data_V5W # _chem_comp.id V5W _chem_comp.name "4-(Cyclopentylamino)-2-[(2,5-dichlorophenyl)methylamino]-N-[3-(2-oxo-1,3-oxazolidin-3-yl)propyl]pyrimidine-5-carboxamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H28 Cl2 N6 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "2-[[2,5-bis(chloranyl)phenyl]methylamino]-4-(cyclopentylamino)-N-[3-(2-oxidanylidene-1,3-oxazolidin-3-yl)propyl]pyrimidine-5-carboxamide; 71552942" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-04-19 _chem_comp.pdbx_modified_date 2021-05-14 _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 507.413 _chem_comp.one_letter_code ? _chem_comp.three_letter_code V5W _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 7OAI _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # # 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 V5W C C1 C 0 1 Y N N 8.502 0.097 13.430 6.990 2.069 1.039 C V5W 1 V5W O O1 O 0 1 N N N 4.194 -10.971 19.011 -9.026 3.272 -0.111 O V5W 2 V5W CL1 CL1 CL 0 0 N N N 10.300 -1.386 9.624 4.750 1.371 -2.803 CL1 V5W 3 V5W C20 C2 C 0 1 Y N N 9.610 -0.841 11.115 5.614 1.635 -1.320 C20 V5W 4 V5W C21 C3 C 0 1 Y N N 8.650 0.160 11.062 6.994 1.741 -1.333 C21 V5W 5 V5W C22 C4 C 0 1 Y N N 8.092 0.635 12.230 7.681 1.958 -0.154 C22 V5W 6 V5W CL CL2 CL 0 0 N N N 7.766 0.649 14.902 7.853 2.348 2.519 CL V5W 7 V5W C2 C5 C 0 1 Y N N 10.042 -1.391 12.320 4.924 1.739 -0.126 C2 V5W 8 V5W C1 C6 C 0 1 Y N N 9.460 -0.900 13.492 5.610 1.962 1.052 C1 V5W 9 V5W C3 C7 C 0 1 N N N 11.170 -2.402 12.357 3.421 1.623 -0.112 C3 V5W 10 V5W N N1 N 0 1 N N N 11.145 -3.405 13.403 3.040 0.210 -0.167 N V5W 11 V5W C4 C8 C 0 1 Y N N 10.163 -4.319 13.522 1.707 -0.146 -0.165 C4 V5W 12 V5W N5 N2 N 0 1 Y N N 10.330 -5.293 14.427 0.787 0.809 -0.113 N5 V5W 13 V5W C19 C9 C 0 1 Y N N 9.319 -6.175 14.522 -0.501 0.517 -0.109 C19 V5W 14 V5W C11 C10 C 0 1 Y N N 8.134 -6.103 13.787 -0.894 -0.825 -0.161 C11 V5W 15 V5W C5 C11 C 0 1 Y N N 8.112 -5.046 12.827 0.114 -1.812 -0.215 C5 V5W 16 V5W N2 N3 N 0 1 N N N 7.146 -4.954 11.896 -0.217 -3.150 -0.267 N2 V5W 17 V5W C6 C12 C 0 1 N N N 6.752 -3.741 11.191 0.835 -4.168 -0.204 C6 V5W 18 V5W C10 C13 C 0 1 N N N 5.564 -3.992 10.263 1.139 -4.523 1.266 C10 V5W 19 V5W C9 C14 C 0 1 N N N 4.837 -2.663 10.197 0.279 -5.783 1.537 C9 V5W 20 V5W C8 C15 C 0 1 N N N 4.948 -2.095 11.555 0.384 -6.562 0.203 C8 V5W 21 V5W C7 C16 C 0 1 N N N 6.256 -2.633 12.163 0.355 -5.464 -0.880 C7 V5W 22 V5W N1 N4 N 0 1 Y N N 9.118 -4.177 12.705 1.385 -1.430 -0.220 N1 V5W 23 V5W C12 C17 C 0 1 N N N 6.954 -7.004 14.019 -2.318 -1.196 -0.158 C12 V5W 24 V5W O2 O2 O 0 1 N N N 6.111 -7.156 13.138 -2.644 -2.359 -0.306 O2 V5W 25 V5W N3 N5 N 0 1 N N N 6.827 -7.571 15.222 -3.261 -0.248 0.009 N3 V5W 26 V5W C13 C18 C 0 1 N N N 5.823 -8.594 15.498 -4.679 -0.618 0.012 C13 V5W 27 