data_5V5Y # _model_server_result.job_id 4JeaQdb-FtA8u8kmdYSULw _model_server_result.datetime_utc '2024-10-10 23:37:19' _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 5v5y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 5V5Y # _exptl.entry_id 5V5Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 500.595 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-[6-(2-hydroxypropan-2-yl)pyridin-2-yl]-6-{[4-(4-methylpiperazin-1-yl)phenyl]amino}-2-(prop-2-en-1-yl)-1,2-dihydro-3H-pyrazolo[3,4-d]pyrimidin-3-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 90 _cell.entry_id 5V5Y _cell.length_a 50.08 _cell.length_b 63.1 _cell.length_c 82.46 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5V5Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,F,G _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 # _chem_comp.formula 'C27 H32 N8 O2' _chem_comp.formula_weight 500.595 _chem_comp.id 8X7 _chem_comp.mon_nstd_flag . _chem_comp.name 1-[6-(2-hydroxypropan-2-yl)pyridin-2-yl]-6-{[4-(4-methylpiperazin-1-yl)phenyl]amino}-2-(prop-2-en-1-yl)-1,2-dihydro-3H-pyrazolo[3,4-d]pyrimidin-3-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 C01 N02 8X7 sing 1 n n N02 C03 8X7 sing 2 n n N02 C07 8X7 sing 3 n n C03 C04 8X7 sing 4 n n C07 C06 8X7 sing 5 n n C04 N05 8X7 sing 6 n n C06 N05 8X7 sing 7 n n N05 C08 8X7 sing 8 n n C08 C37 8X7 doub 9 n y C08 C09 8X7 sing 10 n y C37 C36 8X7 sing 11 n y C09 C10 8X7 doub 12 n y C36 C11 8X7 doub 13 n y C10 C11 8X7 sing 14 n y C11 N12 8X7 sing 15 n n N12 C13 8X7 sing 16 n n C30 C29 8X7 doub 17 n y C30 C31 8X7 sing 18 n y C29 C28 8X7 sing 19 n y C33 C32 8X7 sing 20 n n C13 N25 8X7 doub 21 n y C13 N14 8X7 sing 22 n y C31 C26 8X7 doub 23 n y N25 C24 8X7 sing 24 n y C28 C32 8X7 sing 25 n n C28 N27 8X7 doub 26 n y O35 C32 8X7 sing 27 n n C32 C34 8X7 sing 28 n n N14 C15 8X7 doub 29 n y C26 N27 8X7 sing 30 n y C26 N23 8X7 sing 31 n n C24 N23 8X7 sing 32 n n C24 C16 8X7 doub 33 n y N23 N19 8X7 sing 34 n n C15 C16 8X7 sing 35 n y C16 C17 8X7 sing 36 n n N19 C17 8X7 sing 37 n n N19 C20 8X7 sing 38 n n C17 O18 8X7 doub 39 n n C20 C21 8X7 sing 40 n n C21 C22 8X7 doub 41 n n C01 H011 8X7 sing 42 n n C01 H013 8X7 sing 43 n n C01 H012 8X7 sing 44 n n C03 H031 8X7 sing 45 n n C03 H032 8X7 sing 46 n n C04 H041 8X7 sing 47 n n C04 H042 8X7 sing 48 n n C06 H061 8X7 sing 49 n n C06 H062 8X7 sing 50 n n C07 H072 8X7 sing 51 n n C07 H071 8X7 sing 52 