data_VBD # _chem_comp.id VBD _chem_comp.name "(7S)-8-(cyclopropylmethyl)-2-[(3,5-difluoro-4-hydroxyphenyl)amino]-7-methyl-5-(prop-2-yn-1-yl)-7,8-dihydropteridin-6(5H)-one" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C20 H19 F2 N5 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-07-22 _chem_comp.pdbx_modified_date 2021-02-26 _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 399.394 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VBD _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 6VXU _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # # 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.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 VBD C4 C1 C 0 1 Y N N -22.907 -54.265 33.180 -4.443 -0.715 0.757 C4 VBD 1 VBD C14 C2 C 0 1 N N N -30.195 -58.851 35.458 2.474 -3.162 -1.296 C14 VBD 2 VBD C5 C3 C 0 1 Y N N -22.166 -53.230 33.723 -5.496 -0.032 0.164 C5 VBD 3 VBD C6 C4 C 0 1 Y N N -22.460 -52.829 35.015 -5.262 1.168 -0.494 C6 VBD 4 VBD C11 C5 C 0 1 N N N -28.865 -59.582 33.551 3.844 -1.400 -0.283 C11 VBD 5 VBD C7 C6 C 0 1 Y N N -26.124 -55.993 35.591 -0.548 0.670 -0.201 C7 VBD 6 VBD C8 C7 C 0 1 Y N N -28.101 -57.005 36.116 0.234 -1.467 -0.584 C8 VBD 7 VBD C9 C8 C 0 1 Y N N -28.010 -57.796 34.970 1.528 -0.984 -0.531 C9 VBD 8 VBD C10 C9 C 0 1 Y N N -26.885 -57.599 34.141 1.734 0.382 -0.306 C10 VBD 9 VBD C12 C10 C 0 1 N N S -27.579 -59.535 32.752 3.963 -0.042 0.358 C12 VBD 10 VBD C13 C11 C 0 1 N N N -26.783 -60.817 32.904 3.659 -0.159 1.853 C13 VBD 11 VBD N1 N1 N 0 1 N N N -25.205 -55.066 35.938 -1.629 1.521 -0.030 N1 VBD 12 VBD N2 N2 N 0 1 Y N N -27.170 -56.111 36.423 -0.772 -0.617 -0.416 N2 VBD 13 VBD C3 C12 C 0 1 Y N N -23.907 -54.889 33.882 -3.161 -0.201 0.692 C3 VBD 14 VBD N3 N3 N 0 1 Y N N -25.942 -56.695 34.460 0.678 1.171 -0.146 N3 VBD 15 VBD C1 C13 C 0 1 Y N N -23.454 -53.425 35.747 -3.980 1.683 -0.559 C1 VBD 16 VBD C2 C14 C 0 1 Y N N -24.181 -54.463 35.177 -2.927 1.000 0.035 C2 VBD 17 VBD N4 N4 N 0 1 N N N -28.992 -58.749 34.631 2.631 -1.836 -0.695 N4 VBD 18 VBD N5 N5 N 0 1 N N N -26.726 -58.356 32.998 3.017 0.895 -0.258 N5 VBD 19 VBD O1 O1 O 0 1 N N N -29.757 -60.359 33.237 4.827 -2.094 -0.433 O1 VBD 20 VBD F1 F1 F 0 1 N N N -21.751 -51.822 35.569 -6.287 1.832 -1.072 F1 VBD 21 VBD F2 F2 F 0 1 N N N -22.631 -54.670 31.923 -4.672 -1.880 1.401 F2 VBD 22 VBD O2 O2 O 0 1 N N N -21.189 -52.636 33.008 -6.758 -0.539 0.227 O2 VBD 23 VBD C15 C15 C 0 1 N N N -30.033 -59.760 36.596 2.190 -4.149 -0.241 C15 VBD 24 VBD C16 C16 C 0 1 N N N -29.883 -60.503 37.494 1.963 -4.935 0.600 C16 VBD 25 VBD C17 C17 C 0 1 N N N -25.699 -58.037 31.991 3.040 2.193 0.429 C17 VBD 26 VBD C18 C18 C 0 1 N N N -25.734 -56.609 31.522 4.396 2.865 0.206 C18 VBD 27 VBD C19 C19 C 0 1 N N N -26.257 -56.328 30.143 4.662 4.181 0.939 C19 VBD 28 VBD C20 C20 C 0 1 N N N -24.800 -56.202 30.420 4.413 4.182 -0.572 C20 VBD 29 VBD H1 H1 H 0 1 N N N -30.442 -57.850 35.841 1.648 -3.143 -2.008 H1 VBD 30 VBD H2 H2 H 0 1 N N N -31.021 -59.218 34.831 3.393 -3.438 -1.813 H2 VBD 31 VBD H3 H3 H 0 1 N N N -28.952 -57.124 36.770 0.045 -2.515 -0.759 H3 VBD 32 VBD H4 H4 H 0 1 N N N -27.879 -59.488 31.695 4.977 0.333 0.224 H4 VBD 33 VBD H5 H5 H 0 1 N N N -27.438 -61.680 32.716 2.643 -0.529 1.989 H5 VBD 34 VBD H6 H6 H 0 1 N N N -25.954 -60.822 32.181 4.363 -0.851 2.314 H6 VBD 35 VBD H7 H7 H 0 1 N N N -26.379 -60.879 33.925 3.754 0.821 2.321 H7 VBD 36 VBD H8 H8 H 0 