data_WS3
#
_chem_comp.id WS3
_chem_comp.name "5'-deoxy-5'-[({6-[(alpha-D-galactopyranosyloxy)methyl]pyridin-2-yl}carbonyl)amino]uridine"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C22 H28 N4 O12"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2013-08-15
_chem_comp.pdbx_modified_date 2013-09-06
_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 540.477
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code WS3
_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 4KC4
_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
WS3 O4 O4 O 0 1 N N N N N N 17.971 23.719 11.272 -7.213 3.907 -2.322 O4 WS3 1
WS3 C4 C4 C 0 1 N N N N N N 17.504 23.630 10.112 -6.678 3.078 -1.607 C4 WS3 2
WS3 N3 N3 N 0 1 N N N N N N 18.152 24.220 9.096 -6.200 3.429 -0.397 N3 WS3 3
WS3 C2 C2 C 0 1 N N N N N N 17.681 24.146 7.842 -5.609 2.512 0.391 C2 WS3 4
WS3 O2 O2 O 0 1 N N N N N N 18.298 24.708 6.924 -5.182 2.844 1.481 O2 WS3 5
WS3 C5 C5 C 0 1 N N N N N N 16.328 22.917 9.868 -6.558 1.734 -2.039 C5 WS3 6
WS3 C6 C6 C 0 1 N N N N N N 15.832 22.840 8.565 -5.961 0.835 -1.227 C6 WS3 7
WS3 N1 N1 N 0 1 N N N N N N 16.492 23.436 7.550 -5.483 1.234 -0.009 N1 WS3 8
WS3 C11 C11 C 0 1 N N R N N N 16.000 23.388 6.159 -4.835 0.258 0.871 C11 WS3 9
WS3 O44 O44 O 0 1 N N N N N N 14.680 22.830 6.112 -3.789 -0.441 0.163 O44 WS3 10
WS3 C22 C22 C 0 1 N N R N N N 16.883 22.509 5.272 -5.838 -0.842 1.285 C22 WS3 11
WS3 O22 O22 O 0 1 N N N N N N 16.927 22.999 3.917 -6.374 -0.570 2.582 O22 WS3 12
WS3 C33 C33 C 0 1 N N S N N N 16.138 21.199 5.274 -4.990 -2.133 1.310 C33 WS3 13
WS3 O33 O33 O 0 1 N N N N N N 16.482 20.425 4.121 -4.975 -2.697 2.623 O33 WS3 14
WS3 C44 C44 C 0 1 N N R N N N 14.683 21.660 5.285 -3.573 -1.659 0.908 C44 WS3 15
WS3 C55 C55 C 0 1 N N N N N N 13.648 20.654 5.794 -2.890 -2.708 0.029 C55 WS3 16
WS3 N11 N11 N 0 1 N N N N N N 14.108 19.934 6.971 -1.510 -2.296 -0.241 N11 WS3 17
WS3 C12 C12 C 0 1 N N N N N N 14.707 18.748 6.862 -0.711 -3.071 -1.001 C12 WS3 18
WS3 O13 O13 O 0 1 N N N N N N 15.127 18.330 5.781 -1.135 -4.112 -1.462 O13 WS3 19
WS3 C14 C14 C 0 1 Y N N N N N 14.880 17.901 8.090 0.684 -2.654 -1.274 C14 WS3 20
WS3 C15 C15 C 0 1 Y N N N N N 14.429 18.341 9.339 1.505 -3.460 -2.060 C15 WS3 21
WS3 C16 C16 C 0 1 Y N N N N N 14.607 17.524 10.456 2.807 -3.056 -2.307 C16 WS3 22
WS3 C17 C17 C 0 1 Y N N N N N 15.232 16.286 10.301 3.244 -1.860 -1.759 C17 WS3 23
WS3 C18 C18 C 0 1 Y N N N N N 15.668 15.882 9.036 2.373 -1.109 -0.987 C18 WS3 24
WS3 N19 N19 N 0 1 Y N N N N N 15.484 16.694 7.967 1.140 -1.513 -0.772 N19 WS3 25
WS3 C20 C20 C 0 1 N N N N N N 16.351 14.543 8.844 2.843 0.192 -0.389 C20 WS3 26
