data_A1CMF # _chem_comp.id A1CMF _chem_comp.name "N-[2-({1-methyl-7-[4-(4-methylpiperazin-1-yl)anilino]-2-oxo-1,4-dihydropyrimido[4,5-d]pyrimidin-3(2H)-yl}methyl)phenyl]prop-2-enamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C28 H32 N8 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-08-05 _chem_comp.pdbx_modified_date 2026-10-23 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 512.606 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1CMF _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 9PWI _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm Y _chem_comp.pdbx_comp_type ? # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal A1CMF C01 C1 C 0 1 N N N N N N 5.666 -15.453 12.305 -8.988 1.178 1.774 C01 A1CMF 1 A1CMF C03 C2 C 0 1 N N N N N N 5.122 -13.174 12.673 -9.086 0.472 -0.540 C03 A1CMF 2 A1CMF C04 C3 C 0 1 N N N N N N 4.380 -12.281 13.666 -7.807 -0.358 -0.412 C04 A1CMF 3 A1CMF C05 C4 C 0 1 N N N N N N 5.071 -14.818 14.524 -7.854 2.466 0.066 C05 A1CMF 4 A1CMF C06 C5 C 0 1 N N N N N N 5.692 -13.589 15.268 -6.575 1.636 0.194 C06 A1CMF 5 A1CMF C08 C6 C 0 1 Y N N N N N 5.727 -10.977 15.326 -5.459 -0.256 -0.683 C08 A1CMF 6 A1CMF C09 C7 C 0 1 Y N N N N N 5.012 -9.751 15.332 -4.244 0.361 -0.947 C09 A1CMF 7 A1CMF C10 C8 C 0 1 Y N N N N N 5.614 -8.506 15.631 -3.074 -0.372 -0.905 C10 A1CMF 8 A1CMF C11 C9 C 0 1 Y N N N N N 7.096 -10.837 15.644 -5.499 -1.610 -0.376 C11 A1CMF 9 A1CMF C12 C10 C 0 1 Y N N N N N 7.699 -9.593 15.943 -4.329 -2.343 -0.334 C12 A1CMF 10 A1CMF C13 C11 C 0 1 Y N N N N N 6.982 -8.365 15.944 -3.114 -1.726 -0.598 C13 A1CMF 11 A1CMF C15 C12 C 0 1 Y N N N N N 8.827 -6.701 16.916 -0.753 -1.875 -0.121 C15 A1CMF 12 A1CMF C17 C13 C 0 1 Y N N N N N 10.319 -5.044 17.653 0.306 -0.033 0.778 C17 A1CMF 13 A1CMF C18 C14 C 0 1 Y N N N N N 11.243 -5.977 18.192 1.494 -0.721 0.730 C18 A1CMF 14 A1CMF C19 C15 C 0 1 Y N N N N N 10.875 -7.335 18.051 1.515 -2.026 0.234 C19 A1CMF 15 A1CMF C21 C16 C 0 1 N N N N N N 11.453 -9.815 18.473 2.697 -4.092 -0.343 C21 A1CMF 16 A1CMF C22 C17 C 0 1 N N N N N N 13.023 -7.947 19.250 3.874 -2.208 0.595 C22 A1CMF 17 A1CMF N23 N1 N 0 1 N N N N N N 13.416 -6.605 19.381 3.995 -0.964 1.092 N23 A1CMF 18 A1CMF C24 C18 C 0 1 N N N N N N 14.686 -6.172 20.099 5.301 -0.460 1.522 C24 A1CMF 19 A1CMF C25 C19 C 0 1 Y N N N N N 14.402 -5.361 21.399 5.986 0.214 0.361 C25 A1CMF 20 A1CMF C26 C20 C 0 1 Y N N N N N 13.551 -5.921 22.371 6.955 -0.461 -0.355 C26 A1CMF 21 A1CMF C27 C21 C 0 1 Y N N N N N 13.209 -5.277 23.565 7.585 0.156 -1.420 C27 A1CMF 22 A1CMF C28 C22 C 0 1 Y