n n C09 H091 8X7 sing 53 n n C10 H101 8X7 sing 54 n n N12 H121 8X7 sing 55 n n C15 H151 8X7 sing 56 n n C20 H202 8X7 sing 57 n n C20 H201 8X7 sing 58 n n C21 H211 8X7 sing 59 n n C22 H221 8X7 sing 60 n n C22 H222 8X7 sing 61 n n C29 H291 8X7 sing 62 n n C30 H301 8X7 sing 63 n n C31 H311 8X7 sing 64 n n C33 H331 8X7 sing 65 n n C33 H333 8X7 sing 66 n n C33 H332 8X7 sing 67 n n C34 H342 8X7 sing 68 n n C34 H341 8X7 sing 69 n n C34 H343 8X7 sing 70 n n O35 H351 8X7 sing 71 n n C36 H361 8X7 sing 72 n n C37 H371 8X7 sing 73 n n # _atom_sites.entry_id 5V5Y _atom_sites.fract_transf_matrix[1][1] 0.019968 _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] 0.015848 _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] 0.012127 _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 8X7 A 1 601 1 8X7 UNK . C 3 DMS A 1 602 1 DMS DMS . D 3 DMS A 1 603 2 DMS DMS . E 4 EDO A 1 604 1 EDO EDO . F 4 EDO A 1 605 2 EDO EDO . G 5 HOH A 1 701 105 HOH HOH . G 5 HOH A 2 702 34 HOH HOH . G 5 HOH A 3 703 36 HOH HOH . G 5 HOH A 4 704 4 HOH HOH . G 5 HOH A 5 705 49 HOH HOH . G 5 HOH A 6 706 106 HOH HOH . G 5 HOH A 7 707 57 HOH HOH . G 5 HOH A 8 708 65 HOH HOH . G 5 HOH A 9 709 27 HOH HOH . G 5 HOH A 10 710 25 HOH HOH . G 5 HOH A 11 711 24 HOH HOH . G 5 HOH A 12 712 61 HOH HOH . G 5 HOH A 13 713 99 HOH HOH . G 5 HOH A 14 714 50 HOH HOH . G 5 HOH A 15 715 90 HOH HOH . G 5 HOH A 16 716 21 HOH HOH . G 5 HOH A 17 717 96 HOH HOH . G 5 HOH A 18 718 37 HOH HOH . G 5 HOH A 19 719 51 HOH HOH . G 5 HOH A 20 720 22 HOH HOH . G 5 HOH A 21 721 88 HOH HOH . G 5 HOH A 22 722 19 HOH HOH . G 5 HOH A 23 723 8 HOH HOH . G 5 HOH A 24 724 67 HOH HOH . G 5 HOH A 25 725 73 HOH HOH . G 5 HOH A 26 726 2 HOH HOH . G 5 HOH A 27 727 35 HOH HOH . G 5 HOH A 28 728 69 HOH HOH . G 5 HOH A 29 729 18 HOH HOH . G 5 HOH A 30 730 72 HOH HOH . G 5 HOH A 31 731 71 HOH HOH . G 5 HOH A 32 732 63 HOH HOH . G 5 HOH A 33 733 92 HOH HOH . G 5 HOH A 34 734 41 HOH HOH . G 5 HOH A 35 735 6 HOH HOH . G 5 HOH A 36 736 64 HOH HOH . G 5 HOH A 37 737 59 HOH HOH . G 5 HOH A 38 738 81 HOH HOH . G 5 HOH A 39 739 45 HOH HOH . G 5 HOH A 40 740 43 HOH HOH . G 5 HOH A 41 741 15 HOH HOH . G 5 HOH A 42 742 103 HOH HOH . G 5 HOH A 43 743 14 HOH HOH . G 5 HOH A 44 744 48 HOH HOH . G 5 HOH A 45 745 44 HOH HOH . G 5 HOH A 46 746 39 HOH HOH . G 5 HOH A 47 747 47 HOH HOH . G 5 HOH A 48 748 11 HOH HOH . G 5 HOH A 49 749 1 HOH HOH . G 5 HOH A 50 750 