data_6VNC
#
_model_server_result.job_id            v4jKJQS1f4P2zS5sAGk6sA 
_model_server_result.datetime_utc      '2024-10-14 18:30:12' 
_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          6vnc 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1201}' 
#
_entry.id    6VNC 
#
_exptl.entry_id    6VNC 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              480.607 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (3R)-3-cyclopentyl-3-[4-(2-{[4-(piperidin-4-yl)phenyl]amino}-7H-pyrrolo[2,3-d]pyrimidin-4-yl)-1H-pyrazol-1-yl]propanenitrile 
_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            6VNC 
_cell.length_a            112.68 
_cell.length_b            112.68 
_cell.length_c            70.257 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6VNC 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        76 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41' 
#
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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 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,C,E 1 1 
B,D,F 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
? 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
covale ? covale1 A C GLU 182 B GLU 1006 1_555 A N PTR 183 B PTR 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale2 A C PTR 183 B PTR 1007 1_555 A N TYR 184 B TYR 1008 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale3 B C GLU 182 A GLU 1006 1_555 B N PTR 183 A PTR 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale4 B C PTR 183 A PTR 1007 1_555 B N TYR 184 A TYR 1008 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
#
_chem_comp.formula           'C28 H32 N8' 
_chem_comp.formula_weight    480.607 
_chem_comp.id                R6V 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (3R)-3-cyclopentyl-3-[4-(2-{[4-(piperidin-4-yl)phenyl]amino}-7H-pyrrolo[2,3-d]pyrimidin-4-yl)-1H-pyrazol-1-yl]propanenitrile 
_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
C07 C08 R6V sing 306 n n 
C07 C06 R6V sing 307 n n 
C08 C09 R6V sing 308 n n 
C06 C05 R6V sing 309 n n 
C09 C05 R6V sing 310 n n 
C05 C04 R6V sing 311 n n 
C04 C03 R6V sing 312 n n 
C04 N10 R6V sing 313 n n 
N11 N10 R6V sing 314 n y 
N11 C12 R6V doub 315 n y 
C03 C02 R6V sing 316 n n 
N10 C13 R6V sing 317 n y 
C12 C14 R6V sing 318 n y 
C13 C14 R6V doub 319 n y 
C27 C28 R6V sing 320 n n 
C27 N26 R6V sing 321 n n 
C14 C15 R6V sing 322 n n 
C02 N01 R6V trip 323 n n 
C28 C23 R6V sing 324 n n 
N26 C25 R6V sing 325 n n 
C29 C30 R6V doub 326 n y 
C29 C22 R6V sing 327 n y 
C23 C22 R6V sing 328 n n 
C23 C24 R6V sing 329 n n 
C15 N16 R6V doub 330 n y 
C15 C33 R6V sing 331 n y 
C30 C19 R6V sing 332 n y 
C22 C21 R6V doub 333 n y 
N16 C17 R6V sing 334 n y 
C34 C33 R6V sing 335 n y 
C34 C35 R6V doub 336 n y 
C33 C32 R6V doub 337 n y 
C25 C24 R6V sing 338 n n 
C19 N18 R6V sing 339 n n 
C19 C20 R6V doub 340 n y 
C35 N36 R6V sing 341 n y 
C17 N18 R6V sing 342 n n 
C17 N31 R6V doub 343 n y 
C21 C20 R6V sing 344 n y 
C32 N31 R6V sing 345 n y 
C32 N36 R6V sing 346 n y 
C13 H1 R6V sing 347 n n 
C20 H2 R6V sing 348 n n 
C21 H3 R6V sing 349 n n 
C24 H4 R6V sing 350 n n 
C24 H5 R6V sing 351 n n 
C28 H6 R6V sing 352 n n 
C28 H7 R6V sing 353 n n 
C03 H8 R6V sing 354 n n 
C03 H9 R6V sing 355 n n 
C04 H10 R6V sing 356 n n 
C05 H11 R6V sing 357 n n 
C06 H12 R6V sing 358 n n 
C06 H13 R6V sing 359 n n 
C07 H14 R6V sing 360 n n 
C07 H15 R6V sing 361 n n 
C08 H16 R6V sing 362 n n 
C08 H17 R6V sing 363 n n 
C09 H18 R6V sing 364 n n 
C09 H19 R6V sing 365 n n 
C12 H20 R6V sing 366 n n 
C23 H21 R6V sing 367 n n 
C25 H22 R6V sing 368 n n 
C25 H23 R6V sing 369 n n 
C27 H24 R6V sing 370 n n 
C27 H25 R6V sing 371 n n 
C29 H26 R6V sing 372 n n 
C30 H27 R6V sing 373 n n 
C34 H28 R6V sing 374 n n 
C35 H29 R6V sing 375 n n 
N18 H30 R6V sing 376 n n 
N26 H31 R6V sing 377 n n 
N36 H33 R6V sing 378 n n 
#
_atom_sites.entry_id                     6VNC 
_atom_sites.fract_transf_matrix[1][1]    0.008875 
_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]    0.008875 
_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]    0.014233 
_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 R6V B 1 1201 2 R6V LIG . 