N N N N N 13.726 -4.014 23.818 7.247 1.450 -1.772 C28 A1CMF 23 A1CMF C29 C23 C 0 1 Y N N N N N 14.568 -3.413 22.874 6.280 2.131 -1.059 C29 A1CMF 24 A1CMF C30 C24 C 0 1 Y N N N N N 14.921 -4.048 21.661 5.641 1.512 0.008 C30 A1CMF 25 A1CMF C32 C25 C 0 1 N N N N N N 17.061 -3.793 20.291 3.869 3.095 0.105 C32 A1CMF 26 A1CMF C33 C26 C 0 1 N N N N N N 17.913 -3.040 19.332 2.767 3.738 0.836 C33 A1CMF 27 A1CMF C34 C27 C 0 1 N N N N N N 17.549 -1.931 18.650 1.989 4.625 0.221 C34 A1CMF 28 A1CMF C36 C28 C 0 1 N N N N N N 12.520 -5.540 18.868 2.794 -0.116 1.199 C36 A1CMF 29 A1CMF N02 N2 N 0 1 N N N N N N 4.778 -14.564 13.081 -9.016 1.621 0.374 N02 A1CMF 30 A1CMF N07 N3 N 0 1 N N N N N N 5.033 -12.249 15.008 -6.644 0.487 -0.720 N07 A1CMF 31 A1CMF N14 N4 N 0 1 N N N N N N 7.585 -7.053 16.251 -1.927 -2.469 -0.555 N14 A1CMF 32 A1CMF N16 N5 N 0 1 Y N N N N N 9.161 -5.359 17.036 -0.796 -0.636 0.346 N16 A1CMF 33 A1CMF N20 N6 N 0 1 N N N N N N 11.760 -8.328 18.575 2.708 -2.725 0.184 N20 A1CMF 34 A1CMF N31 N7 N 0 1 N N N N N N 15.794 -3.343 20.720 4.656 2.195 0.727 N31 A1CMF 35 A1CMF N38 N8 N 0 1 Y N N N N N 9.685 -7.690 17.422 0.376 -2.567 -0.181 N38 A1CMF 36 A1CMF O35 O1 O 0 1 N N N N N N 17.521 -4.843 20.712 4.069 3.374 -1.062 O35 A1CMF 37 A1CMF O37 O2 O 0 1 N N N N N N 13.744 -8.841 19.689 4.873 -2.897 0.512 O37 A1CMF 38 A1CMF H1 H1 H 0 1 N N N N N N 5.456 -16.501 12.566 -8.115 0.546 1.938 H1 A1CMF 39 A1CMF H2 H2 H 0 1 N N N N N N 5.489 -15.301 11.230 -8.936 2.047 2.430 H2 A1CMF 40 A1CMF H3 H3 H 0 1 N N N N N N 6.715 -15.220 12.540 -9.892 0.610 1.994 H3 A1CMF 41 A1CMF H4 H4 H 0 1 N N N N N N 6.207 -13.008 12.739 -9.186 0.829 -1.565 H4 A1CMF 42 A1CMF H5 H5 H 0 1 N N N N N N 4.783 -12.976 11.646 -9.947 -0.145 -0.284 H5 A1CMF 43 A1CMF H6 H6 H 0 1 N N N N N N 4.349 -11.257 13.265 -7.720 -0.737 0.607 H6 A1CMF 44 A1CMF H7 H7 H 0 1 N N N N N N 3.354 -12.660 13.782 -7.844 -1.194 -1.110 H7 A1CMF 45 A1CMF H8 H8 H 0 1 N N N N N N 4.131 -15.089 15.026 -7.817 3.302 0.764 H8 A1CMF 46 A1CMF H9 H9 H 0 1 N N N N N N 5.778 -15.658 14.592 -7.940 2.845 -0.952 H9 A1CMF 47 A1CMF H10 H10 H 0 1 N N N N N N 5.636 -13.787 16.349 -5.713 2.253 -0.062 H10 A1CMF 48 A1CMF H11 H11 H 0 1 N N N N N N 6.746 -13.510 14.964 -6.474 1.279 1.219 H11 A1CMF 49 A1CMF H12 H12 H 0 1 N N N N N N 3.958 -9.769 15.097 -4.213 1.413 -1.186 H12 A1CMF 50 A1CMF H13 H13 H 0 1 N N N N N N 4.996 -7.620 15.619 -2.129 0.108 -1.110 H13 A1CMF 51 A1CMF H14 H14 H 0 1 N N N N N N 7.713 -11.723 15.660 -6.444 -2.090 -0.170 H14 A1CMF 52 A1CMF H15 H15 H 0 1 N N N N N N 8.752 -9.575 16.181 -4.360 -3.396 -0.095 H15 A1CMF 53 A1CMF H16 H16 H 0 1 N N N N N N 10.563 -3.996 17.744 0.269 0.977 1.158 H16 A1CMF 54 A1CMF H17 H17 H 0 1 N N N N N N 12.266 -10.391 18.940 2.867 -4.068 -1.419 H17 A1CMF 55 A1CMF H18 H18 H 0 1 N N N N N N 10.507 -10.030 18.991 3.484 -4.673 0.137 H18 A1CMF 56 A1CMF H19 H19 H 0 1 N N N N N N 11.364 -10.099 17.414 1.730 -4.552 -0.138 H19 A1CMF 57 A1CMF H20 H20 H 0 1 N N N N N N 15.262 -7.070 20.365 5.165 0.259 2.330 H20 A1CMF 58 A1CMF H21 H21 H 0 1 N N N N N N 15.278 -5.545 19.417 5.913 -1.290 1.874 H21 A1CMF 59 A1CMF H22 H22 H 0 1 N N N N N N 13.139 -6.902 22.185 7.221 -1.472 -0.084 H22 A1CMF 60 A1CMF H23 H23 H 0 1 N N N N N N 12.554 -5.755 24.278 8.343 -0.374 -1.979 H23 A1CMF 61 A1CMF H24 H24 H 0 1 N N N N N N 13.481 -3.499 24.735 7.741 1.930 -2.604 H24 A1CMF 62 A1CMF H25 H25 H 0 1 N N N N N N 14.962 -2.429 23.080 6.016 3.141 -1.334 H25 A1CMF 63 A1CMF H26 H26 H 0 1 N N N N N N 18.913 -3.413 19.166 2.589 3.490 1.872 H26 A1CMF 64 A1CMF H27 H27 H 0 1 N N N N N N 18.247 -1.459 17.975 2.167 4.873 -0.814 H27 A1CMF 65 A1CMF H28 H28 H 0 1 N N N N N N 16.560 -1.517 18.780 1.180 5.098 0.758 H28 A1CMF 66 A1CMF H29 H29 H 0 1 N N N N N N 13.094 -4.948 18.140 2.970 0.792 0.622 H29 A1CMF 67 A1CMF H30 H30 H 0 1 N N N N N N 12.242 -4.903 19.721 2.675 0.171 2.244 H30 A1CMF 68 A1CMF H32 H32 H 0 1 N N N N N N 7.043 -6.269 15.948 -1.927 -3.399 -0.829 H32 A1CMF 69 A1CMF H33 H33 H 0 1 N N N N N N 15.466 -2.473 20.352 4.540 2.023 1.675 H33 A1CMF 70 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A1CMF C01 N02 SING N N 1 A1CMF C03 N02 SING N N 2 A1CMF C03 C04 SING N N 3 A1CMF N02 C05 SING N N 4 A1CMF C04 N07 SING N N 5 A1CMF C05 C06 SING N N 6 A1CMF N07 C06 SING N N 7 A1CMF N07 C08 SING N N 8 A1CMF C08 C09 DOUB Y N 9 A1CMF C08 C11 SING Y N 10 A1CMF C09 C10 SING Y N 11 A1CMF C10 C13 DOUB Y N 12 A1CMF C11 C12 DOUB Y N 13 A1CMF C12 C13 SING Y N 14 A1CMF C13 N14 SING N N 15 A1CMF N14 C15 SING N N 16 A1CMF C15 N16 DOUB Y N 17 A1CMF C15 N38 SING Y N 18 A1CMF N16 C17 SING Y N 19 A1CMF N38 C19 DOUB Y N 20 A1CMF C17 C18 DOUB Y N 21 A1CMF C19 C18 SING Y N 22 A1CMF C19 N20 SING N N 23 A1CMF C18 C36 SING N N 24 A1CMF C21 N20 SING N N 25 A1CMF N20 C22 SING N N 26 A1CMF C34 C33 DOUB N N 27 A1CMF C36 N23 SING N N 28 A1CMF C22 N23 SING N N 29 A1CMF C22 O37 DOUB N N 30 A1CMF C33 C32 SING N N 31 A1CMF N23 C24 SING N N 32 A1CMF C24 C25 SING N N 33 A1CMF C32 O35 DOUB N N 34 A1CMF C32 N31 SING N N 35 A1CMF N31 C30 SING N N 36 A1CMF C25 C30 DOUB Y N 37 A1CMF C25 C26 SING Y N 38 A1CMF C30 C29 SING Y N 39 A1CMF C26 C27 DOUB