_id                     7GVD 
_atom_sites.fract_transf_matrix[1][1]    0.014791 
_atom_sites.fract_transf_matrix[1][2]    0.008539 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017079 
_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]    0.006006 
_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 3 A1ACL A 1 201 1 A1ACL 764 . 
D 4 CL A 1 202 1 CL CL . 
E 5 DMS D 1 101 1 DMS DMS . 
F 6 HOH A 1 301 168 HOH HOH . 
F 6 HOH A 2 302 85 HOH HOH . 
F 6 HOH A 3 303 162 HOH HOH . 
F 6 HOH A 4 304 36 HOH HOH . 
F 6 HOH A 5 305 91 HOH HOH . 
F 6 HOH A 6 306 93 HOH HOH . 
F 6 HOH A 7 307 29 HOH HOH . 
F 6 HOH A 8 308 103 HOH HOH . 
F 6 HOH A 9 309 86 HOH HOH . 
F 6 HOH A 10 310 167 HOH HOH . 
F 6 HOH A 11 311 161 HOH HOH . 
F 6 HOH A 12 312 114 HOH HOH . 
F 6 HOH A 13 313 28 HOH HOH . 
F 6 HOH A 14 314 59 HOH HOH . 
F 6 HOH A 15 315 185 HOH HOH . 
F 6 HOH A 16 316 163 HOH HOH . 
F 6 HOH A 17 317 32 HOH HOH . 
F 6 HOH A 18 318 95 HOH HOH . 
F 6 HOH A 19 319 40 HOH HOH . 
F 6 HOH A 20 320 189 HOH HOH . 
F 6 HOH A 21 321 174 HOH HOH . 
F 6 HOH A 22 322 75 HOH HOH . 
F 6 HOH A 23 323 98 HOH HOH . 
F 6 HOH A 24 324 10 HOH HOH . 
F 6 HOH A 25 325 88 HOH HOH . 
F 6 HOH A 26 326 213 HOH HOH . 
F 6 HOH A 27 327 21 HOH HOH . 
F 6 HOH A 28 328 207 HOH HOH . 
F 6 HOH A 29 329 145 HOH HOH . 
F 6 HOH A 30 330 46 HOH HOH . 
F 6 HOH A 31 331 195 HOH HOH . 
F 6 HOH A 32 332 101 HOH HOH . 
F 6 HOH A 33 333 126 HOH HOH . 
F 6 HOH A 34 334 186 HOH HOH . 
F 6 HOH A 35 335 177 HOH HOH . 
F 6 HOH A 36 336 94 HOH HOH . 
F 6 HOH A 37 337 60 HOH HOH . 
F 6 HOH A 38 338 119 HOH HOH . 
F 6 HOH A 39 339 7 HOH HOH . 
F 6 HOH A 40 340 26 HOH HOH . 
F 6 HOH A 41 341 99 HOH HOH . 
F 6 HOH A 42 342 20 HOH HOH . 
F 6 HOH A 43 343 218 HOH HOH . 
F 6 HOH A 44 344 127 HOH HOH . 
F 6 HOH A 45 345 122 HOH HOH . 
F 6 HOH A 46 346 77 HOH HOH . 
F 6 HOH A 47 347 8 HOH HOH . 
F 6 HOH A 48 348 200 HOH HOH . 
F 6 HOH A 49 349 169 HOH HOH . 
F 6 HOH A 50 350 23 HOH HOH . 
F 6 HOH A 51 351 3 HOH HOH . 
F 6 HOH A 52 352 211 HOH HOH . 
F 6 HOH A 53 353 84 HOH HOH . 
F 6 HOH A 54 354 117 HOH HOH . 
F 6 HOH A 55 355 172 HOH HOH . 
F 6 HOH A 56 356 6 HOH HOH . 
F 6 HOH A 57 357 107 HOH HOH . 
F 6 HOH A 58 358 116 HOH HOH . 
F 6 HOH A 59 359 89 HOH HOH . 
F 6 HOH A 60 360 71 HOH HOH . 
F 6 HOH A 61 361 22 HOH HOH . 
F 6 HOH A 62 362 92 HOH HOH . 
F 6 HOH A 63 363 15 HOH HOH . 
F 6 HOH A 64 364 165 HOH HOH . 
F 6 HOH A 65 365 57 HOH HOH . 