12 HOH HOH . G 5 HOH A 51 751 26 HOH HOH . G 5 HOH A 52 752 9 HOH HOH . G 5 HOH A 53 753 5 HOH HOH . G 5 HOH A 54 754 28 HOH HOH . G 5 HOH A 55 755 42 HOH HOH . G 5 HOH A 56 756 7 HOH HOH . G 5 HOH A 57 757 77 HOH HOH . G 5 HOH A 58 758 38 HOH HOH . G 5 HOH A 59 759 52 HOH HOH . G 5 HOH A 60 760 87 HOH HOH . G 5 HOH A 61 761 3 HOH HOH . G 5 HOH A 62 762 10 HOH HOH . G 5 HOH A 63 763 16 HOH HOH . G 5 HOH A 64 764 91 HOH HOH . G 5 HOH A 65 765 85 HOH HOH . G 5 HOH A 66 766 40 HOH HOH . G 5 HOH A 67 767 23 HOH HOH . G 5 HOH A 68 768 31 HOH HOH . G 5 HOH A 69 769 56 HOH HOH . G 5 HOH A 70 770 30 HOH HOH . G 5 HOH A 71 771 33 HOH HOH . G 5 HOH A 72 772 58 HOH HOH . G 5 HOH A 73 773 94 HOH HOH . G 5 HOH A 74 774 83 HOH HOH . G 5 HOH A 75 775 17 HOH HOH . G 5 HOH A 76 776 20 HOH HOH . G 5 HOH A 77 777 82 HOH HOH . G 5 HOH A 78 778 89 HOH HOH . G 5 HOH A 79 779 29 HOH HOH . G 5 HOH A 80 780 55 HOH HOH . G 5 HOH A 81 781 102 HOH HOH . G 5 HOH A 82 782 75 HOH HOH . G 5 HOH A 83 783 84 HOH HOH . G 5 HOH A 84 784 107 HOH HOH . G 5 HOH A 85 785 104 HOH HOH . G 5 HOH A 86 786 46 HOH HOH . G 5 HOH A 87 787 70 HOH HOH . G 5 HOH A 88 788 68 HOH HOH . G 5 HOH A 89 789 74 HOH HOH . G 5 HOH A 90 790 66 HOH HOH . G 5 HOH A 91 791 110 HOH HOH . G 5 HOH A 92 792 97 HOH HOH . G 5 HOH A 93 793 32 HOH HOH . G 5 HOH A 94 794 78 HOH HOH . G 5 HOH A 95 795 101 HOH HOH . G 5 HOH A 96 796 60 HOH HOH . G 5 HOH A 97 797 93 HOH HOH . G 5 HOH A 98 798 100 HOH HOH . G 5 HOH A 99 799 108 HOH HOH . G 5 HOH A 100 800 62 HOH HOH . G 5 HOH A 101 801 54 HOH HOH . G 5 HOH A 102 802 76 HOH HOH . G 5 HOH A 103 803 95 HOH HOH . G 5 HOH A 104 804 86 HOH HOH . G 5 HOH A 105 805 13 HOH HOH . G 5 HOH A 106 806 109 HOH HOH . G 5 HOH A 107 807 80 HOH HOH . G 5 HOH A 108 808 98 HOH HOH . G 5 HOH A 109 809 53 HOH HOH . G 5 HOH A 110 810 79 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 C01 8X7 . . . B 2 24.6 5.73 -14.342 1 25.77 ? C01 8X7 601 A 1 HETATM 2 N N02 8X7 . . . B 2 24.474 5.278 -12.929 1 24.87 ? N02 8X7 601 A 1 HETATM 3 C C03 8X7 . . . B 2 23.116 4.752 -12.635 1 25.27 ? C03 8X7 601 A 1 HETATM 4 C C04 8X7 . . . B 2 22.969 4.09 -11.242 1 23.99 ? C04 8X7 601 A 1 HETATM 5 N N05 8X7 . . . B 2 24.127 3.351 -10.756 1 23.41 ? N05 8X7 601 A 1 HETATM 6 C C06 8X7 . . . B 2 25.426 3.931 -11.061 1 24.24 ? C06 8X7 601 A 1 HETATM 7 C C07 8X7 . . . B 2 25.561 4.336 -12.539 1 25.33 ? C07 8X7 601 A 1 HETATM 8 C C08 