data_3QAK # _model_server_result.job_id t0FiEEUF1eMhfFWXpCrOlg _model_server_result.datetime_utc '2025-02-22 16:57:45' _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 3qak # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1200}' # _entry.id 3QAK # _exptl.entry_id 3QAK _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 100.54 _cell.angle_gamma 90 _cell.entry_id 3QAK _cell.length_a 47.836 _cell.length_b 78.944 _cell.length_c 86.579 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3QAK _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 86 A CYS 71 1_555 A SG CYS 174 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? disulf ? disulf2 A SG CYS 89 A CYS 74 1_555 A SG CYS 161 A CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 92 A CYS 77 1_555 A SG CYS 181 A CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? disulf ? disulf4 A SG CYS 421 A CYS 259 1_555 A SG CYS 424 A CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? # _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 3QAK _atom_sites.fract_transf_matrix[1][1] 0.020895 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003898 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012671 _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] 0.011755 _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 1200 1200 UKA UKA . C 3 OLC A 1 1201 1201 OLC OLC . D 3 OLC A 1 1202 1202 OLC OLC . E 4 HOH A 1 1203 1203 HOH HOH . E 4 HOH A 2 1204 1204 HOH HOH . E 4 HOH A 3 1205 1205 HOH HOH . E 4 HOH A 4 1207 1207 HOH HOH . E 4 HOH A 5 1208 1208 HOH HOH . E 4 HOH A 6 1209 1209 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 -5.403 -11.128 49.465 1 47.43 ? C1 UKA 1200 A 1 HETATM 2 N N1 UKA . . . B 2 -4.329 -9.927 51.368 1 44.31 ? N1 UKA 1200 A 1 HETATM 3 O O1 UKA . . . B 2 -3.103 -10.716 49.404 1 45.91 ? O1 UKA 1200 A 1 HETATM 4 C C2 UKA . . . B 2 -5.108 -10.23 48.272 1 46.75 ? C2 UKA 1200 A 1 HETATM 5 N N2 UKA . . . B 2 -2.166 -8.962 46.66 1 49.2 ? N2 UKA 1200 A 1 HETATM 6 O O2 UKA . . . B 2 -5.735 -10.642 47.065 1 47.27 ? O2 UKA 1200 A 1 HETATM 7 C C3 UKA . . . B 2 -3.608 -10.308 48.118 1 46.69 ? C3 UKA 1200 A 1 HETATM 8 N N3 UKA . . . B 2 -4.278 -8.013 52.455 1 42.72 ? N3 UKA 1200 A 1 HETATM 9 O O3 UKA . . . B 2 -5.576 -12.503 49.107 1 47.53 ? O3 UKA 1200 A 1 HETATM 10 C C4 UKA . . . B 2 -4.161 -11.001 50.329 1 45.99 ? C4 UKA 1200 A 1 HETATM 11 N N4 UKA . . . B 2 -5.99 -10.02 55.012 1 44.77 ? N4 UKA 1200 A 1 HETATM 12 O O4 UKA . . . B 2 -3.473 -7.97 48.199 1 48.44 ? O4 UKA 1200 A 1 HETATM 13 C C5 UKA . . . B 2 -3.071 -8.983 47.659 1 47.9 ? C5 UKA 1200 A 1 HETATM 14 N N5 UKA . . . B 2 -5.467 -11.213 53.094 1 44.07 ? N5 UKA 1200 A 1 HETATM 15 O O5 UKA . . . B 2 -6.525 -13.478 54.454 1 44.19 ? O5 UKA 1200 A 1 HETATM 16 C C6 UKA . . . B 2 -1.59 -7.719 46.147 1 48.59 ? C6 UKA 1200 A 1 HETATM 17 N N6 UKA . . . B 2 -5.428 -7.797 55.305 1 44.32 ? N6 UKA 1200 A 1 HETATM 18 O O6 UKA . . . B 2 -9.825 -12.732 59.604 1 54.33 ? O6 UKA 1200 A 1 HETATM 19 C C7 UKA . . . B 2 -1.065 -7.806 44.733 1 47.86 ? C7 UKA 1200 A 1 HETATM 20 N N7 UKA . . . B 2 -7.482 -12.049 55.949 1 49.09 ? N7 UKA 1200 A 1 HETATM 21 C C8 UKA . . . B 2 -3.944 -8.643 51.309 1 42.76 ? C8 UKA 1200 A 1 HETATM 22 N N8 UKA . . . B 2 -7.727 -12.511 58.973 1 53.97 ? N8 UKA 1200 A 1 HETATM 23 C C9 UKA . . . B 2 -4.882 -8.926 53.246 1 44.26 ? C9 UKA 1200 A 1 HETATM 24 N N9 UKA . . . B 2 -8.555 -11.337 60.743 1 59.97 ? N9 UKA 1200 A 1 HETATM 25 C C10 UKA . . . B 2 -4.908 -10.116 52.548 1 43.51 ? C10 UKA 1200 A 1 HETATM 26 N N10 UKA . . . B 2 -10.518 -8.749 63.227 1 67.87 ? N10 UKA 1200 A 1 HETATM 27 C C11 UKA . . . B 2 -5.455 -8.894 54.519 1 44.58 ? C11 UKA 1200 A 1 HETATM 28 N N11 UKA . . . B 2 -9.295 -7.063 64.437 1 70.9 ? N11 UKA 1200 A 1 HETATM 29 C C12 UKA . . . B 2 -5.996 -11.17 54.316 1 44.82 ? C12 UKA 1200 A 1 HETATM 30 C C13 UKA . . . B 2 -5.689 -7.924 56.731 1 44.62 ? C13 UKA 1200 A 1 HETATM 31 C C14 UKA . . . B 2 -6.963 -7.198 57.143 1 45.87 ? C14 UKA 1200 A 1 HETATM 32 C C15 UKA . . . B 2 -6.999 -6.93 58.601 1 47.06 ? C15 UKA 1200 A 1 HETATM 33 C C16 UKA . . . B 2 -8.131 -7.959 56.681 1 45.13 ? C16 UKA 1200 A 1 HETATM 34 C C17 UKA . . . B 2 -7.676 -5.806 59.029 1 47.14 ? C17 UKA 1200 A 1 HETATM 35 C C18 UKA . . . B 2 -7.726 -5.492 60.37 1 48.01 ? C18 UKA 1200 A 1 HETATM 36 C C19 UKA . . . B 2 -7.092 -6.289 61.31 1 49.26 ? C19 UKA 1200 A 1 HETATM 37 C C20 UKA . . . B 2 -6.409 -7.417 60.901 1 50.02 ? C20 UKA 1200 A 1 HETATM 38 C C21 UKA . . . B 2 -6.363 -7.738 59.541 1 49.83 ? C21 UKA 1200 A 1 HETATM 39 C C22 UKA . . . B 2 -8.673 -8.983 57.436 1 44.85 ? C22 UKA 1200 A 1 HETATM 40 C C23 UKA . . . B 2 -9.768 -9.685 56.947 1 45.01 ? C23 UKA 1200 A 1 HETATM 41 C C24 UKA . . . B 2 -10.318 -9.356 55.717 1 45.45 ? C24 UKA 1200 A 1 HETATM 42 C C25 UKA . . . B 2 -9.768 -8.318 54.958 1 45.74 ? C25 UKA 1200 A 1 HETATM 43 C C26 UKA . . . B 2 -8.671 -7.624 55.444 1 45.58 ? C26 UKA 1200 A 1 HETATM 44 C C27 UKA . . . B 2 -6.665 -12.361 54.929 1 46.54 ? C27 UKA 1200 A 1 HETATM 45 C C28 UKA . . . B 2 -8.397 -12.959 56.604 1 51.09 ? C28 UKA 1200 A 1 HETATM 46 C C29 UKA . . . B 2 -7.802 -13.478 57.891 1 52.55 ? C29 UKA 1200 A 1 HETATM 47 C C30 UKA . . . B 2 -8.747 -12.219 59.77 1 55.78 ? C30 UKA 1200 A 1 HETATM 48 C C31 UKA . . . B 2 -9.587 -10.934 61.699 1 63.32 ? C31 UKA 1200 A 1 HETATM 49 C C32 UKA . . . B 2 -10.527 -9.893 61.095 1 65.18 ? C32 UKA 1200 A 1 HETATM 50 C C33 UKA . . . B 2 -11.396 -9.191 62.135 1 66.81 ? C33 UKA 1200 A 1 HETATM 51 C C34 UKA . . . B 2 -9.866 -9.83 63.96 1 65.43 ? C34 UKA 1200 A 1 HETATM 52 C C35 UKA . . . B 2 -8.883 -10.401 62.953 1 63.97 ? C35 UKA 1200 A 1 HETATM 53 C C36 UKA . . . B 2 -10.99 -6.331 62.949 1 71.54 ? C36 UKA 1200 A 1 HETATM 54 C C37 UKA . . . B 2 -10.693 -5.003 63.275 1 72.29 ? C37 UKA 1200 A 1 HETATM 55 C C38 UKA . . . B 2 -9.681 -4.734 64.194 1 72.28 ? C38 UKA 1200 A 1 HETATM 56 C C39 UKA . . . B 2 -8.988 -5.801 64.772 1 71.47 ? C39 UKA 1200 A 1 HETATM 57 C C40 UKA . . . B 2 -10.274 -7.381 63.542 1 69.94 ? C40 UKA 1200 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 57 #