data_1Z5M # _model_server_result.job_id -wam3dZDxNWXUTIDPrLVHQ _model_server_result.datetime_utc '2025-02-05 04:10:41' _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 1z5m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":501}' # _entry.id 1Z5M # _exptl.entry_id 1Z5M _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 547.448 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-(3-{[5-BROMO-2-({3-[(PYRROLIDIN-1-YLCARBONYL)AMINO]PHENYL}AMINO)PYRIMIDIN-4-YL]AMINO}PROPYL)-2,2-DIMETHYLMALONAMIDE _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 1Z5M _cell.length_a 124.61 _cell.length_b 124.61 _cell.length_c 46.97 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Z5M _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id C _struct_conn.ptnr1_label_comp_id SEP _struct_conn.ptnr1_label_seq_id 168 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id SEP _struct_conn.ptnr1_auth_seq_id 241 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id N _struct_conn.ptnr2_label_comp_id PHE _struct_conn.ptnr2_label_seq_id 169 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id PHE _struct_conn.ptnr2_auth_seq_id 242 _struct_conn.ptnr2_symmetry 1_555 _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 1.327 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C23 H31 Br N8 O3' _chem_comp.formula_weight 547.448 _chem_comp.id LI8 _chem_comp.mon_nstd_flag . _chem_comp.name N-(3-{[5-BROMO-2-({3-[(PYRROLIDIN-1-YLCARBONYL)AMINO]PHENYL}AMINO)PYRIMIDIN-4-YL]AMINO}PROPYL)-2,2-DIMETHYLMALONAMIDE _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 C1 C2 LI8 doub 207 n y C1 C6 LI8 sing 208 n y C1 BR7 LI8 sing 209 n n C2 N3 LI8 sing 210 n y C2 N25 LI8 sing 211 n n N3 C4 LI8 doub 212 n y C4 N5 LI8 sing 213 n y C4 N8 LI8 sing 214 n n N5 C6 LI8 doub 215 n y C6 H6 LI8 sing 216 n n N8 C10 LI8 sing 217 n n N8 HN8 LI8 sing 218 n n C10 C11 LI8 doub 219 n y C10 C15 LI8 sing 220 n y C11 C12 LI8 sing 221 n y C11 H11 LI8 sing 222 n n C12 C13 LI8 doub 223 n y C12 N16 LI8 sing 224 n n C13 C14 LI8 sing 225 n y C13 H13 LI8 sing 226 n n C14 C15 LI8 doub 227 n y C14 H14 LI8 sing 228 n n C15 H15 LI8 sing 229 n n N16 C18 LI8 sing 230 n n N16 H16 LI8 sing 231 n n C18 O19 LI8 doub 232 n n C18 N20 LI8 sing 233 n n N20 C21 LI8 sing 234 n n N20 C24 LI8 sing 235 n n C21 C22 LI8 sing 236 n n C21 H211 LI8 sing 237 n n C21 H212 LI8 sing 238 n n C22 C23 LI8 sing 239 n n C22 H221 LI8 sing 240 n n C22 H222 LI8 sing 241 n n C23 C24 LI8 sing 242 n n C23 H231 LI8 sing 243 n n C23 H232 LI8 sing 244 n n C24 H241 LI8 sing 245 n n C24 H242 LI8 sing 246 n n N25 C27 LI8 sing 247 n n N25 H25 LI8 sing 248 n n C27 C28 LI8 sing 249 n n C27 H271 LI8 sing 250 n n C27 H272 LI8 sing 251 n n C28 C33 LI8 sing 252 n n C28 H281 LI8 sing 253 n n C28 H282 LI8 sing 254 n n N29 C31 LI8 sing 255 n n N29 C33 LI8 sing 256 n n N29 H29 LI8 sing 257 n n C31 O32 LI8 doub 258 n n C31 C34 LI8 sing 259 n n C33 H331 LI8 sing 260 n n C33 H332 LI8 sing 261 n n C34 C35 LI8 sing 262 n n C34 C36 LI8 sing 263 n n C34 C37 LI8 sing 264 n n C35 H351 LI8 sing 265 n n C35 H352 LI8 sing 266 n n C35 H353 LI8 sing 267 n n C36 H361 LI8 sing 268 n n C36 H362 LI8 sing 269 n n C36 H363 LI8 sing 270 n n C37 O38 LI8 doub 271 n n C37 N39 LI8 sing 272 n n N39 H391 LI8 sing 273 n n N39 H392 LI8 sing 274 n n # _atom_sites.entry_id 1Z5M _atom_sites.fract_transf_matrix[1][1] 0.008025 _atom_sites.fract_transf_matrix[1][2] 0.004633 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009267 _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] 0.02129 _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 SO4 A 1 600 600 SO4 SO4 . C 3 CL A 1 698 698 CL CL . D 4 LI8 A 1 501 501 LI8 320 . E 5 GOL A 1 602 602 GOL GOL . F 5 GOL A 1 606 606 GOL GOL . G 5 GOL A 1 607 607 GOL GOL . H 6 HOH A 1 701 701 HOH HOH . H 6 HOH A 2 702 702 HOH HOH . H 6 HOH A 3 703 703 HOH HOH . H 6 HOH A 4 704 704 HOH HOH . H 6 HOH A 5 705 705 HOH HOH . H 6 HOH A 6 706 706 HOH HOH . H 6 HOH A 7 707 707 HOH HOH . H 6 HOH A 8 708 708 HOH HOH . H 6 HOH A 9 709 709 HOH HOH . H 6 HOH A 10 710 710 HOH HOH . H 6 HOH A 11 711 711 HOH HOH . H 6 HOH A 12 712 712 HOH HOH . H 6 HOH A 13 713 713 HOH HOH . H 6 HOH A 14 714 714 HOH HOH . H 6 HOH A 15 715 715 HOH HOH . H 6 HOH A 16 716 716 HOH HOH . H 6 HOH A 17 717 717 HOH HOH . H 6 HOH A 18 718 718 HOH HOH . H 6 HOH A 19 719 719 HOH HOH . H 6 HOH A 20 720 720 HOH HOH . H 6 HOH A 21 721 721 HOH HOH . H 6 HOH A 22 722 722 HOH HOH . H 6 HOH A 23 723 723 HOH HOH . H 6 HOH A 24 724 724 HOH HOH . H 6 HOH A 25 725 725 HOH HOH . H 6 HOH A 26 726 726 HOH HOH . H 6 HOH A 27 727 727 HOH HOH . H 6 HOH A 28 728 728 HOH HOH . H 6 HOH A 29 729 729 HOH HOH . H 6 HOH A 30 730 730 HOH HOH . H 6 HOH A 31 731 731 HOH HOH . H 6 HOH A 32 732 732 HOH HOH . H 6 HOH A 33 733 733 HOH HOH . H 6 HOH A 34 734 734 HOH HOH . H 6 HOH A 35 735 735 HOH HOH . H 6 HOH A 36 736 736 HOH HOH . H 6 HOH A 37 737 737 HOH HOH . H 6 HOH A 38 738 738 HOH HOH . H 6 HOH A 39 739 739 HOH HOH . H 6 HOH A 40 740 740 HOH HOH . H 6 HOH A 41 741 741 HOH HOH . H 6 HOH A 42 742 742 HOH HOH . H 6 HOH A 43 743 743 HOH HOH . H 6 HOH A 44 744 744 HOH HOH . H 6 HOH A 45 745 745 HOH HOH . H 6 HOH A 46 746 746 HOH HOH . H 6 HOH A 47 747 747 HOH HOH . H 6 HOH A 48 748 748 HOH HOH . H 6 HOH A 49 749 749 HOH HOH . H 6 HOH A 50 750 750 HOH HOH . H 6 HOH A 51 751 751 HOH HOH . H 6 HOH A 52 752 752 HOH HOH . H 6 HOH A 53 753 753 HOH HOH . H 6 HOH A 54 754 754 HOH HOH . H 6 HOH A 55 755 755 HOH HOH . H 6 HOH A 56 756 756 HOH HOH . H 6 HOH A 57 757 757 HOH HOH . H 6 HOH A 58 758 758 HOH HOH . H 6 HOH A 59 759 759 HOH HOH . H 6 HOH A 60 760 760 HOH HOH . H 6 HOH A 61 761 761 HOH HOH . H 6 HOH A 62 762 762 HOH HOH . H 6 HOH A 63 763 763 HOH HOH . H 6 HOH A 64 764 764 HOH HOH . H 6 HOH A 65 765 765 HOH HOH . H 6 HOH A 66 766 766 HOH HOH . H 6 HOH A 67 767 767 HOH HOH . H 6 HOH A 68 768 768 HOH HOH . H 6 HOH A 69 769 769 HOH HOH . H 6 HOH A 70 770 770 HOH HOH . H 6 HOH A 71 771 771 HOH HOH . H 6 HOH A 72 772 772 HOH HOH . H 6 HOH A 73 773 773 HOH HOH . H 6 HOH A 74 774 774 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 LI8 . . . D 4 -8.746 43.496 43.496 1 39.34 ? C1 LI8 501 A 1 HETATM 2 C C2 LI8 . . . D 4 -7.39 43.556 43.964 1 32.66 ? C2 LI8 501 A 1 HETATM 3 N N3 LI8 . . . D 4 -6.77 42.383 44.231 1 27.56 ? N3 LI8 501 A 1 HETATM 4 C C4 LI8 . . . D 4 -7.361 41.177 44.069 1 26.69 ? C4 LI8 501 A 1 HETATM 5 N N5 LI8 . . . D 4 -8.625 41.134 43.613 1 22.71 ? N5 LI8 501 A 1 HETATM 6 C C6 LI8 . . . D 4 -9.323 42.238 43.329 1 34.26 ? C6 LI8 501 A 1 HETATM 7 BR BR7 LI8 . . . D 4 -9.806 44.989 43.127 1 75.6 ? BR7 LI8 501 A 1 HETATM 8 N N8 LI8 . . . D 4 -6.768 40.008 44.326 1 24.31 ? N8 LI8 501 A 1 HETATM 9 C C10 LI8 . . . D 4 -5.572 39.76 44.874 1 23.59 ? C10 LI8 501 A 1 HETATM 10 C C11 LI8 . . . D 4 -4.462 40.667 44.893 1 23.97 ? C11 LI8 501 A 1 HETATM 11 C C12 LI8 . . . D 4 -3.241 40.299 45.507 1 27.36 ? C12 LI8 501 A 1 HETATM 12 C C13 LI8 . . . D 4 -3.141 39.003 46.1 1 25.31 ? C13 LI8 501 A 1 HETATM 13 C C14 LI8 . . . D 4 -4.225 38.102 46.086 1 25.07 ? C14 LI8 501 A 1 HETATM 14 C C15 LI8 . . . D 4 -5.434 38.491 45.478 1 25.47 ? C15 LI8 501 A 1 HETATM 15 N N16 LI8 . . . D 4 -2.236 41.205 45.526 1 28.73 ? N16 LI8 501 A 1 HETATM 16 C C18 LI8 . . . D 4 -0.994 41.096 45.057 1 32.22 ? C18 LI8 501 A 1 HETATM 17 O O19 LI8 . . . D 4 -0.637 40.057 44.464 1 35.24 ? O19 LI8 501 A 1 HETATM 18 N N20 LI8 . . . D 4 -0.091 42.083 45.245 1 36.51 ? N20 LI8 501 A 1 HETATM 19 C C21 LI8 . . . D 4 -0.345 43.305 45.924 1 36.19 ? C21 LI8 501 A 1 HETATM 20 C C22 LI8 . . . D 4 0.998 43.646 46.62 1 39.69 ? C22 LI8 501 A 1 HETATM 21 C C23 LI8 . . . D 4 2.017 42.618 46.044 1 39.14 ? C23 LI8 501 A 1 HETATM 22 C C24 LI8 . . . D 4 1.275 41.994 44.853 1 36.02 ? C24 LI8 501 A 1 HETATM 23 N N25 LI8 . . . D 4 -6.737 44.734 44.156 1 25.21 ? N25 LI8 501 A 1 HETATM 24 C C27 LI8 . . . D 4 -5.441 44.88 44.741 1 18.45 ? C27 LI8 501 A 1 HETATM 25 C C28 LI8 . . . D 4 -4.308 44.649 43.719 1 22.27 ? C28 LI8 501 A 1 HETATM 26 N N29 LI8 . . . D 4 -4.685 46.901 42.728 1 32.59 ? N29 LI8 501 A 1 HETATM 27 C C31 LI8 . . . D 4 -3.842 47.749 43.386 1 39.09 ? C31 LI8 501 A 1 HETATM 28 O O32 LI8 . . . D 4 -2.728 47.28 43.801 1 40.66 ? O32 LI8 501 A 1 HETATM 29 C C33 LI8 . . . D 4 -4.423 45.514 42.444 1 27.66 ? C33 LI8 501 A 1 HETATM 30 C C34 LI8 . . . D 4 -4.159 49.233 43.638 1 37.63 ? C34 LI8 501 A 1 HETATM 31 C C35 LI8 . . . D 4 -2.822 50.05 43.616 1 37.98 ? C35 LI8 501 A 1 HETATM 32 C C36 LI8 . . . D 4 -5.088 49.853 42.527 1 38.83 ? C36 LI8 501 A 1 HETATM 33 C C37 LI8 . . . D 4 -4.764 49.403 44.987 1 34.49 ? C37 LI8 501 A 1 HETATM 34 O O38 LI8 . . . D 4 -5.837 50.019 45.191 1 39.84 ? O38 LI8 501 A 1 HETATM 35 N N39 LI8 . . . D 4 -4.18 48.911 46.075 1 35.61 ? N39 LI8 501 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 375 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 35 #