8X7 . . . B 2 23.968 2.579 -9.607 1 21.67 ? C08 8X7 601 A 1 HETATM 9 C C09 8X7 . . . B 2 22.876 2.779 -8.725 1 20.38 ? C09 8X7 601 A 1 HETATM 10 C C10 8X7 . . . B 2 22.717 2.009 -7.569 1 20.3 ? C10 8X7 601 A 1 HETATM 11 C C11 8X7 . . . B 2 23.644 0.996 -7.234 1 19.84 ? C11 8X7 601 A 1 HETATM 12 N N12 8X7 . . . B 2 23.581 0.176 -6.137 1 19.5 ? N12 8X7 601 A 1 HETATM 13 C C13 8X7 . . . B 2 22.823 0.327 -5.027 1 19.33 ? C13 8X7 601 A 1 HETATM 14 N N14 8X7 . . . B 2 22.782 -0.688 -4.122 1 19.49 ? N14 8X7 601 A 1 HETATM 15 C C15 8X7 . . . B 2 22.043 -0.621 -2.986 1 19.56 ? C15 8X7 601 A 1 HETATM 16 C C16 8X7 . . . B 2 21.307 0.542 -2.754 1 19.26 ? C16 8X7 601 A 1 HETATM 17 C C17 8X7 . . . B 2 20.443 0.96 -1.714 1 20.53 ? C17 8X7 601 A 1 HETATM 18 O O18 8X7 . . . B 2 20.053 0.399 -0.638 1 20.31 ? O18 8X7 601 A 1 HETATM 19 N N19 8X7 . . . B 2 20.027 2.191 -2.081 1 21.54 ? N19 8X7 601 A 1 HETATM 20 C C20 8X7 . . . B 2 19.186 2.959 -1.217 1 23.55 ? C20 8X7 601 A 1 HETATM 21 C C21 8X7 . . . B 2 20.183 3.777 -0.539 1 24.57 ? C21 8X7 601 A 1 HETATM 22 C C22 8X7 . . . B 2 20.974 3.353 0.466 1 24.54 ? C22 8X7 601 A 1 HETATM 23 N N23 8X7 . . . B 2 20.616 2.592 -3.206 1 21.67 ? N23 8X7 601 A 1 HETATM 24 C C24 8X7 . . . B 2 21.355 1.572 -3.661 1 19.48 ? C24 8X7 601 A 1 HETATM 25 N N25 8X7 . . . B 2 22.104 1.452 -4.778 1 19.15 ? N25 8X7 601 A 1 HETATM 26 C C26 8X7 . . . B 2 20.372 3.693 -3.975 1 22.63 ? C26 8X7 601 A 1 HETATM 27 N N27 8X7 . . . B 2 19.11 4.178 -3.841 1 23.25 ? N27 8X7 601 A 1 HETATM 28 C C28 8X7 . . . B 2 18.558 5.217 -4.519 1 24.37 ? C28 8X7 601 A 1 HETATM 29 C C29 8X7 . . . B 2 19.362 5.817 -5.513 1 23.74 ? C29 8X7 601 A 1 HETATM 30 C C30 8X7 . . . B 2 20.664 5.327 -5.744 1 23.72 ? C30 8X7 601 A 1 HETATM 31 C C31 8X7 . . . B 2 21.175 4.243 -5.003 1 22.78 ? C31 8X7 601 A 1 HETATM 32 C C32 8X7 . . . B 2 17.159 5.646 -4.186 1 26.15 ? C32 8X7 601 A 1 HETATM 33 C C33 8X7 . . . B 2 16.575 6.717 -5.144 1 25.33 ? C33 8X7 601 A 1 HETATM 34 C C34 8X7 . . . B 2 17.08 6.14 -2.717 1 26.15 ? C34 8X7 601 A 1 HETATM 35 O O35 8X7 . . . B 2 16.281 4.523 -4.288 1 27.99 ? O35 8X7 601 A 1 HETATM 36 C C36 8X7 . . . B 2 24.734 0.788 -8.097 1 19.78 ? C36 8X7 601 A 1 HETATM 37 C C37 8X7 . . . B 2 24.89 1.563 -9.253 1 20.78 ? C37 8X7 601 A 1 HETATM 38 H H011 8X7 . . . B 2 23.823 6.282 -14.58 1 30.92 ? H011 8X7 601 A 1 HETATM 39 H H013 8X7 . . . B 2 24.639 4.946 -14.934 1 30.92 ? H013 