F 6 HOH A 66 366 90 HOH HOH . 
F 6 HOH A 67 367 11 HOH HOH . 
F 6 HOH A 68 368 180 HOH HOH . 
F 6 HOH A 69 369 105 HOH HOH . 
F 6 HOH A 70 370 78 HOH HOH . 
F 6 HOH A 71 371 175 HOH HOH . 
F 6 HOH A 72 372 146 HOH HOH . 
F 6 HOH A 73 373 170 HOH HOH . 
F 6 HOH A 74 374 14 HOH HOH . 
F 6 HOH A 75 375 61 HOH HOH . 
F 6 HOH A 76 376 43 HOH HOH . 
F 6 HOH A 77 377 142 HOH HOH . 
F 6 HOH A 78 378 164 HOH HOH . 
F 6 HOH A 79 379 74 HOH HOH . 
F 6 HOH A 80 380 204 HOH HOH . 
F 6 HOH A 81 381 214 HOH HOH . 
F 6 HOH A 82 382 63 HOH HOH . 
F 6 HOH A 83 383 108 HOH HOH . 
F 6 HOH A 84 384 136 HOH HOH . 
F 6 HOH A 85 385 66 HOH HOH . 
F 6 HOH A 86 386 24 HOH HOH . 
F 6 HOH A 87 387 102 HOH HOH . 
F 6 HOH A 88 388 49 HOH HOH . 
F 6 HOH A 89 389 47 HOH HOH . 
F 6 HOH A 90 390 72 HOH HOH . 
F 6 HOH A 91 391 17 HOH HOH . 
F 6 HOH A 92 392 39 HOH HOH . 
F 6 HOH A 93 393 187 HOH HOH . 
F 6 HOH A 94 394 176 HOH HOH . 
F 6 HOH A 95 395 33 HOH HOH . 
F 6 HOH A 96 396 45 HOH HOH . 
F 6 HOH A 97 397 68 HOH HOH . 
F 6 HOH A 98 398 184 HOH HOH . 
F 6 HOH A 99 399 166 HOH HOH . 
F 6 HOH A 100 400 212 HOH HOH . 
F 6 HOH A 101 401 210 HOH HOH . 
F 6 HOH A 102 402 30 HOH HOH . 
F 6 HOH A 103 403 37 HOH HOH . 
F 6 HOH A 104 404 215 HOH HOH . 
F 6 HOH A 105 405 158 HOH HOH . 
F 6 HOH A 106 406 219 HOH HOH . 
F 6 HOH A 107 407 34 HOH HOH . 
F 6 HOH A 108 408 196 HOH HOH . 
F 6 HOH A 109 409 159 HOH HOH . 
F 6 HOH A 110 410 62 HOH HOH . 
F 6 HOH A 111 411 132 HOH HOH . 
F 6 HOH A 112 412 67 HOH HOH . 
F 6 HOH A 113 413 19 HOH HOH . 
F 6 HOH A 114 414 50 HOH HOH . 
F 6 HOH A 115 415 115 HOH HOH . 
F 6 HOH A 116 416 199 HOH HOH . 
F 6 HOH A 117 417 41 HOH HOH . 
F 6 HOH A 118 418 51 HOH HOH . 
F 6 HOH A 119 419 140 HOH HOH . 
F 6 HOH A 120 420 80 HOH HOH . 
F 6 HOH A 121 421 141 HOH HOH . 
F 6 HOH A 122 422 124 HOH HOH . 
F 6 HOH A 123 423 104 HOH HOH . 
F 6 HOH A 124 424 58 HOH HOH . 
F 6 HOH A 125 425 194 HOH HOH . 
F 6 HOH A 126 426 38 HOH HOH . 
F 6 HOH A 127 427 106 HOH HOH . 
F 6 HOH A 128 428 131 HOH HOH . 
F 6 HOH A 129 429 202 HOH HOH . 
F 6 HOH A 130 430 123 HOH HOH . 
F 6 HOH A 131 431 216 HOH HOH . 
F 6 HOH A 132 432 54 HOH HOH . 
F 6 HOH A 133 433 69 HOH HOH . 
F 6 HOH A 134 434 138 HOH HOH . 
F 6 HOH A 135 435 152 HOH HOH . 
F 6 HOH A 136 436 53 HOH HOH . 
