data_5WF5 # _model_server_result.job_id eg10p5IIvZAnRWhCOS9NOg _model_server_result.datetime_utc '2024-11-07 13:17:22' _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 5wf5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1201}' # _entry.id 5WF5 # _exptl.entry_id 5WF5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 777.871 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 6-(2,2-diphenylethylamino)-9-[(2R,3R,4S,5S)-5-(ethylcarbamoyl)-3,4-dihydroxy-oxolan-2-yl]-N-[2-[(1-pyridin-2-ylpiperidin-4-yl)carbamoylamino]ethyl]purine-2-carboxamide _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 101.05 _cell.angle_gamma 90 _cell.entry_id 5WF5 _cell.length_a 47.686 _cell.length_b 77.769 _cell.length_c 86.488 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WF5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 disulf ? disulf1 A SG CYS 102 A CYS 71 1_555 A SG CYS 190 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 105 A CYS 74 1_555 A SG CYS 177 A CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 108 A CYS 77 1_555 A SG CYS 197 A CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf4 A SG CYS 437 A CYS 259 1_555 A SG CYS 440 A CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? # _chem_comp.formula 'C40 H47 N11 O6' _chem_comp.formula_weight 777.871 _chem_comp.id UKA _chem_comp.mon_nstd_flag . _chem_comp.name 6-(2,2-diphenylethylamino)-9-[(2R,3R,4S,5S)-5-(ethylcarbamoyl)-3,4-dihydroxy-oxolan-2-yl]-N-[2-[(1-pyridin-2-ylpiperidin-4-yl)carbamoylamino]ethyl]purine-2-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 C2 C1 UKA sing 422 n n O3 C1 UKA sing 423 n n C1 C4 UKA sing 424 n n C1 H1 UKA sing 425 n n C4 N1 UKA sing 426 n n C8 N1 UKA sing 427 n y N1 C10 UKA sing 428 n y C3 O1 UKA sing 429 n n O1 C4 UKA sing 430 n n O2 C2 UKA sing 431 n n C3 C2 UKA sing 432 n n C2 H2 UKA sing 433 n n C6 N2 UKA sing 434 n n N2 C5 UKA sing 435 n n N2 HN2 UKA sing 436 n n O2 HO2 UKA sing 437 n n C5 C3 UKA sing 438 n n C3 H3 UKA sing 439 n n C8 N3 UKA doub 440 n y N3 C9 UKA sing 441 n y O3 HO3 UKA sing 442 n n C4 H4 UKA sing 443 n n C12 N4 UKA sing 444 n y C11 N4 UKA doub 445 n y C5 O4 UKA doub 446 n n C10 N5 UKA sing 447 n y N5 C12 UKA doub 448 n y O5 C27 UKA doub 449 n n C7 C6 UKA sing 450 n n C6 H6 UKA sing 451 n n C6 H6A UKA sing 452 n n C11 N6 UKA sing 453 n n N6 C13 UKA sing 454 n n N6 HN6 UKA sing 455 n n O6 C30 UKA doub 456 n n C7 H7 UKA sing 457 n n C7 H7A UKA sing 458 n n C7 H7B UKA sing 459 n n C27 N7 UKA sing 460 n n N7 C28 UKA sing 461 n n N7 HN7 UKA sing 462 n n C8 H8 UKA sing 463 n n C29 N8 UKA sing 464 n n N8 C30 UKA sing 465 n n N8 HN8 UKA sing 466 n n C10 C9 UKA doub 467 n y C9 C11 UKA sing 468 n y C30 N9 UKA sing 469 n n N9 C31 UKA sing 470 n n N9 HN9 UKA sing 471 n n C33 N10 UKA sing 472 n n N10 C40 UKA sing 473 n n N10 C34 UKA sing 474 n n C40 N11 UKA doub 475 n y N11 C39 UKA sing 476 n y C12 C27 UKA sing 477 n n C13 C14 UKA sing 478 n n C13 H13 UKA sing 479 n n C13 H13A UKA sing 480 n n C16 C14 UKA sing 481 n n C14 C15 UKA sing 482 n n C14 H14 UKA sing 483 n n C15 C17 UKA doub 484 n y C15 C21 UKA sing 485 