data_7Q2J # _model_server_result.job_id XJ_2yC4Av91_c3OQ-Pz7Lg _model_server_result.datetime_utc '2025-02-17 06:25:19' _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 7q2j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 7Q2J # _exptl.entry_id 7Q2J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 1012.149 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-[5-[4-[[5-[[(2S)-3,3-dimethyl-1-[(2S,4R)-2-[[4-(4-methyl-1,3-thiazol-5-yl)phenyl]methylcarbamoyl]-4-oxidanyl-pyrrolidin-1-yl]-1-oxidanylidene-butan-2-yl]amino]-5-oxidanylidene-pentyl]carbamoyl]phenyl]-2-(4-methylpiperazin-1-yl)phenyl]-6-oxidanylidene-4-(trifluoromethyl)-1H-pyridine-3-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 115.25 _cell.angle_gamma 90 _cell.entry_id 7Q2J _cell.length_a 47.702 _cell.length_b 190.809 _cell.length_c 48.698 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7Q2J _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 ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,I _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 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C52 H60 F3 N9 O7 S' _chem_comp.formula_weight 1012.149 _chem_comp.id 8KH _chem_comp.mon_nstd_flag . _chem_comp.name N-[5-[4-[[5-[[(2S)-3,3-dimethyl-1-[(2S,4R)-2-[[4-(4-methyl-1,3-thiazol-5-yl)phenyl]methylcarbamoyl]-4-oxidanyl-pyrrolidin-1-yl]-1-oxidanylidene-butan-2-yl]amino]-5-oxidanylidene-pentyl]carbamoyl]phenyl]-2-(4-methylpiperazin-1-yl)phenyl]-6-oxidanylidene-4-(trifluoromethyl)-1H-pyridine-3-carboxamide _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Homer (chemical degrader probe)' # 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 C23 C24 8KH sing 1 n n C23 C22 8KH sing 2 n n C24 C25 8KH sing 3 n n O2 C33 8KH sing 4 n n O5 C25 8KH doub 5 n n C22 C21 8KH sing 6 n n C25 N5 8KH sing 7 n n C21 N4 8KH sing 8 n n C33 C32 8KH sing 9 n n C33 C34 8KH sing 10 n n N4 C20 8KH sing 11 n n N5 C26 8KH sing 12 n n C32 N6 8KH sing 13 n n C34 C35 8KH sing 14 n n N6 C31 8KH sing 15 n n N6 C35 8KH sing 16 n n C31 O4 8KH doub 17 n n C31 C26 8KH sing 18 n n C35 C36 8KH sing 19 n n C26 C27 8KH sing 20 n n C20 O6 8KH doub 21 n n C20 C19 8KH sing 22 n n C18 C19 8KH doub 23 n y C18 C17 8KH sing 24 n y C19 C48 8KH sing 25 n y C17 C16 8KH doub 26 n y C36 N7 8KH sing 27 n n C36 O3 8KH doub 28 n n C30 C27 8KH sing 29 n n C27 C29 8KH sing 30 n n C27 C28 8KH sing 31 n n N7 C37 8KH sing 32 n n C48 C49 8KH doub 33 n y C16 C49 8KH sing 34 n y C16 C15 8KH sing 35 n n C41 C42 8KH doub 36 n y C41 C38 8KH sing 37 n y C50 C15 8KH doub 38 n y C50 C51 8KH sing 39 n y C37 C38 8KH sing 40 n n C42 C43 8KH sing 41 n y C15 C14 8KH sing 42 n y C51 C5 8KH doub 43 n y C38 C39 8KH doub 44 n y S C44 8KH sing 45 n y S C47 8KH sing 46 n y C43 C44 8KH sing 47 n n C43 C40 8KH doub 48 n y C14 C6 8KH doub 49 n y C5 C6 8KH sing 50 n y C5 N1 8KH sing 51 n n C39 C40 8KH sing 52 n y C44 C45 