F 6 HOH A 137 437 205 HOH HOH . 
F 6 HOH A 138 438 137 HOH HOH . 
F 6 HOH A 139 439 109 HOH HOH . 
F 6 HOH A 140 440 83 HOH HOH . 
F 6 HOH A 141 441 118 HOH HOH . 
F 6 HOH A 142 442 113 HOH HOH . 
F 6 HOH A 143 443 139 HOH HOH . 
F 6 HOH A 144 444 208 HOH HOH . 
F 6 HOH A 145 445 188 HOH HOH . 
F 6 HOH A 146 446 203 HOH HOH . 
F 6 HOH A 147 447 128 HOH HOH . 
F 6 HOH A 148 448 56 HOH HOH . 
F 6 HOH A 149 449 178 HOH HOH . 
F 6 HOH A 150 450 35 HOH HOH . 
F 6 HOH A 151 451 179 HOH HOH . 
F 6 HOH A 152 452 120 HOH HOH . 
G 6 HOH D 1 201 112 HOH HOH . 
G 6 HOH D 2 202 82 HOH HOH . 
G 6 HOH D 3 203 44 HOH HOH . 
G 6 HOH D 4 204 42 HOH HOH . 
G 6 HOH D 5 205 48 HOH HOH . 
G 6 HOH D 6 206 217 HOH HOH . 
G 6 HOH D 7 207 153 HOH HOH . 
G 6 HOH D 8 208 52 HOH HOH . 
G 6 HOH D 9 209 97 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 A1ACL . . . C 3 27.345 -10.322 13.273 1 27.97 ? C1 A1ACL 201 A 1 
HETATM 2 N N1 A1ACL . . . C 3 22.405 -9.414 19.2 1 32.75 ? N1 A1ACL 201 A 1 
HETATM 3 C C2 A1ACL . . . C 3 26.261 -10.054 14.131 1 29.06 ? C2 A1ACL 201 A 1 
HETATM 4 N N2 A1ACL . . . C 3 25.124 -9.479 13.678 1 31.81 ? N2 A1ACL 201 A 1 
HETATM 5 C C3 A1ACL . . . C 3 25.512 -10.003 16.512 1 29.47 ? C3 A1ACL 201 A 1 
HETATM 6 N N3 A1ACL . . . C 3 26.048 -9.38 11.473 1 33.76 ? N3 A1ACL 201 A 1 
HETATM 7 C C4 A1ACL . . . C 3 24.94 -8.726 16.548 1 31.06 ? C4 A1ACL 201 A 1 
HETATM 8 C C5 A1ACL . . . C 3 23.896 -8.438 17.418 1 32.59 ? C5 A1ACL 201 A 1 
HETATM 9 C C6 A1ACL . . . C 3 23.439 -9.446 18.262 1 32.29 ? C6 A1ACL 201 A 1 
HETATM 10 C C7 A1ACL . . . C 3 22.211 -10.631 19.777 1 35.19 ? C7 A1ACL 201 A 1 
HETATM 11 C C8 A1ACL . . . C 3 23.218 -11.588 19.176 1 32.92 ? C8 A1ACL 201 A 1 
HETATM 12 C C9 A1ACL . . . C 3 23.995 -10.721 18.233 1 31.23 ? C9 A1ACL 201 A 1 
HETATM 13 C C10 A1ACL . . . C 3 25.044 -11 17.367 1 29.52 ? C10 A1ACL 201 A 1 
HETATM 14 C C11 A1ACL . . . C 3 25.093 -9.191 12.379 1 30.96 ? C11 A1ACL 201 A 1 
HETATM 15 O O A1ACL . . . C 3 21.362 -10.89 20.624 1 37.62 ? O A1ACL 201 A 1 
HETATM 16 N N A1ACL . . . C 3 26.3 -10.442 15.432 1 26.96 ? N A1ACL 201 A 1 
HETATM 17 CL CL1 A1ACL . . . C 3 28.798 -11.08 13.796 0.88 25.57 ? CL1 A1ACL 201 A 1 
HETATM 18 C C A1ACL . . . C 3 27.159 -9.922 11.928 1 30.9 ? C A1ACL 201 A 1 
HETATM 19 CL CL A1ACL . . . C 3 28.458 -10.008 10.797 0.14 31.87 ? CL A1ACL 201 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           327 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           19 
#