Y N 40 A1CMF C29 C28 DOUB Y N 41 A1CMF C27 C28 SING Y N 42 A1CMF C01 H1 SING N N 43 A1CMF C01 H2 SING N N 44 A1CMF C01 H3 SING N N 45 A1CMF C03 H4 SING N N 46 A1CMF C03 H5 SING N N 47 A1CMF C04 H6 SING N N 48 A1CMF C04 H7 SING N N 49 A1CMF C05 H8 SING N N 50 A1CMF C05 H9 SING N N 51 A1CMF C06 H10 SING N N 52 A1CMF C06 H11 SING N N 53 A1CMF C09 H12 SING N N 54 A1CMF C10 H13 SING N N 55 A1CMF C11 H14 SING N N 56 A1CMF C12 H15 SING N N 57 A1CMF C17 H16 SING N N 58 A1CMF C21 H17 SING N N 59 A1CMF C21 H18 SING N N 60 A1CMF C21 H19 SING N N 61 A1CMF C24 H20 SING N N 62 A1CMF C24 H21 SING N N 63 A1CMF C26 H22 SING N N 64 A1CMF C27 H23 SING N N 65 A1CMF C28 H24 SING N N 66 A1CMF C29 H25 SING N N 67 A1CMF C33 H26 SING N N 68 A1CMF C34 H27 SING N N 69 A1CMF C34 H28 SING N N 70 A1CMF C36 H29 SING N N 71 A1CMF C36 H30 SING N N 72 A1CMF N14 H32 SING N N 73 A1CMF N31 H33 SING N N 74 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor A1CMF SMILES ACDLabs 14.52 "CN1CCN(CC1)c1ccc(Nc2nc3N(C)C(=O)N(Cc4ccccc4NC(=O)C=C)Cc3cn2)cc1" A1CMF InChI InChI 1.06 "InChI=1S/C28H32N8O2/c1-4-25(37)31-24-8-6-5-7-20(24)18-36-19-21-17-29-27(32-26(21)34(3)28(36)38)30-22-9-11-23(12-10-22)35-15-13-33(2)14-16-35/h4-12,17H,1,13-16,18-19H2,2-3H3,(H,31,37)(H,29,30,32)" A1CMF InChIKey InChI 1.06 NGHZZCITSZEFOQ-UHFFFAOYSA-N A1CMF SMILES_CANONICAL CACTVS 3.385 "CN1CCN(CC1)c2ccc(Nc3ncc4CN(Cc5ccccc5NC(=O)C=C)C(=O)N(C)c4n3)cc2" A1CMF SMILES CACTVS 3.385 "CN1CCN(CC1)c2ccc(Nc3ncc4CN(Cc5ccccc5NC(=O)C=C)C(=O)N(C)c4n3)cc2" A1CMF SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "CN1CCN(CC1)c2ccc(cc2)Nc3ncc4c(n3)N(C(=O)N(C4)Cc5ccccc5NC(=O)C=C)C" A1CMF SMILES "OpenEye OEToolkits" 3.1.0.0 "CN1CCN(CC1)c2ccc(cc2)Nc3ncc4c(n3)N(C(=O)N(C4)Cc5ccccc5NC(=O)C=C)C" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier A1CMF "SYSTEMATIC NAME" ACDLabs 14.52 "N-[2-({1-methyl-7-[4-(4-methylpiperazin-1-yl)anilino]-2-oxo-1,4-dihydropyrimido[4,5-d]pyrimidin-3(2H)-yl}methyl)phenyl]prop-2-enamide" A1CMF "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "~{N}-[2-[[1-methyl-7-[[4-(4-methylpiperazin-1-yl)phenyl]amino]-2-oxidanylidene-4~{H}-pyrimido[4,5-d]pyrimidin-3-yl]methyl]phenyl]prop-2-enamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1CMF "Create component" 2025-08-05 RCSB A1CMF "Modify PCM" 2025-08-05 RCSB A1CMF "Initial release" 2026-10-28 RCSB # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1CMF _pdbx_chem_comp_pcm.modified_residue_id CYS _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom C34 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #