data_WJS
#
_chem_comp.id WJS
_chem_comp.name
"(2~{S})-2-$l^{4}-azanyl-3-[[(2~{R})-3-octadecanoyloxy-2-oxidanyl-propoxy]-oxidanyl-oxidanylidene-$l^{6}-phosphanyl]oxy-propanoic acid"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C24 H20 N O9 P"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-10-30
_chem_comp.pdbx_modified_date 2020-11-06
_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 497.391
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code WJS
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag Y
_chem_comp.pdbx_ideal_coordinates_details Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag Y
_chem_comp.pdbx_model_coordinates_db_code 6WM2
_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.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
WJS P25 P1 P 0 1 N N N N N N 242.527 245.675 219.084 ? ? ? P25 WJS 1
WJS C09 C1 C 0 1 N N N N N N 253.416 259.492 223.179 ? ? ? C09 WJS 2
WJS C10 C2 C 0 1 N N N N N N 252.967 258.117 222.590 ? ? ? C10 WJS 3
WJS C11 C3 C 0 1 N N N N N N 251.506 257.646 222.896 ? ? ? C11 WJS 4
WJS C12 C4 C 0 1 N N N N N N 251.145 256.183 222.537 ? ? ? C12 WJS 5
WJS C13 C5 C 0 1 N N N N N N 251.903 255.520 221.350 ? ? ? C13 WJS 6
WJS C14 C6 C 0 1 N N N N N N 251.625 254.000 221.099 ? ? ? C14 WJS 7
WJS C15 C7 C 0 1 N N N N N N 250.357 253.387 221.731 ? ? ? C15 WJS 8
WJS C16 C8 C 0 1 N N N N N N 249.342 252.809 220.722 ? ? ? C16 WJS 9
WJS C17 C9 C 0 1 N N N N N N 248.271 251.914 221.350 ? ? ? C17 WJS 10
WJS C18 C10 C 0 1 N N N N N N 247.212 251.461 220.369 ? ? ? C18 WJS 11
WJS O19 O1 O 0 1 N N N N N N 247.149 251.864 219.215 ? ? ? O19 WJS 12
WJS O20 O2 O 0 1 N N N N N N 246.330 250.576 220.852 ? ? ? O20 WJS 13
WJS C21 C11 C 0 1 N N N N N N 245.289 250.083 220.037 ? ? ? C21 WJS 14
WJS C22 C12 C 0 1 N N R N N N 245.199 248.539 220.146 ? ? ? C22 WJS 15
WJS C23 C13 C 0 1 N N N N N N 243.840 247.952 219.663 ? ? ? C23 WJS 16
WJS O24 O3 O 0 1 N N N N N N 243.983 246.653 219.253 ? ? ? O24 WJS 17
WJS O26 O4 O 0 1 N N N N N N 241.643 246.589 218.311 ? ? ? O26 WJS 18
WJS O27 O5 O 0 1 N N N N N N 242.258 245.251 220.484 ? ? ? O27 WJS 19
WJS O28 O6 O 0 1 N N N N N N 242.898 244.350 218.169 ? ? ? O28 WJS 20
WJS C29 C14 C 0 1 N N N N N N 242.526 243.030 218.481 ? ? ? C29 WJS 21
WJS C30 C15 C 0 1 N N S N N N 241.184 242.575 217.788 ? ? ? C30 WJS 22
WJS C31 C16 C 0 1 N N N N N N 241.210 241.090 217.254 ? ? ? C31 WJS 23
WJS O32 O7 O 0 1 N N N N N N 242.168 240.752 216.519 ? ? ? O32 WJS 24
WJS O33 O8 O 0 1 N N N N N N 240.294 240.296 217.561 ? ? ? O33 WJS 25
WJS N34 N1 N 0 1 N N N N N N 240.093 242.689 218.780 ? ? ? N34 WJS 26
WJS O35 O9 O 0 1 N N N N N N 245.530 248.226 221.445 ? ? ? O35 WJS 27
WJS H1 H1 H 0 1 N N N N N N 253.904 260.316 223.678 ? ? ? H1 WJS 28
WJS H4 H4 H 0 1 N N N N N N 253.638 257.515 221.995 ? ? ? H4 WJS 29
WJS H5 H5 H 0 1 N N N N N N 250.781 258.313 223.339 ? ? ? H5 WJS 30
WJS H6 H6 H 0 1 N N N N N N 250.393 255.641 223.091 ? ? ? H6 WJS 31
WJS H7 H7 H 0 1 N N N N N N 252.587 256.081 220.730 ? ? ? H7 WJS 32
WJS H16 H16 H 0 1 N N N N N N 245.485 250.361 218.991 ? ? ? H16 WJS 33
WJS H17 H17 H 0 1 N N N N N N 244.335 250.525 220.361 ? ? ? H17 WJS 34
WJS H18 H18 H 0 1 N N N N N N 245.971 248.132 219.477 ? ? ? H18 WJS 35
WJS H19 H19 H 0 1 N N N N N N 243.466 248.555 218.822 ? ? ? H19 WJS 36
WJS H20 H20 H 0 1 N N N N N N 243.117 247.990 220.491 ? ? ? H20 WJS 37
WJS H21 H21 H 0 1 N N N N N N 241.452 245.652 220.787 ? ? ? H21 WJS 38
WJS H22 H22 H 0 1 N N N N N N 242.399 242.952 219.571 ? ? ? H22 WJS 39
WJS H23 H23 H 0 1 N N N N N N 243.332 242.355 218.157 ? ? ? H23 WJS 40
WJS H24 H24 H 0 1 N N N N N N 240.986 243.246 216.939 ? ? ? H24 WJS 41
WJS H25 H25 H 0 1 N N N N N N 240.457 239.452 217.157 ? ? ? H25 WJS 42
WJS H26 H26 H 0 1 N N N N N N 240.058 243.624 219.132 ? ? ? H26 WJS 43
WJS H27 H27 H 0 1 N N N N N N 239.221 242.465 218.344 ? ? ? H27 WJS 44
WJS H28 H28 H 0 1 N N N N N N 240.261 242.055 219.535 ? ? ? H28 WJS 45
WJS H29 H29 H 0 1 N N N N N N 246.367 248.619 221.662 ? ? ? H29 WJS 46
WJS C8 C17 C 0 1 N N N N N N ? ? ? ? ? ? C8 WJS 47
WJS C7 C18 C 0 1 N N N N N N ? ? ? ? ? ? C7 WJS 48
WJS C6 C19 C 0 1 N N N N N N ? ? ? ? ? ? C6 WJS 49
WJS C5 C20 C 0 1 N N N N N N ? ? ? ? ? ? C5 WJS 50
WJS C4 C21 C 0 1 N N N N N N ? ? ? ? ? ? C4 WJS 51
WJS C3 C22 C 0 1 N N N N N N ? ? ? ? ? ? C3 WJS 52
WJS C2 C23 C 0 1 N N N N N N ? ? ? ? ? ? C2 WJS 53
WJS C1 C24 C 0 1 N N N N N N ? ? ? ? ? ? C1 WJS 54
WJS H30 H30 H 0 1 N N N N N N ? ? ? ? ? ? H30 WJS 55
#
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
WJS O32 C31 DOUB N N 1
WJS C31 O33 SING N N 2
WJS C31 C30 SING N N 3
WJS C30 C29 SING N N 4
WJS C30 N34 SING N N 5
WJS O28 C29 SING N N 6
WJS O28 P25 SING N N 7
WJS O26 P25 DOUB N N 8
WJS P25 O24 SING N N 9
WJS P25 O27 SING N N 10
WJS O19 C18 DOUB N N 11
WJS O24 C23 SING N N 12
WJS C23 C22 SING N N 13
WJS C21 C22 SING N N 14
WJS C21 O20 SING N N 15
WJS C22 O35 SING N N 16
WJS C18 O20 SING N N 17
WJS C18 C17 SING N N 18
WJS C16 C17 SING N N 19
WJS C16 C15 SING N N 20
WJS C14 C13 SING N N 21
WJS C14 C15 SING N N 22
WJS C13 C12 SING N N 23
WJS C12 C11 SING N N 24
WJS C10 C11 SING N N 25
WJS C10 C09 SING N N 26
WJS C09 H1 SING N N 27
WJS C10 H4 SING N N 28
WJS C11 H5 SING N N 29
WJS C12 H6 SING N N 30
WJS C13 H7 SING N N 31
WJS C21 H16 SING N N 32
WJS C21 H17 SING N N 33
WJS C22 H18 SING N N 34
WJS C23 H19 SING N N 35
WJS C23 H20 SING N N 36
WJS O27 H21 SING N N 37
WJS C29 H22 SING N N 38
WJS C29 H23 SING N N 39
WJS C30 H24 SING N N 40
WJS O33 H25 SING N N 41
WJS N34 H26 SING N N 42
WJS N34 H27 SING N N 43
WJS N34 H28 SING N N 44
WJS O35 H29 SING N N 45
WJS C09 C8 SING N N 46
WJS C8 C7 SING N N 47
WJS C7 C6 SING N N 48
WJS C6 C5 SING N N 49
WJS C5 C4 SING N N 50
WJS C4 C3 SING N N 51
WJS C3 C2 SING N N 52
WJS C2 C1 SING N N 53
WJS P25 H30 SING N N 54
#
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
WJS InChI InChI 1.03 InChI=1S/C24H50NO9P/c1-2-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-23(27)32-18-21(26)19-33-35(30,31)34-20-22(25)24(28)29/h21-22,26,35H,2-20H2,1,25H3,(H,28,29)(H,30,31)/t21-,22+/m1/s1
WJS InChIKey InChI 1.03 JFEXCESBNOAOBB-YADHBBJMSA-N
WJS SMILES_CANONICAL CACTVS 3.385 "[C][C][C][C][C][C][C][C][CH][CH][CH][CH][CH][C][C][C][C]C(=O)OC[C@@H](O)CO[PH](O)(=O)OC[C@H]([NH3])C(O)=O"
WJS SMILES CACTVS 3.385 "[C][C][C][C][C][C][C][C][CH][CH][CH][CH][CH][C][C][C][C]C(=O)OC[CH](O)CO[PH](O)(=O)OC[CH]([NH3])C(O)=O"
WJS SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[C][C][C][C][C][C][C][C][CH][CH][CH][CH][CH][C][C][C][C]C(=O)OC[C@H](CO[PH](=O)(O)OC[C@@H](C(=O)O)[NH3])O"
WJS SMILES "OpenEye OEToolkits" 2.0.7 "[C][C][C][C][C][C][C][C][CH][CH][CH][CH][CH][C][C][C][C]C(=O)OCC(CO[PH](=O)(O)OCC(C(=O)O)[NH3])O"
#
_pdbx_chem_comp_identifier.comp_id WJS
_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~{S})-2-$l^{4}-azanyl-3-[[(2~{R})-3-octadecanoyloxy-2-oxidanyl-propoxy]-oxidanyl-oxidanylidene-$l^{6}-phosphanyl]oxy-propanoic acid"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
WJS 'Create component' 2020-10-30 RCSB
WJS 'Initial release' 2020-11-11 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.09.6 'Core functionality.'
pdbeccdutils 0.8.6 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
WJS P25 P 4.683 -8.567 1
WJS C09 C -4.348 8.715 2
WJS C10 C -4.354 7.216 3
WJS C11 C -3.057 6.461 4
WJS C12 C -3.063 4.961 5
WJS C13 C -1.766 4.206 6
WJS C14 C -1.772 2.706 7
WJS C15 C -0.475 1.952 8
WJS C16 C -0.481 0.452 9
WJS C17 C 0.815 -0.303 10
WJS C18 C 0.810 -1.803 11
WJS O19 O -0.492 -2.548 12
WJS O20 O 2.106 -2.557 13
WJS C21 C 2.101 -4.057 14
WJS C22 C 3.397 -4.812 15
WJS C23 C 3.392 -6.312 16
WJS O24 O 4.688 -7.067 17
WJS O26 O 3.183 -8.561 18
WJS O27 O 6.183 -8.572 19
WJS O28 O 4.677 -10.067 20
WJS C29 C 5.974 -10.821 21
WJS C30 C 5.968 -12.321 22
WJS C31 C 7.265 -13.076 23
WJS O32 O 8.566 -12.331 24
WJS O33 O 7.259 -14.576 25
WJS N34 N 4.667 -13.066 26
WJS O35 O 4.699 -4.067 27
WJS C8 C -5.644 9.470 28
WJS C7 C -5.639 10.970 29
WJS C6 C -6.935 11.725 30
WJS C5 C -6.930 13.225 31
WJS C4 C -8.226 13.979 32
WJS C3 C -8.221 15.479 33
WJS C2 C -9.517 16.234 34
WJS C1 C -9.512 17.734 35
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
WJS O32 C31 DOUBLE NONE 1
WJS C31 O33 SINGLE NONE 2
WJS C31 C30 SINGLE NONE 3
WJS C30 C29 SINGLE NONE 4
WJS C30 N34 SINGLE NONE 5
WJS O28 C29 SINGLE NONE 6
WJS O28 P25 SINGLE NONE 7
WJS O26 P25 DOUBLE NONE 8
WJS P25 O24 SINGLE NONE 9
WJS P25 O27 SINGLE NONE 10
WJS O19 C18 DOUBLE NONE 11
WJS O24 C23 SINGLE NONE 12
WJS C23 C22 SINGLE NONE 13
WJS C21 C22 SINGLE NONE 14
WJS C21 O20 SINGLE NONE 15
WJS C22 O35 SINGLE NONE 16
WJS C18 O20 SINGLE NONE 17
WJS C18 C17 SINGLE NONE 18
WJS C16 C17 SINGLE NONE 19
WJS C16 C15 SINGLE NONE 20
WJS C14 C13 SINGLE NONE 21
WJS C14 C15 SINGLE NONE 22
WJS C13 C12 SINGLE NONE 23
WJS C12 C11 SINGLE NONE 24
WJS C10 C11 SINGLE NONE 25
WJS C10 C09 SINGLE NONE 26
WJS C09 C8 SINGLE NONE 27
WJS C8 C7 SINGLE NONE 28
WJS C7 C6 SINGLE NONE 29
WJS C6 C5 SINGLE NONE 30
WJS C5 C4 SINGLE NONE 31
WJS C4 C3 SINGLE NONE 32
WJS C3 C2 SINGLE NONE 33
WJS C2 C1 SINGLE NONE 34
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
WJS peptide F1 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
WJS phosphate F2 fragment O=P(O)(O)O InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4) NBIIXXVUZAFLBC-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
WJS O32 F1 1
WJS C31 F1 1
WJS C30 F1 1
WJS N34 F1 1
WJS O24 F2 1
WJS P25 F2 1
WJS O26 F2 1
WJS O28 F2 1
WJS O27 F2 1
#
#