data_WP9 # _chem_comp.id WP9 _chem_comp.name "~{S}-[2-[3-[[(2~{R})-4-[[(2~{S})-2-azanyl-3-oxidanylidene-propoxy]-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl] 2-azanylbenzenecarbothioate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C21 H33 N4 O9 P S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-10-10 _chem_comp.pdbx_modified_date 2024-09-27 _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 548.547 _chem_comp.one_letter_code ? _chem_comp.three_letter_code WP9 _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 8QRX _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _chem_comp.pdbx_pcm N # 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_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_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 WP9 N N1 N 0 1 N N N N N N 12.310 -8.080 -2.366 -8.941 -3.192 -1.366 N WP9 1 WP9 CA C1 C 0 1 N N S N N N 11.143 -8.956 -2.398 -7.956 -3.882 -0.522 CA WP9 2 WP9 C C2 C 0 1 N N N N N N 10.445 -9.095 -1.041 -8.611 -5.057 0.156 C WP9 3 WP9 O O1 O 0 1 N N N N N N 9.213 -9.033 -0.966 -9.778 -5.296 -0.044 O WP9 4 WP9 CB C3 C 0 1 N N N N N N 11.547 -10.335 -2.920 -7.425 -2.913 0.537 CB WP9 5 WP9 OG O2 O 0 1 N N N N N N 11.849 -11.236 -1.851 -6.703 -1.858 -0.101 OG WP9 6 WP9 P24 P1 P 0 1 N N N N N N 11.820 -12.825 -2.111 -6.004 -0.657 0.712 P24 WP9 7 WP9 C11 C4 C 0 1 N N N N N N 3.856 -11.421 -5.560 8.026 -0.678 -0.425 C11 WP9 8 WP9 O11 O3 O 0 1 N N N N N N 3.471 -10.309 -5.913 7.704 -0.639 -1.597 O11 WP9 9 WP9 C12 C5 C 0 1 Y N N N N N 4.194 -12.393 -6.495 9.362 -1.169 -0.043 C12 WP9 10 WP9 C13 C6 C 0 1 Y N N N N N 3.240 -12.887 -7.383 10.217 -1.716 -1.012 C13 WP9 11 WP9 N13 N2 N 0 1 N N N N N N 2.007 -12.401 -7.285 9.810 -1.795 -2.337 N13 WP9 12 WP9 C14 C7 C 0 1 Y N N N N N 5.502 -12.873 -6.556 9.787 -1.090 1.286 C14 WP9 13 WP9 C15 C8 C 0 1 Y N N N N N 3.575 -13.852 -8.324 11.474 -2.176 -0.639 C15 WP9 14 WP9 C16 C9 C 0 1 Y N N N N N 5.844 -13.842 -7.500 11.036 -1.551 1.637 C16 WP9 15 WP9 C17 C10 C 0 1 Y N N N N N 4.881 -14.331 -8.384 11.877 -2.096 0.679 C17 WP9 16 WP9 O23 O4 O 0 1 N N N N N N 12.959 -13.141 -3.195 -7.009 0.006 1.572 O23 WP9 17 WP9 O26 O5 O 0 1 N N N N N N 12.004 -13.620 -0.882 -4.819 -1.247 1.628 O26 WP9 18 WP9 O27 O6 O 0 1 N N N N N N 10.401 -13.082 -2.832 -5.398 0.413 -0.327 O27 WP9 19 WP9 C28 