1 N N N -25.259 -54.757 36.888 -1.487 2.478 0.045 H8 VBD 37 VBD H9 H9 H 0 1 N N N -24.471 -55.696 33.437 -2.342 -0.732 1.154 H9 VBD 38 VBD H10 H10 H 0 1 N N N -23.669 -53.093 36.752 -3.798 2.616 -1.071 H10 VBD 39 VBD H11 H11 H 0 1 N N N -20.786 -51.952 33.529 -7.261 -0.245 0.999 H11 VBD 40 VBD H12 H12 H 0 1 N N N -29.748 -61.173 38.304 1.760 -5.639 1.353 H12 VBD 41 VBD H13 H13 H 0 1 N N N -25.851 -58.692 31.121 2.250 2.829 0.030 H13 VBD 42 VBD H14 H14 H 0 1 N N N -24.710 -58.234 32.430 2.880 2.043 1.496 H14 VBD 43 VBD H15 H15 H 0 1 N N N -25.945 -55.849 32.289 5.239 2.188 0.067 H15 VBD 44 VBD H16 H16 H 0 1 N N N -26.861 -55.427 29.957 3.870 4.569 1.580 H16 VBD 45 VBD H17 H17 H 0 1 N N N -26.628 -57.153 29.517 5.679 4.370 1.282 H17 VBD 46 VBD H18 H18 H 0 1 N N N -24.096 -56.934 29.999 5.267 4.372 -1.222 H18 VBD 47 VBD H19 H19 H 0 1 N N N -24.328 -55.208 30.439 3.458 4.571 -0.924 H19 VBD 48 # # 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 VBD C19 C20 SING N N 1 VBD C19 C18 SING N N 2 VBD C20 C18 SING N N 3 VBD C18 C17 SING N N 4 VBD F2 C4 SING N N 5 VBD C17 N5 SING N N 6 VBD C12 C13 SING N N 7 VBD C12 N5 SING N N 8 VBD C12 C11 SING N N 9 VBD N5 C10 SING N N 10 VBD O2 C5 SING N N 11 VBD C4 C5 DOUB Y N 12 VBD C4 C3 SING Y N 13 VBD O1 C11 DOUB N N 14 VBD C11 N4 SING N N 15 VBD C5 C6 SING Y N 16 VBD C3 C2 DOUB Y N 17 VBD C10 N3 DOUB Y N 18 VBD C10 C9 SING Y N 19 VBD N3 C7 SING Y N 20 VBD N4 C9 SING N N 21 VBD N4 C14 SING N N 22 VBD C9 C8 DOUB Y N 23 VBD C6 F1 SING N N 24 VBD C6 C1 DOUB Y N 25 VBD C2 C1 SING Y N 26 VBD C2 N1 SING N N 27 VBD C14 C15 SING N N 28 VBD C7 N1 SING N N 29 VBD C7 N2 DOUB Y N 30 VBD C8 N2 SING Y N 31 VBD C15 C16 TRIP N N 32 VBD C14 H1 SING N N 33 VBD C14 H2 SING N N 34 VBD C8 H3 SING N N 35 VBD C12 H4 SING N N 36 VBD C13 H5 SING N N 37 VBD C13 H6 SING N N 38 VBD C13 H7 SING N N 39 VBD N1 H8 SING N N 40 VBD C3 H9 SING N N 41 VBD C1 H10 SING N N 42 VBD O2 H11 SING N N 43 VBD C16 H12 SING N N 44 VBD C17 H13 SING N N 45 VBD C17 H14 SING N N 46 VBD C18 H15 SING N N 47 VBD C19 H16 SING N N 48 VBD C19 H17 SING N N 49 VBD C20 H18 SING N N 50 VBD C20 H19 SING N N 51 # # 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 VBD SMILES ACDLabs 12.01 "c4(c(c(F)cc(Nc1ncc2c(n1)N(C(C(N2CC#C)=O)C)CC3CC3)c4)O)F" VBD InChI InChI 1.03 "InChI=1S/C20H19F2N5O2/c1-3-6-26-16-9-23-20(24-13-7-14(21)17(28)15(22)8-13)25-18(16)27(10-12-4-5-12)11(2)19(26)29/h1,7-9,11-12,28H,4-6,10H2,2H3,(H,23,24,25)/t11-/m0/s1" VBD InChIKey InChI 1.03 VCABIQKTZQAYKL-NSHDSACASA-N VBD SMILES_CANONICAL CACTVS 3.385 "C[C@@H]1N(CC2CC2)c3nc(Nc4cc(F)c(O)c(F)c4)ncc3N(CC#C)C1=O" VBD SMILES CACTVS 3.385 "C[CH]1N(CC2CC2)c3nc(Nc4cc(F)c(O)c(F)c4)ncc3N(CC#C)C1=O" VBD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@H]1C(=O)N(c2cnc(nc2N1CC3CC3)Nc4cc(c(c(c4)F)O)F)CC#C" VBD SMILES "OpenEye OEToolkits" 2.0.7 "CC1C(=O)N(c2cnc(nc2N1CC3CC3)Nc4cc(c(c(c4)F)O)F)CC#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 VBD "SYSTEMATIC NAME" ACDLabs 12.01 "(7S)-8-(cyclopropylmethyl)-2-[(3,5-difluoro-4-hydroxyphenyl)amino]-7-methyl-5-(prop-2-yn-1-yl)-7,8-dihydropteridin-6(5H)-one" VBD "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(7~{S})-2-[[3,5-bis(fluoranyl)-4-oxidanyl-phenyl]amino]-8-(cyclopropylmethyl)-7-methyl-5-prop-2-ynyl-7~{H}-pteridin-6-one" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VBD "Create component" 2020-07-22 RCSB VBD "Initial release" 2021-03-03 RCSB ##