8KH doub 53 n y C6 N2 8KH sing 54 n n N1 C2 8KH sing 55 n n N1 C4 8KH sing 56 n n C47 N8 8KH doub 57 n y C3 C4 8KH sing 58 n n C3 N 8KH sing 59 n n C1 C2 8KH sing 60 n n C1 N 8KH sing 61 n n O1 C7 8KH doub 62 n n C45 N8 8KH sing 63 n y C45 C46 8KH sing 64 n n C N 8KH sing 65 n n N2 C7 8KH sing 66 n n C7 C8 8KH sing 67 n n F C13 8KH sing 68 n n F1 C13 8KH sing 69 n n C13 F2 8KH sing 70 n n C13 C12 8KH sing 71 n n C8 C12 8KH sing 72 n n C8 C9 8KH doub 73 n n C12 C11 8KH doub 74 n n C9 N3 8KH sing 75 n n C11 C10 8KH sing 76 n n N3 C10 8KH sing 77 n n C10 O 8KH doub 78 n n C18 H1 8KH sing 79 n n C17 H2 8KH sing 80 n n C48 H3 8KH sing 81 n n C49 H4 8KH sing 82 n n C14 H5 8KH sing 83 n n N2 H6 8KH sing 84 n n C11 H8 8KH sing 85 n n C9 H9 8KH sing 86 n n C50 H10 8KH sing 87 n n C51 H11 8KH sing 88 n n C2 H12 8KH sing 89 n n C2 H13 8KH sing 90 n n C1 H14 8KH sing 91 n n C1 H15 8KH sing 92 n n C4 H16 8KH sing 93 n n C4 H17 8KH sing 94 n n C3 H18 8KH sing 95 n n C3 H19 8KH sing 96 n n C H21 8KH sing 97 n n C H22 8KH sing 98 n n C H23 8KH sing 99 n n N4 H24 8KH sing 100 n n C21 H25 8KH sing 101 n n C21 H26 8KH sing 102 n n C22 H27 8KH sing 103 n n C22 H28 8KH sing 104 n n C23 H29 8KH sing 105 n n C23 H30 8KH sing 106 n n C24 H31 8KH sing 107 n n C24 H32 8KH sing 108 n n N5 H33 8KH sing 109 n n C26 H34 8KH sing 110 n n C30 H35 8KH sing 111 n n C30 H36 8KH sing 112 n n C30 H37 8KH sing 113 n n C29 H38 8KH sing 114 n n C29 H39 8KH sing 115 n n C29 H40 8KH sing 116 n n C28 H41 8KH sing 117 n n C28 H42 8KH sing 118 n n C28 H43 8KH sing 119 n n C35 H44 8KH sing 120 n n C34 H45 8KH sing 121 n n C34 H46 8KH sing 122 n n C33 H47 8KH sing 123 n n O2 H48 8KH sing 124 n n C32 H49 8KH sing 125 n n C32 H50 8KH sing 126 n n N7 H51 8KH sing 127 n n C37 H52 8KH sing 128 n n C37 H53 8KH sing 129 n n C41 H54 8KH sing 130 n n C42 H55 8KH sing 131 n n C40 H56 8KH sing 132 n n C39 H57 8KH sing 133 n n C47 H58 8KH sing 134 n n C46 H59 8KH sing 135 n n C46 H60 8KH sing 136 n n C46 H61 8KH sing 137 n n N3 H62 8KH sing 138 n n # _atom_sites.entry_id 7Q2J _atom_sites.fract_transf_matrix[1][1] 0.020963 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.009888 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005241 _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] 0.022705 _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 E 5 8KH D 1 401 1 8KH AD1 . F 6 HOH A 1 201 18 HOH HOH . F 6 HOH A 2 202 8 HOH HOH . F 6 HOH A 3 203 19 HOH HOH . F 6 HOH A 4 204 11 HOH HOH . F 6 HOH A 5 205 24 HOH HOH . F 6 HOH A 6 206 1 HOH HOH . G 6 HOH B 1 201 15 HOH HOH . H 6 HOH C 1 301 7 HOH HOH . H 6 HOH C 2 302 29 HOH HOH . H 6 HOH C 3 303 22 HOH HOH . I 6 HOH D 1 501 14 HOH HOH . I 6 HOH D 2 502 5 HOH HOH . I 6 HOH D 3 503 13 HOH HOH . I 6 HOH D 4 504 28 HOH HOH . I 6 HOH D 5 505 3 HOH HOH . I 6 HOH D 6 506 17 HOH HOH . I 6 HOH D 7 507 12 HOH HOH . I 6 HOH D 8 508 10 HOH HOH . I 6 HOH D 9 509 21 HOH HOH . I 6 HOH D 10 510 16 HOH HOH . I 6 HOH D 11 511 6 HOH HOH . I 6 HOH D 12 512 2 HOH HOH . I 6 HOH D 13 513 23 HOH HOH . I 6 HOH D 14 514 27 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 O O6 8KH . . . E 5 -11.646 7.269 15.245 1 71.43 ? O6 8KH 401 D 1 HETATM 2 C C20 8KH . . . E 5 -12.164 8.183 14.607 1 72.38 ? C20 8KH 401 D 1 HETATM 3 C C19 8KH . . . E 5 -12.703 9.399 15.298 1 71.37 ? C19 8KH 401 D 1 HETATM 4 C C18 8KH . . . E 5 -13.604 10.264 14.686 1 72.7 ? C18 8KH 401 D 1 HETATM 5 C C17 8KH . . . E 5 -14.106 11.36 15.365 1 70.18 ? C17 8KH 401 D 1 HETATM 6 C C48 8KH . . . E 5 -12.323 9.667 16.609 1 70.29 ? C48 8KH 401 D 1 HETATM 7 C C49 8KH . . . E 5 -12.838 10.758 17.288 1 65.6 ? C49 8KH 401 D 1 HETATM 8 C C16 8KH . . . E 5 -13.744 11.626 16.685 1 63.46 ? C16 8KH 401 D 1 HETATM 9 C C15 8KH . . . E 5 -14.316 12.782 17.43 1 59.89 ? C15 8KH 401 D 1 HETATM 10 C C14 8KH . . . E 5 -13.867 13.084 18.714 1 56.9 ? C14 8KH 401 D 1 HETATM 11 C C6 8KH . . . E 5 -14.318 14.219 19.378 1 56.61 ? C6 8KH 401 D 1 HETATM 12 N N2 8KH . . . E 5 -13.762 14.533 20.636 1 56.14 ? N2 8KH 401 D 1 HETATM 13 C C7 8KH . . . E 5 -12.432 14.7 20.876 1 59.81 ? C7 8KH 401 D 1 HETATM 14 O O1 8KH . . . E 5 -11.597 14.856 19.986 1 58.82 ? O1 8KH 401 D 1 HETATM 15 C C8 8KH . . . E 5 -12.031 14.739 22.309 1 64.58 ? C8 8KH 401 D 1 HETATM 16 C C12 8KH . . . E 5 -11.262 15.803 22.951 1 66.68 ? C12 8KH 401 D 1 HETATM 17 C C13 8KH . . . E 5 -10.757 16.956 22.137 1 66.41 ? C13 8KH 401 D 1 HETATM 18 F F2 8KH . . . E 5 -10.313 17.961 22.892 1 67.69 ? F2 8KH 401 D 1 HETATM 19 F F1 8KH . . . E 5 -11.669 17.479 21.357 1 68.02 ? F1 8KH 401 D 1 HETATM 20 F F 8KH . . . E 5 -9.831 16.597 21.267 1 62.63 ? F 8KH 401 D 1 HETATM 21 C C11 8KH . . . E 5 -10.991 15.711 24.272 1 68.97 ? C11 8KH 401 D 1 HETATM 22 C C10 8KH . . . E 5 -11.428 14.593 25.074 1 70.06 ? C10 8KH 401 D 1 HETATM 23 O O 8KH . . . E 5 -11.194 14.435 26.278 1 71.75 ? O 8KH 401 D 1 HETATM 24 N N3 8KH . . . E 5 -12.14 13.636 24.408 1 67.78 ? N3 8KH 401 D 1 HETATM 25 C C9 8KH . . . E 5 -12.43 13.69 23.084 1 67.77 ? C9 8KH 401 D 1 HETATM 26 C C50 8KH . . . E 5 -15.272 13.624 16.851 1 59 ? C50 8KH 401 D 1 HETATM 27 C C51 8KH . . . E 5 -15.728 14.758 17.501 1 55.42 ? C51 8KH 401 D 1 HETATM 28 C C5 8KH . . . E 5 -15.243 15.077 18.765 1 57.02 ? C5 8KH 401 D 1 HETATM 29 N N1 8KH . . . E 5 -15.598 16.292 19.405 1 58.93 ? N1 8KH 401 D 1 HETATM 30 C C2 8KH . . . E 5 -16.953 16.527 19.907 1 61.24 ? C2 8KH 401 D 1 HETATM 31 C C1 8KH . . . E 5 -17.332 17.985 19.751 1 59.36 ? C1 8KH 401 D 1 HETATM 32 C C4 8KH . . . E 5 -14.589 17.219 19.919 1 56.75 ? C4 8KH 401 D 1 HETATM 33 C C3 8KH . . . E 5 -15.047 18.64 19.742 1 54.49 ? C3 8KH 401 D 1 HETATM 34 N N 8KH . . . E 5 -16.338 18.848 20.383 1 56.77 ? N 8KH 401 D 1 HETATM 35 C C 8KH . . . E 5 -16.74 20.251 20.287 1 64.29 ? C 8KH 401 D 1 HETATM 36 N N4 8KH . . . E 5 -12.268 8.139 13.277 1 72.56 ? N4 8KH 401 D 1 HETATM 37 C C21 8KH . . . E 5 -12.193 6.888 12.537 1 71.92 ? C21 8KH 401 D 1 HETATM 38 C C22 8KH . . . E 5 -10.784 6.611 12.058 1 70.47 ? C22 8KH 401 D 1 HETATM 39 C C23 8KH . . . E 5 -10.716 5.566 10.955 1 73.62 ? C23 8KH 401 D 1 HETATM 40 C C24 8KH . . . E 5 -10.835 4.129 11.458 1 71.34 ? C24 8KH 401 D 1 HETATM 41 C C25 8KH . . . E 5 -9.617 3.677 12.223 1 66.97 ? C25 8KH 401 D 1 HETATM 42 O O5 8KH . . . E 5 -8.507 3.696 11.706 1 69.7 ? O5 8KH 401 D 1 HETATM 43 N N5 8KH . . . E 5 -9.828 3.285 13.485 1 62.43 ? N5 8KH 401 D 1 HETATM 44 C C26 8KH . . . E 5 -8.832 2.597 14.292 1 61.8 ? C26 8KH 401 D 1 HETATM 45 C C27 8KH . . . E 5 -8.778 3.166 15.741 1 59.18 ? C27 8KH 401 D 1 HETATM 46 C C30 8KH . . . E 5 -9.033 4.675 15.679 1 58.28 ? C30 8KH 401 D 1 HETATM 47 C C29 8KH . . . E 5 -7.393 2.924 16.347 1 60.69 ? C29 8KH 401 D 1 HETATM 48 C C28 8KH . . . E 5 -9.83 2.516 16.651 1 60.31 ? C28 8KH 401 D 1 HETATM 49 C C31 8KH . . . E 5 -9.148 1.095 14.217 1 68 ? C31 8KH 401 D 1 HETATM 50 O O4 8KH . . . E 5 -10.309 0.731 14.254 1 73.83 ? O4 8KH 401 D 1 HETATM 51 N N6 8KH . . . E 5 -8.14 0.212 14.059 1 67.65 ? N6 8KH 401 D 1 HETATM 52 C C35 8KH . . . E 5 -8.41 -1.217 14.271 1 60.51 ? C35 8KH 401 D 1 HETATM 53 C C34 8KH . . . E 5 -7.068 -1.886 13.943 1 61.72 ? C34 8KH 401 D 1 HETATM 54 C C33 8KH . . . E 5 -6.382 -0.901 13.006 1 63.86 ? C33 8KH 401 D 1 HETATM 55 O O2 8KH . . . E 5 -6.889 -1.027 11.672 1 61.34 ? O2 8KH 401 D 1 HETATM 56 C C32 8KH . . . E 5 -6.765 0.444 13.597 1 67.12 ? C32 8KH 401 D 1 HETATM 57 C C36 8KH . . . E 5 -8.904 -1.6 15.666 1 58.41 ? C36 8KH 401 D 1 HETATM 58 O O3 8KH . . . E 5 -8.79 -0.837 16.621 1 55.79 ? O3 8KH 401 D 1 HETATM 59 N N7 8KH . . . E 5 -9.512 -2.782 15.745 1 59.11 ? N7 8KH 401 D 1 HETATM 60 C C37 8KH . . . E 5 -10.124 -3.274 16.97 1 60.42 ? C37 8KH 401 D 1 HETATM 61 C C38 8KH . . . E 5 -9.385 -4.464 17.52 1 64.8 ? C38 8KH 401 D 1 HETATM 62 C C41 8KH . . . E 5 -8.591 -5.25 16.696 1 67.5 ? C41 8KH 401 D 1 HETATM 63 C C42 8KH . . . E 5 -7.878 -6.322 17.201 1 72.52 ? C42 8KH 401 D 1 HETATM 64 C C43 8KH . . . E 5 -7.943 -6.647 18.555 1 75.45 ? C43 8KH 401 D 1 HETATM 65 C C40 8KH . . . E 5 -8.739 -5.85 19.384 1 70.75 ? C40 8KH 401 D 1 HETATM 66 C C39 8KH . . . E 5 -9.451 -4.782 18.867 1 66.27 ? C39 8KH 401 D 1 HETATM 67 C C44 8KH . . . E 5 -7.165 -7.791 19.1 1 81.31 ? C44 8KH 401 D 1 HETATM 68 S S 8KH . . . E 5 -5.65 -8.208 18.349 1 80.36 ? S 8KH 401 D 1 HETATM 69 C C47 8KH . . . E 5 -5.446 -9.436 19.533 1 77.05 ? C47 8KH 401 D 1 HETATM 70 N N8 8KH . . . E 5 -6.396 -9.557 20.405 1 76.38 ? N8 8KH 401 D 1 HETATM 71 C C45 8KH . . . E 5 -7.392 -8.628 20.174 1 82.38 ? C45 8KH 401 D 1 HETATM 72 C C46 8KH . . . E 5 -8.575 -8.639 21.087 1 87.74 ? C46 8KH 401 D 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 333 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 72 #