V5W C14 C19 C 0 1 N N N 6.312 -9.983 15.119 -5.532 0.635 0.218 C14 V5W 28 V5W C15 C20 C 0 1 N N N 5.477 -11.141 15.665 -7.013 0.249 0.221 C15 V5W 29 V5W N4 N6 N 0 1 N N N 5.302 -11.090 17.118 -7.830 1.448 0.419 N4 V5W 30 V5W C18 C21 C 0 1 N N N 6.082 -11.949 18.000 -8.262 1.985 1.718 C18 V5W 31 V5W C17 C22 C 0 1 N N N 5.420 -11.674 19.327 -9.081 3.236 1.345 C17 V5W 32 V5W C16 C23 C 0 1 N N N 4.171 -10.666 17.703 -8.306 2.236 -0.556 C16 V5W 33 V5W O1 O3 O 0 1 N N N 3.221 -10.121 17.191 -8.102 2.029 -1.735 O1 V5W 34 V5W H1 H1 H 0 1 N N N 8.341 0.565 10.110 7.533 1.660 -2.266 H1 V5W 35 V5W H2 H2 H 0 1 N N N 7.346 1.416 12.204 8.758 2.042 -0.164 H2 V5W 36 V5W H3 H3 H 0 1 N N N 9.759 -1.300 14.450 5.070 2.053 1.983 H3 V5W 37 V5W H4 H4 H 0 1 N N N 11.167 -2.933 11.394 3.031 2.069 0.803 H4 V5W 38 V5W H5 H5 H 0 1 N N N 12.110 -1.841 12.463 3.008 2.145 -0.976 H5 V5W 39 V5W H6 H6 H 0 1 N N N 11.994 -3.924 13.306 3.725 -0.476 -0.204 H6 V5W 40 V5W H7 H7 H 0 1 N N N 9.432 -6.996 15.215 -1.240 1.303 -0.066 H7 V5W 41 V5W H8 H8 H 0 1 N N N 6.314 -5.277 12.348 -1.146 -3.417 -0.345 H8 V5W 42 V5W H9 H9 H 0 1 N N N 7.596 -3.350 10.604 1.737 -3.802 -0.695 H9 V5W 43 V5W H10 H10 H 0 1 N N N 4.908 -4.773 10.676 2.197 -4.749 1.393 H10 V5W 44 V5W H11 H11 H 0 1 N N N 5.910 -4.295 9.264 0.842 -3.708 1.925 H11 V5W 45 V5W H12 H12 H 0 1 N N N 5.313 -1.999 9.461 0.696 -6.366 2.358 H12 V5W 46 V5W H13 H13 H 0 1 N N N 3.781 -2.813 9.927 -0.755 -5.508 1.743 H13 V5W 47 V5W H14 H14 H 0 1 N N N 4.979 -0.997 11.504 1.321 -7.118 0.158 H14 V5W 48 V5W H15 H15 H 0 1 N N N 4.090 -2.409 12.167 -0.465 -7.236 0.086 H15 V5W 49 V5W H16 H16 H 0 1 N N N 6.069 -3.055 13.161 -0.660 -5.336 -1.255 H16 V5W 50 V5W H17 H17 H 0 1 N N N 7.002 -1.828 12.239 1.025 -5.728 -1.698 H17 V5W 51 V5W H18 H18 H 0 1 N N N 7.440 -7.285 15.958 -3.002 0.679 0.128 H18 V5W 52 V5W H19 H19 H 0 1 N N N 4.915 -8.366 14.920 -4.936 -1.080 -0.941 H19 V5W 53 V5W H20 H20 H 0 1 N N N 5.587 -8.581 16.572 -4.869 -1.324 0.821 H20 V5W 54 V5W H21 H21 H 0 1 N N N 6.315 -10.054 14.021 -5.276 1.097 1.172 H21 V5W 55 V5W H22 H22 H 0 1 N N N 7.339 -10.097 15.497 -5.343 1.341 -0.590 H22 V5W 56 V5W H23 H23 H 0 1 N N N 4.484 -11.110 15.192 -7.270 -0.213 -0.732 H23 V5W 57 V5W H24 H24 H 0 1 N N N 5.977 -12.086 15.406 -7.203 -0.457 1.030 H24 V5W 58 V5W H25 H25 H 0 1 N N N 5.993 -13.008 17.716 -8.886 1.261 2.243 H25 V5W 59 V5W H26 H26 H 0 1 N N N 7.143 -11.660 18.010 -7.399 2.260 2.325 H26 V5W 60 V5W H27 H27 H 0 1 N N N 5.199 -12.617 19.849 -8.625 4.131 1.767 H27 V5W 61 V5W H28 H28 H 0 1 N N N 6.069 -11.049 19.958 -10.112 3.133 1.686 H28 V5W 62 # # 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 V5W CL1 C20 SING N N 1 V5W C9 C10 SING N N 2 V5W C9 C8 SING N N 3 V5W C10 C6 SING N N 4 V5W C21 C20 DOUB Y N 5 V5W C21 C22 SING Y N 6 V5W C20 C2 SING Y N 7 V5W C6 N2 SING N N 8 V5W C6 C7 SING N N 9 V5W C8 C7 SING N N 10 V5W N2 C5 SING N N 11 V5W C22 C DOUB Y N 12 V5W C2 C3 SING N N 13 V5W C2 C1 DOUB Y N 14 V5W C3 N SING N N 15 V5W N1 C5 DOUB Y N 16 V5W N1 C4 SING Y N 17 V5W C5 C11 SING Y N 18 V5W O2 C12 DOUB N N 19 V5W N C4 SING N N 20 V5W C C1 SING Y N 21 V5W C CL SING N N 22 V5W C4 N5 DOUB Y N 23 V5W C11 C12 SING N N 24 V5W C11 C19 DOUB Y N 25 V5W C12 N3 SING N N 26 V5W N5 C19 SING Y N 27 V5W C14 C13 SING N N 28 V5W C14 C15 SING N N 29 V5W N3 C13 SING N N 30 V5W C15 N4 SING N N 31 V5W N4 C16 SING N N 32 V5W N4 C18 SING N N 33 V5W O1 C16 DOUB N N 34 V5W C16 O SING N N 35 V5W C18 C17 SING N N 36 V5W O C17 SING N N 37 V5W C21 H1 SING N N 38 V5W C22 H2 SING N N 39 V5W C1 H3 SING N N 40 V5W C3 H4 SING N N 41 V5W C3 H5 SING N N 42 V5W N H6 SING N N 43 V5W C19 H7 SING N N 44 V5W N2 H8 SING N N 45 V5W C6 H9 SING N N 46 V5W C10 H10 SING N N 47 V5W C10 H11 SING N N 48 V5W C9 H12 SING N N 49 V5W C9 H13 SING N N 50 V5W C8 H14 SING N N 51 V5W C8 H15 SING N N 52 V5W C7 H16 SING N N 53 V5W C7 H17 SING N N 54 V5W N3 H18 SING N N 55 V5W C13 H19 SING N N 56 V5W C13 H20 SING N N 57 V5W C14 H21 SING N N 58 V5W C14 H22 SING N N 59 V5W C15 H23 SING N N 60 V5W C15 H24 SING N N 61 V5W C18 H25 SING N N 62 V5W C18 H26 SING N N 63 V5W C17 H27 SING N N 64 V5W C17 H28 SING N N 65 # # 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 V5W InChI InChI 1.03 "InChI=1S/C23H28Cl2N6O3/c24-16-6-7-19(25)15(12-16)13-27-22-28-14-18(20(30-22)29-17-4-1-2-5-17)21(32)26-8-3-9-31-10-11-34-23(31)33/h6-7,12,14,17H,1-5,8-11,13H2,(H,26,32)(H2,27,28,29,30)" V5W InChIKey InChI 1.03 XYASHXPUZJDWIO-UHFFFAOYSA-N V5W SMILES_CANONICAL CACTVS 3.385 "Clc1ccc(Cl)c(CNc2ncc(C(=O)NCCCN3CCOC3=O)c(NC4CCCC4)n2)c1" V5W SMILES CACTVS 3.385 "Clc1ccc(Cl)c(CNc2ncc(C(=O)NCCCN3CCOC3=O)c(NC4CCCC4)n2)c1" V5W SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(c(cc1Cl)CNc2ncc(c(n2)NC3CCCC3)C(=O)NCCCN4CCOC4=O)Cl" V5W SMILES "OpenEye OEToolkits" 2.0.7 "c1cc(c(cc1Cl)CNc2ncc(c(n2)NC3CCCC3)C(=O)NCCCN4CCOC4=O)Cl" # _pdbx_chem_comp_identifier.comp_id V5W _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "2-[[2,5-bis(chloranyl)phenyl]methylamino]-4-(cyclopentylamino)-~{N}-[3-(2-oxidanylidene-1,3-oxazolidin-3-yl)propyl]pyrimidine-5-carboxamide" # # loop_ _pdbx_chem_comp_synonyms.ordinal _pdbx_chem_comp_synonyms.comp_id _pdbx_chem_comp_synonyms.name _pdbx_chem_comp_synonyms.provenance _pdbx_chem_comp_synonyms.type 1 V5W "2-[[2,5-bis(chloranyl)phenyl]methylamino]-4-(cyclopentylamino)-N-[3-(2-oxidanylidene-1,3-oxazolidin-3-yl)propyl]pyrimidine-5-carboxamide" AUTHOR ? 2 V5W 71552942 PUBCHEM ? # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site V5W "Create component" 2021-04-19 PDBE V5W "Initial release" 2021-05-19 RCSB ##