D 2 R6V A 1 1201 1 R6V LIG . 
E 3 HOH B 1 1301 15 HOH HOH . 
E 3 HOH B 2 1302 2 HOH HOH . 
E 3 HOH B 3 1303 23 HOH HOH . 
E 3 HOH B 4 1304 19 HOH HOH . 
E 3 HOH B 5 1305 32 HOH HOH . 
E 3 HOH B 6 1306 42 HOH HOH . 
E 3 HOH B 7 1307 20 HOH HOH . 
E 3 HOH B 8 1308 4 HOH HOH . 
E 3 HOH B 9 1309 34 HOH HOH . 
E 3 HOH B 10 1310 35 HOH HOH . 
E 3 HOH B 11 1311 24 HOH HOH . 
E 3 HOH B 12 1312 10 HOH HOH . 
E 3 HOH B 13 1313 14 HOH HOH . 
E 3 HOH B 14 1314 11 HOH HOH . 
E 3 HOH B 15 1315 22 HOH HOH . 
E 3 HOH B 16 1316 7 HOH HOH . 
E 3 HOH B 17 1317 17 HOH HOH . 
E 3 HOH B 18 1318 36 HOH HOH . 
E 3 HOH B 19 1319 31 HOH HOH . 
E 3 HOH B 20 1320 37 HOH HOH . 
E 3 HOH B 21 1321 33 HOH HOH . 
E 3 HOH B 22 1322 12 HOH HOH . 
E 3 HOH B 23 1323 8 HOH HOH . 
E 3 HOH B 24 1324 40 HOH HOH . 
E 3 HOH B 25 1325 27 HOH HOH . 
F 3 HOH A 1 1301 6 HOH HOH . 
F 3 HOH A 2 1302 38 HOH HOH . 
F 3 HOH A 3 1303 43 HOH HOH . 
F 3 HOH A 4 1304 16 HOH HOH . 
F 3 HOH A 5 1305 28 HOH HOH . 
F 3 HOH A 6 1306 3 HOH HOH . 
F 3 HOH A 7 1307 5 HOH HOH . 
F 3 HOH A 8 1308 26 HOH HOH . 
F 3 HOH A 9 1309 1 HOH HOH . 
F 3 HOH A 10 1310 18 HOH HOH . 
F 3 HOH A 11 1311 9 HOH HOH . 
F 3 HOH A 12 1312 25 HOH HOH . 
F 3 HOH A 13 1313 21 HOH HOH . 
F 3 HOH A 14 1314 30 HOH HOH . 
F 3 HOH A 15 1315 13 HOH HOH . 
F 3 HOH A 16 1316 41 HOH HOH . 
F 3 HOH A 17 1317 29 HOH HOH . 
F 3 HOH A 18 1318 39 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 R6V . . . D 2 32.001 -1.626 11.409 1 55.68 ? C13 R6V 1201 A 1 
HETATM 2 C C15 R6V . . . D 2 33.362 0.109 12.912 1 49.51 ? C15 R6V 1201 A 1 
HETATM 3 C C17 R6V . . . D 2 34.868 1.232 14.274 1 47.61 ? C17 R6V 1201 A 1 
HETATM 4 C C20 R6V . . . D 2 38.658 1.142 14.775 1 63.93 ? C20 R6V 1201 A 1 
HETATM 5 C C21 R6V . . . D 2 39.829 0.547 14.329 1 65.4 ? C21 R6V 1201 A 1 
HETATM 6 C C22 R6V . . . D 2 39.784 -0.392 13.317 1 62.21 ? C22 R6V 1201 A 1 
HETATM 7 C C24 R6V . . . D 2 41.841 -1.6 13.972 1 55.54 ? C24 R6V 1201 A 1 
HETATM 8 C C28 R6V . . . D 2 41.83 -0.069 12.055 1 81.51 ? C28 R6V 1201 A 1 
HETATM 9 C C02 R6V . . . D 2 31.337 -4.665 11.875 1 48.9 ? C02 R6V 1201 A 1 
HETATM 10 C C03 R6V . . . D 2 31.529 -4.73 10.368 1 55.77 ? C03 R6V 1201 A 1 
HETATM 11 C C04 R6V . . . D 2 31.439 -3.343 9.741 1 57.19 ? C04 R6V 1201 A 1 
HETATM 12 C C05 R6V . . . D 2 31.815 -3.405 8.252 1 49.97 ? C05 R6V 1201 A 1 
HETATM 13 C C06 R6V . . . D 2 31.165 -2.076 7.508 1 61.89 ? C06 R6V 1201 A 1 
HETATM 14 C C07 R6V . . . D 2 30.546 -2.503 6.369 1 73.41 ? C07 R6V 1201 A 1 
HETATM 15 C C08 R6V . . . D 2 30.15 -4.018 6.643 1 47.44 ? C08 R6V 1201 A 1 
HETATM 16 C C09 R6V . . . D 2 31.248 -4.516 7.685 1 62.44 ? C09 R6V 1201 A 1 
HETATM 17 C C12 R6V . . . D 2 34.185 -1.509 11.048 1 60.37 ? C12 R6V 1201 A 1 
HETATM 18 C C14 R6V . . . D 2 33.165 -0.958 11.83 1 52.32 ? C14 R6V 1201 A 1 
HETATM 19 C C19 R6V . . . D 2 37.435 0.796 14.219 1 60.56 ? C19 R6V 1201 A 1 
HETATM 20 C C23 R6V . . . D 2 41.063 -1.07 12.828 1 50.33 ? C23 R6V 1201 A 1 
HETATM 21 C C25 R6V . . . D 2 43.185 -2.18 13.529 1 72.95 ? C25 R6V 1201 A 1 
HETATM 22 C C27 R6V . . . D 2 43.147 -0.674 11.577 1 99.17 ? C27 R6V 1201 A 1 
HETATM 23 C C29 R6V . . . D 2 38.566 -0.739 12.759 1 54.34 ? C29 R6V 1201 A 1 
HETATM 24 C C30 R6V . . . D 2 37.401 -0.149 13.206 1 53.35 ? C30 R6V 1201 A 1 
HETATM 25 C C32 R6V . . . D 2 32.619 1.775 14.455 1 55.38 ? C32 R6V 1201 A 1 
HETATM 26 C C33 R6V . . . D 2 32.301 0.848 13.489 1 50.03 ? C33 R6V 1201 A 1 
HETATM 27 C C34 R6V . . . D 2 30.898 0.927 13.341 1 57.9 ? C34 R6V 1201 A 1 
HETATM 28 C C35 R6V . . . D 2 30.428 1.893 14.223 1 58.62 ? C35 R6V 1201 A 1 
HETATM 29 N N01 R6V . . . D 2 31.072 -4.631 12.97 1 54.74 ? N01 R6V 1201 A 1 
HETATM 30 N N10 R6V . . . D 2 32.342 -2.472 10.461 1 49.02 ? N10 R6V 1201 A 1 
HETATM 31 N N11 R6V . . . D 2 33.653 -2.417 10.237 1 56.49 ? N11 R6V 1201 A 1 
HETATM 32 N N16 R6V . . . D 2 34.595 0.334 13.338 1 49.93 ? N16 R6V 1201 A 1 
HETATM 33 N N18 R6V . . . D 2 36.236 1.462 14.724 1 47.03 ? N18 R6V 1201 A 1 
HETATM 34 N N26 R6V . . . D 2 43.955 -1.228 12.694 1 96.01 ? N26 R6V 1201 A 1 
HETATM 35 N N31 R6V . . . D 2 33.914 1.945 14.826 1 48.39 ? N31 R6V 1201 A 1 
HETATM 36 N N36 R6V . . . D 2 31.468 2.385 14.881 1 57.38 ? N36 R6V 1201 A 1 
#
_model_server_stats.io_time_ms              63 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           358 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           36 
#