n y C26 C16 UKA doub 486 n y C16 C22 UKA sing 487 n y C17 C18 UKA sing 488 n y C17 H17 UKA sing 489 n n C18 C19 UKA doub 490 n y C18 H18 UKA sing 491 n n C20 C19 UKA sing 492 n y C19 H19 UKA sing 493 n n C21 C20 UKA doub 494 n y C20 H20 UKA sing 495 n n C21 H21 UKA sing 496 n n C23 C22 UKA doub 497 n y C22 H22 UKA sing 498 n n C24 C23 UKA sing 499 n y C23 H23 UKA sing 500 n n C25 C24 UKA doub 501 n y C24 H24 UKA sing 502 n n C25 C26 UKA sing 503 n y C25 H25 UKA sing 504 n n C26 H26 UKA sing 505 n n C28 C29 UKA sing 506 n n C28 H28 UKA sing 507 n n C28 H28A UKA sing 508 n n C29 H29 UKA sing 509 n n C29 H29A UKA sing 510 n n C32 C31 UKA sing 511 n n C31 C35 UKA sing 512 n n C31 H31 UKA sing 513 n n C32 C33 UKA sing 514 n n C32 H32 UKA sing 515 n n C32 H32A UKA sing 516 n n C33 H33 UKA sing 517 n n C33 H33A UKA sing 518 n n C35 C34 UKA sing 519 n n C34 H34 UKA sing 520 n n C34 H34A UKA sing 521 n n C35 H35 UKA sing 522 n n C35 H35A UKA sing 523 n n C36 C37 UKA doub 524 n y C36 C40 UKA sing 525 n y C36 H36 UKA sing 526 n n C37 C38 UKA sing 527 n y C37 H37 UKA sing 528 n n C38 C39 UKA doub 529 n y C38 H38 UKA sing 530 n n C39 H39 UKA sing 531 n n # _atom_sites.entry_id 5WF5 _atom_sites.fract_transf_matrix[1][1] 0.020971 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004096 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012859 _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] 0.011781 _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 UKA A 1 1201 1200 UKA UKA . C 3 OLC A 1 1202 3 OLC OLC . D 3 OLC A 1 1203 4 OLC OLC . E 4 HOH A 1 1301 13 HOH HOH . E 4 HOH A 2 1302 12 HOH HOH . E 4 HOH A 3 1303 11 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 UKA . . . B 2 -21.28 -8.932 6.96 1 65.41 ? C1 UKA 1201 A 1 HETATM 2 N N1 UKA . . . B 2 -20.358 -7.587 8.863 1 69.38 ? N1 UKA 1201 A 1 HETATM 3 O O1 UKA . . . B 2 -19.026 -8.227 7.059 1 71.68 ? O1 UKA 1201 A 1 HETATM 4 C C2 UKA . . . B 2 -21.014 -7.953 5.816 1 69.15 ? C2 UKA 1201 A 1 HETATM 5 N N2 UKA . . . B 2 -18.137 -6.671 4.207 1 62.6 ? N2 UKA 1201 A 1 HETATM 6 O O2 UKA . . . B 2 -21.615 -8.387 4.602 1 75.42 ? O2 UKA 1201 A 1 HETATM 7 C C3 UKA . . . B 2 -19.486 -7.998 5.72 1 69.54 ? C3 UKA 1201 A 1 HETATM 8 N N3 UKA . . . B 2 -20.311 -5.566 9.851 1 69.22 ? N3 UKA 1201 A 1 HETATM 9 O O3 UKA . . . B 2 -21.248 -10.29 6.533 1 80.01 ? O3 UKA 1201 A 1 HETATM 10 C C4 UKA . . . B 2 -20.101 -8.637 7.883 1 68.21 ? C4 UKA 1201 A 1 HETATM 11 N N4 UKA . . . B 2 -21.992 -7.529 12.517 1 70.25 ? N4 UKA 1201 A 1 HETATM 12 O O4 UKA . . . B 2 -19.446 -5.602 5.701 1 69.66 ? O4 UKA 1201 A 1 HETATM 13 C C5 UKA . . . B 2 -19.019 -6.642 5.206 1 71.41 ? C5 UKA 1201 A 1 HETATM 14 N N5 UKA . . . B 2 -21.488 -8.849 10.603 1 62 ? N5 UKA 1201 A 1 HETATM 15 O O5 UKA . . . B 2 -22.682 -10.965 11.776 1 74.59 ? O5 UKA 1201 A 1 HETATM 16 C C6 UKA . . . B 2 -17.583 -5.475 3.575 1 68.31 ? C6 UKA 1201 A 1 HETATM 17 N N6 UKA . . . B 2 -21.364 -5.304 12.743 1 69.41 ? N6 UKA 1201 A 1 HETATM 18 O O6 UKA . . . B 2 -25.544 -10.208 17.095 1 82.9 ? O6 UKA 1201 A 1 HETATM 19 C C7 UKA . . . B 2 -16.844 -5.806 2.319 1 80.84 ? C7 UKA 1201 A 1 HETATM 20 N N7 UKA . . . B 2 -23.343 -9.733 13.541 1 67.88 ? N7 UKA 1201 A 1 HETATM 21 C C8 UKA . . . B 2 -20.002 -6.267 8.787 1 65.43 ? C8 UKA 1201 A 1 HETATM 22 N N8 UKA . . . B 2 -23.411 -9.928 16.415 1 71.38 ? N8 UKA 1201 A 1 HETATM 23 C C9 UKA . . . B 2 -20.916 -6.495 10.687 1 69.49 ? C9 UKA 1201 A 1 HETATM 24 N N9 UKA . . . B 2 -24.284 -8.553 18.001 1 85.59 ? N9 UKA 1201 A 1 HETATM 25 C C10 UKA . . . B 2 -20.965 -7.736 10.087 1 66.94 ? C10 UKA 1201 A 1 HETATM 26 N N10 UKA . . . B 2 -26.547 -5.96 20.473 1 94 ? N10 UKA 1201 A 1 HETATM 27 C C11 UKA . . . B 2 -21.449 -6.414 11.993 1 67.8 ? C11 UKA 1201 A 1 HETATM 28 N N11 UKA . . . B 2 -25.285 -4.387 21.593 1 90.36 ? N11 UKA 1201 A 1 HETATM 29 C C12 UKA . . . B 2 -22.003 -8.677 11.824 1 68.9 ? C12 UKA 1201 A 1 HETATM 30 C C13 UKA . . . B 2 -21.642 -5.276 14.17 1 74.74 ? C13 UKA 1201 A 1 HETATM 31 C C14 UKA . . . B 2 -22.95 -4.552 14.488 1 78.26 ? C14 UKA 1201 A 1 HETATM 32 C C15 UKA . . . B 2 -23.078 -4.15 15.952 1 78 ? C15 UKA 1201 A 1 HETATM 33 C C16 UKA . . . B 2 -24.14 -5.389 14.043 1 76.67 ? C16 UKA 1201 A 1 HETATM 34 C C17 UKA . . . B 2 -22.184 -4.61 16.909 1 88.76 ? C17 UKA 1201 A 1 HETATM 35 C C18 UKA . . . B 2 -22.335 -4.265 18.24 1 82.11 ? C18 UKA 1201 A 1 HETATM 36 C C19 UKA . . . B 2 -23.379 -3.457 18.632 1 73.77 ? C19 UKA 1201 A 1 HETATM 37 C C20 UKA . . . B 2 -24.269 -2.989 17.693 1 90.48 ? C20 UKA 1201 A 1 HETATM 38 C C21 UKA . . . B 2 -24.121 -3.331 16.361 1 82.14 ? C21 UKA 1201 A 1 HETATM 39 C C22 UKA . . . B 2 -24.855 -5.061 12.9 1 64.5 ? C22 UKA 1201 A 1 HETATM 40 C C23 UKA . . . B 2 -25.932 -5.831 12.497 1 70.69 ? C23 UKA 1201 A 1 HETATM 41 C C24 UKA . . . B 2 -26.308 -6.935 13.229 1 74.68 ? C24 UKA 1201 A 1 HETATM 42 C C25 UKA . . . B 2 -25.608 -7.27 14.366 1 82.67 ? C25 UKA 1201 A 1 HETATM 43 C C26 UKA . . . B 2 -24.531 -6.503 14.773 1 75.32 ? C26 UKA 1201 A 1 HETATM 44 C C27 UKA . . . B 2 -22.712 -9.894 12.377 1 70.19 ? C27 UKA 1201 A 1 HETATM 45 C C28 UKA . . . B 2 -24.025 -10.828 14.214 1 79.74 ? C28 UKA 1201 A 1 HETATM 46 C C29 UKA . . . B 2 -23.407 -11.111 15.566 1 75.06 ? C29 UKA 1201 A 1 HETATM 47 C C30 UKA . . . B 2 -24.479 -9.6 17.165 1 77.86 ? C30 UKA 1201 A 1 HETATM 48 C C31 UKA . . . B 2 -25.321 -8.06 18.904 1 92.22 ? C31 UKA 1201 A 1 HETATM 49 C C32 UKA . . . B 2 -24.714 -7.589 20.212 1 91.18 ? C32 UKA 1201 A 1 HETATM 50 C C33 UKA . . . B 2 -25.8 -7.038 21.128 1 84.56 ? C33 UKA 1201 A 1 HETATM 51 C C34 UKA . . . B 2 -27.165 -6.414 19.224 1 88.07 ? C34 UKA 1201 A 1 HETATM 52 C C35 UKA . . . B 2 -26.116 -6.945 18.256 1 87.49 ? C35 UKA 1201 A 1 HETATM 53 C C36 UKA . . . B 2 -26.978 -3.618 20.072 1 91.24 ? C36 UKA 1201 A 1 HETATM 54 C C37 UKA . . . B 2 -26.648 -2.309 20.371 1 94.99 ? C37 UKA 1201 A 1 HETATM 55 C C38 UKA . . . B 2 -25.648 -2.041 21.273 1 93.81 ? C38 UKA 1201 A 1 HETATM 56 C C39 UKA . . . B 2 -24.998 -3.104 21.856 1 91.81 ? C39 UKA 1201 A 1 HETATM 57 C C40 UKA . . . B 2 -26.265 -4.634 20.712 1 96.89 ? C40 UKA 1201 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 341 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 57 #