C11 C 0 1 N N N N N N 9.215 -13.188 -2.050 -4.804 1.646 0.083 C28 WP9 20 WP9 C29 C12 C 0 1 N N N N N N 7.977 -12.840 -2.894 -4.333 2.421 -1.150 C29 WP9 21 WP9 C30 C13 C 0 1 N N N N N N 6.751 -12.802 -1.991 -3.302 1.587 -1.912 C30 WP9 22 WP9 C31 C14 C 0 1 N N N N N N 8.132 -11.439 -3.476 -5.530 2.708 -2.059 C31 WP9 23 WP9 C32 C15 C 0 1 N N R N N N 7.770 -13.880 -4.024 -3.698 3.741 -0.711 C32 WP9 24 WP9 O33 O7 O 0 1 N N N N N N 8.941 -13.968 -4.844 -4.646 4.497 0.046 O33 WP9 25 WP9 C34 C16 C 0 1 N N N N N N 7.470 -15.257 -3.424 -2.487 3.458 0.141 C34 WP9 26 WP9 O35 O8 O 0 1 N N N N N N 8.378 -16.043 -3.148 -2.525 3.661 1.336 O35 WP9 27 WP9 N36 N3 N 0 1 N N N N N N 6.167 -15.517 -3.248 -1.363 2.978 -0.426 N36 WP9 28 WP9 C37 C17 C 0 1 N N N N N N 5.684 -16.776 -2.682 -0.224 2.597 0.414 C37 WP9 29 WP9 C38 C18 C 0 1 N N N N N N 4.884 -16.471 -1.424 0.915 2.088 -0.472 C38 WP9 30 WP9 C39 C19 C 0 1 N N N N N N 3.562 -15.799 -1.792 2.086 1.696 0.392 C39 WP9 31 WP9 O40 O9 O 0 1 N N N N N N 2.519 -16.448 -1.852 2.016 1.812 1.597 O40 WP9 32 WP9 N41 N4 N 0 1 N N N N N N 3.634 -14.477 -2.011 3.211 1.216 -0.175 N41 WP9 33 WP9 C42 C20 C 0 1 N N N N N N 2.461 -13.678 -2.375 4.349 0.835 0.665 C42 WP9 34 WP9 C43 C21 C 0 1 N N N N N N 2.635 -13.092 -3.763 5.488 0.326 -0.221 C43 WP9 35 WP9 S44 S1 S 0 1 N N N N N N 4.018 -11.912 -3.890 6.894 -0.145 0.817 S44 WP9 36 WP9 HN H1 H 0 1 N N N N N N 12.042 -7.179 -2.024 -9.259 -3.791 -2.114 HN WP9 37 WP9 H1 H2 H 0 1 N N N N N N 13.005 -8.472 -1.763 -9.717 -2.857 -0.816 H1 WP9 38 WP9 HA H4 H 0 1 N N N N N N 10.412 -8.535 -3.104 -7.129 -4.232 -1.140 HA WP9 39 WP9 H3 H5 H 0 1 N N N N N N 11.032 -9.248 -0.147 -8.037 -5.687 0.820 H3 WP9 40 WP9 HB1 H6 H 0 1 N N N N N N 10.718 -10.749 -3.512 -8.260 -2.494 1.098 HB1 WP9 41 WP9 HB2 H7 H 0 1 N N N N N N 12.436 -10.228 -3.559 -6.762 -3.447 1.218 HB2 WP9 42 WP9 H131 H8 H 0 0 N N N N N N 1.973 -11.722 -6.552 8.972 -1.392 -2.612 H131 WP9 43 WP9 H132 H9 H 0 0 N N N N N N 1.749 -11.970 -8.150 10.363 -2.255 -2.988 H132 WP9 44 WP9 H14 H10 H 0 1 N N N N N N 6.249 -12.495 -5.874 9.136 -0.666 2.037 H14 WP9 45 WP9 H15 H11 H 0 1 N N N N N N 2.827 -14.229 -9.005 12.137 -2.597 -1.380 H15 WP9 46 WP9 H16 H12 H 0 1 N N N N N N 6.857 -14.215 -7.547 11.363 -1.488 2.664 H16 WP9 47 WP9 H17 H13 H 0 1 N N N N N N 5.149 -15.080 -9.114 12.854 -2.455 0.964 H17 WP9 48 WP9 H4 H14 H 0 1 N N N N N N 12.772 -14.172 -0.973 -4.123 -1.697 1.129 H4 WP9 49 WP9 H281 H15 H 0 0 N N N N N N 9.280 -12.493 -1.199 -5.539 2.240 0.626 H281 WP9 50 WP9 H282 H16 H 0 0 N N N N N N 9.120 -14.218 -1.676 -3.952 1.442 0.731 H282 WP9 51 WP9 H302 H17 H 0 0 N N N N N N 6.906 -12.062 -1.192 -3.786 0.706 -2.334 H302 WP9 52 WP9 H303 H18 H 0 0 N N N N N N 5.868 -12.522 -2.584 -2.874 2.186 -2.717 H303 WP9 53 WP9 H301 H19 H 0 0 N N N N N N 6.593 -13.795 -1.545 -2.510 1.276 -1.230 H301 WP9 54 WP9 H312 H20 H 0 0 N N N N N N 8.278 -10.716 -2.660 -6.303 3.224 -1.490 H312 WP9 55 WP9 H313 H21 H 0 0 N N N N N N 9.004 -11.415 -4.147 -5.211 3.336 -2.891 H313 WP9 56 WP9 H311 H22 H 0 0 N N N N N N 7.227 -11.175 -4.042 -5.927 1.769 -2.444 H311 WP9 57 WP9 H32 H23 H 0 1 N N N N N N 6.908 -13.566 -4.632 -3.399 4.311 -1.590 H32 WP9 58 WP9 H33 H24 H 0 1 N N N N N N 9.387 -14.789 -4.672 -4.957 4.051 0.845 H33 WP9 59 WP9 H36 H25 H 0 1 N N N N N N 5.499 -14.823 -3.514 -1.307 2.885 -1.390 H36 WP9 60 WP9 H371 H26 H 0 0 N N N N N N 5.042 -17.288 -3.414 0.116 3.464 0.980 H371 WP9 61 WP9 H372 H27 H 0 0 N N N N N N 6.539 -17.420 -2.430 -0.529 1.809 1.103 H372 WP9 62 WP9 H381 H28 H 0 0 N N N N N N 4.678 -17.409 -0.887 0.575 1.221 -1.038 H381 WP9 63 WP9 H382 H29 H 0 0 N N N N N N 5.466 -15.798 -0.777 1.219 2.876 -1.161 H382 WP9 64 WP9 H41 H30 H 0 1 N N N N N N 4.520 -14.021 -1.923 3.266 1.123 -1.139 H41 WP9 65 WP9 H422 H31 H 0 0 N N N N N N 2.339 -12.861 -1.649 4.689 1.702 1.231 H422 WP9 66 WP9 H421 H32 H 0 0 N N N N N N 1.567 -14.318 -2.361 4.044 0.047 1.354 H421 WP9 67 WP9 H431 H33 H 0 0 N N N N N N 1.707 -12.570 -4.039 5.148 -0.541 -0.787 H431 WP9 68 WP9 H432 H34 H 0 0 N N N N N N 2.816 -13.917 -4.468 5.792 1.113 -0.910 H432 WP9 69 # 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 WP9 C17 C15 DOUB Y N 1 WP9 C17 C16 SING Y N 2 WP9 C15 C13 SING Y N 3 WP9 C16 C14 DOUB Y N 4 WP9 C13 N13 SING N N 5 WP9 C13 C12 DOUB Y N 6 WP9 C14 C12 SING Y N 7 WP9 C12 C11 SING N N 8 WP9 O11 C11 DOUB N N 9 WP9 C11 S44 SING N N 10 WP9 O33 C32 SING N N 11 WP9 C32 C34 SING N N 12 WP9 C32 C29 SING N N 13 WP9 S44 C43 SING N N 14 WP9 C43 C42 SING N N 15 WP9 C31 C29 SING N N 16 WP9 C34 N36 SING N N 17 WP9 C34 O35 DOUB N N 18 WP9 N36 C37 SING N N 19 WP9 O23 P24 DOUB N N 20 WP9 CB CA SING N N 21 WP9 CB OG SING N N 22 WP9 C29 C28 SING N N 23 WP9 C29 C30 SING N N 24 WP9 O27 P24 SING N N 25 WP9 O27 C28 SING N N 26 WP9 C37 C38 SING N N 27 WP9 CA N SING N N 28 WP9 CA C SING N N 29 WP9 C42 N41 SING N N 30 WP9 P24 OG SING N N 31 WP9 P24 O26 SING N N 32 WP9 N41 C39 SING N N 33 WP9 O40 C39 DOUB N N 34 WP9 C39 C38 SING N N 35 WP9 C O DOUB N N 36 WP9 N HN SING N N 37 WP9 N H1 SING N N 38 WP9 CA HA SING N N 39 WP9 C H3 SING N N 40 WP9 CB HB1 SING N N 41 WP9 CB HB2 SING N N 42 WP9 N13 H131 SING N N 43 WP9 N13 H132 SING N N 44 WP9 C14 H14 SING N N 45 WP9 C15 H15 SING N N 46 WP9 C16 H16 SING N N 47 WP9 C17 H17 SING N N 48 WP9 O26 H4 SING N N 49 WP9 C28 H281 SING N N 50 WP9 C28 H282 SING N N 51 WP9 C30 H302 SING N N 52 WP9 C30 H303 SING N N 53 WP9 C30 H301 SING N N 54 WP9 C31 H312 SING N N 55 WP9 C31 H313 SING N N 56 WP9 C31 H311 SING N N 57 WP9 C32 H32 SING N N 58 WP9 O33 H33 SING N N 59 WP9 N36 H36 SING N N 60 WP9 C37 H371 SING N N 61 WP9 C37 H372 SING N N 62 WP9 C38 H381 SING N N 63 WP9 C38 H382 SING N N 64 WP9 N41 H41 SING N N 65 WP9 C42 H422 SING N N 66 WP9 C42 H421 SING N N 67 WP9 C43 H431 SING N N 68 WP9 C43 H432 SING N N 69 # 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 WP9 InChI InChI 1.06 "InChI=1S/C21H33N4O9PS/c1-21(2,13-34-35(31,32)33-12-14(22)11-26)18(28)19(29)25-8-7-17(27)24-9-10-36-20(30)15-5-3-4-6-16(15)23/h3-6,11,14,18,28H,7-10,12-13,22-23H2,1-2H3,(H,24,27)(H,25,29)(H,31,32)/t14-,18+/m1/s1" WP9 InChIKey InChI 1.06 CMCFYAYZTKTCDB-KDOFPFPSSA-N WP9 SMILES_CANONICAL CACTVS 3.385 "CC(C)(CO[P](O)(=O)OC[C@H](N)C=O)[C@@H](O)C(=O)NCCC(=O)NCCSC(=O)c1ccccc1N" WP9 SMILES CACTVS 3.385 "CC(C)(CO[P](O)(=O)OC[CH](N)C=O)[CH](O)C(=O)NCCC(=O)NCCSC(=O)c1ccccc1N" WP9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)(COP(=O)(O)OC[C@@H](C=O)N)[C@H](C(=O)NCCC(=O)NCCSC(=O)c1ccccc1N)O" WP9 SMILES "OpenEye OEToolkits" 2.0.7 "CC(C)(COP(=O)(O)OCC(C=O)N)C(C(=O)NCCC(=O)NCCSC(=O)c1ccccc1N)O" # _pdbx_chem_comp_identifier.comp_id WP9 _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 "~{S}-[2-[3-[[(2~{R})-4-[[(2~{S})-2-azanyl-3-oxidanylidene-propoxy]-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl] 2-azanylbenzenecarbothioate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site WP9 "Create component" 2023-10-10 PDBE WP9 "Initial release" 2024-06-26 RCSB WP9 "Modify PCM" 2024-09-27 PDBE #