8X7 601 A 1 HETATM 40 H H012 8X7 . . . B 2 25.422 6.259 -14.444 1 30.92 ? H012 8X7 601 A 1 HETATM 41 H H031 8X7 . . . B 2 22.886 4.086 -13.321 1 30.32 ? H031 8X7 601 A 1 HETATM 42 H H032 8X7 . . . B 2 22.474 5.496 -12.695 1 30.32 ? H032 8X7 601 A 1 HETATM 43 H H041 8X7 . . . B 2 22.206 3.471 -11.277 1 28.79 ? H041 8X7 601 A 1 HETATM 44 H H042 8X7 . . . B 2 22.762 4.796 -10.589 1 28.79 ? H042 8X7 601 A 1 HETATM 45 H H061 8X7 . . . B 2 25.558 4.728 -10.499 1 29.09 ? H061 8X7 601 A 1 HETATM 46 H H062 8X7 . . . B 2 26.125 3.273 -10.847 1 29.09 ? H062 8X7 601 A 1 HETATM 47 H H072 8X7 . . . B 2 26.43 4.772 -12.677 1 30.4 ? H072 8X7 601 A 1 HETATM 48 H H071 8X7 . . . B 2 25.509 3.531 -13.102 1 30.4 ? H071 8X7 601 A 1 HETATM 49 H H091 8X7 . . . B 2 22.217 3.474 -8.931 1 24.46 ? H091 8X7 601 A 1 HETATM 50 H H101 8X7 . . . B 2 21.948 2.17 -6.985 1 24.36 ? H101 8X7 601 A 1 HETATM 51 H H121 8X7 . . . B 2 24.119 -0.568 -6.159 1 23.4 ? H121 8X7 601 A 1 HETATM 52 H H151 8X7 . . . B 2 22.031 -1.363 -2.345 1 23.48 ? H151 8X7 601 A 1 HETATM 53 H H202 8X7 . . . B 2 18.711 2.382 -0.581 1 28.26 ? H202 8X7 601 A 1 HETATM 54 H H201 8X7 . . . B 2 18.561 3.515 -1.733 1 28.26 ? H201 8X7 601 A 1 HETATM 55 H H211 8X7 . . . B 2 20.282 4.705 -0.842 1 29.48 ? H211 8X7 601 A 1 HETATM 56 H H221 8X7 . . . B 2 20.9 2.431 0.792 1 29.45 ? H221 8X7 601 A 1 HETATM 57 H H222 8X7 . . . B 2 21.623 3.966 0.872 1 29.45 ? H222 8X7 601 A 1 HETATM 58 H H291 8X7 . . . B 2 19.022 6.577 -6.033 1 28.49 ? H291 8X7 601 A 1 HETATM 59 H H301 8X7 . . . B 2 21.226 5.752 -6.428 1 28.47 ? H301 8X7 601 A 1 HETATM 60 H H311 8X7 . . . B 2 22.084 3.91 -5.163 1 27.33 ? H311 8X7 601 A 1 HETATM 61 H H331 8X7 . . . B 2 16.546 6.357 -6.059 1 30.39 ? H331 8X7 601 A 1 HETATM 62 H H333 8X7 . . . B 2 17.143 7.52 -5.124 1 30.39 ? H333 8X7 601 A 1 HETATM 63 H H332 8X7 . . . B 2 15.665 6.953 -4.856 1 30.39 ? H332 8X7 601 A 1 HETATM 64 H H342 8X7 . . . B 2 17.762 6.832 -2.567 1 31.38 ? H342 8X7 601 A 1 HETATM 65 H H341 8X7 . . . B 2 17.241 5.386 -2.109 1 31.38 ? H341 8X7 601 A 1 HETATM 66 H H343 8X7 . . . B 2 16.189 6.516 -2.545 1 31.38 ? H343 8X7 601 A 1 HETATM 67 H H351 8X7 . . . B 2 16.017 4.278 -3.473 1 33.59 ? H351 8X7 601 A 1 HETATM 68 H H361 8X7 . . . B 2 25.391 0.09 -7.89 1 23.74 ? H361 8X7 601 A 1 HETATM 69 H H371 8X7 . . . B 2 25.66 1.394 -9.837 1 24.93 ? H371 8X7 601 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 69 #