WS3 "O1'" "O1'" O 0 1 N N N N N N 15.693 13.567 9.644 4.203 0.423 -0.761 "O1'" WS3 27
WS3 "C1'" "C1'" C 0 1 N N S N N N 15.922 12.209 9.252 4.749 1.638 -0.243 "C1'" WS3 28
WS3 "O5'" "O5'" O 0 1 N N N N N N 16.212 12.075 7.848 4.918 1.520 1.171 "O5'" WS3 29
WS3 "C5'" "C5'" C 0 1 N N R N N N 17.566 12.071 7.387 5.773 0.446 1.569 "C5'" WS3 30
WS3 "C6'" "C6'" C 0 1 N N N N N N 17.556 11.559 5.946 5.857 0.399 3.096 "C6'" WS3 31
WS3 "O6'" "O6'" O 0 1 N N N N N N 18.750 10.817 5.657 4.572 0.078 3.634 "O6'" WS3 32
WS3 "C4'" "C4'" C 0 1 N N R N N N 18.443 11.185 8.253 7.172 0.667 0.988 "C4'" WS3 33
WS3 "O4'" "O4'" O 0 1 N N N N N N 17.990 9.829 8.156 7.723 1.876 1.516 "O4'" WS3 34
WS3 "C3'" "C3'" C 0 1 N N S N N N 18.369 11.648 9.695 7.072 0.774 -0.537 "C3'" WS3 35
WS3 "O3'" "O3'" O 0 1 N N N N N N 19.181 10.804 10.514 8.363 1.053 -1.082 "O3'" WS3 36
WS3 "C2'" "C2'" C 0 1 N N R N N N 16.937 11.558 10.191 6.107 1.907 -0.896 "C2'" WS3 37
WS3 "O2'" "O2'" O 0 1 N N N N N N 16.839 12.189 11.471 5.950 1.969 -2.316 "O2'" WS3 38
WS3 H1 H1 H 0 1 N N N N N N 18.998 24.722 9.276 -6.281 4.347 -0.093 H1 WS3 39
WS3 H2 H2 H 0 1 N N N N N N 15.807 22.430 10.679 -6.939 1.433 -3.003 H2 WS3 40
WS3 H3 H3 H 0 1 N N N N N N 14.917 22.301 8.369 -5.860 -0.194 -1.539 H3 WS3 41
WS3 H4 H4 H 0 1 N N N N N N 15.990 24.406 5.743 -4.431 0.754 1.753 H4 WS3 42
WS3 H5 H5 H 0 1 N N N N N N 17.887 22.397 5.707 -6.639 -0.925 0.550 H5 WS3 43
WS3 H6 H6 H 0 1 N N N N N N 17.394 23.826 3.894 -6.964 -1.259 2.916 H6 WS3 44
WS3 H7 H7 H 0 1 N N N N N N 16.357 20.646 6.199 -5.371 -2.855 0.587 H7 WS3 45
WS3 H8 H8 H 0 1 N N N N N N 16.186 19.530 4.240 -5.848 -2.956 2.950 H8 WS3 46
WS3 H9 H9 H 0 1 N N N N N N 14.407 21.941 4.258 -2.973 -1.461 1.796 H9 WS3 47
WS3 H10 H10 H 0 1 N N N N N N 12.725 21.195 6.049 -2.887 -3.669 0.544 H10 WS3 48
WS3 H11 H11 H 0 1 N N N N N N 13.438 19.928 4.995 -3.431 -2.802 -0.912 H11 WS3 49
WS3 H12 H12 H 0 1 N N N N N N 13.973 20.335 7.877 -1.171 -1.464 0.127 H12 WS3 50
WS3 H13 H13 H 0 1 N N N N N N 13.948 19.303 9.438 1.131 -4.386 -2.471 H13 WS3 51
WS3 H14 H14 H 0 1 N N N N N N 14.265 17.846 11.429 3.467 -3.660 -2.913 H14 WS3 52
WS3 H15 H15 H 0 1 N N N N N N 15.378 15.642 11.156 4.253 -1.517 -1.933 H15 WS3 53
WS3 H16 H16 H 0 1 N N N N N N 16.296 14.250 7.785 2.222 1.008 -0.760 H16 WS3 54
WS3 H17 H17 H 0 1 N N N N N N 17.405 14.620 9.149 2.766 0.142 0.697 H17 WS3 55
WS3 H18 H18 H 0 1 N N N N N N 14.978 11.672 9.426 4.071 2.463 -0.460 H18 WS3 56
WS3 H19 H19 H 0 1 N N N N N N 17.972 13.093 7.397 5.370 -0.496 1.197 H19 WS3 57
WS3 H20 H20 H 0 1 N N N N N N 17.490 12.416 5.260 6.577 -0.362 3.397 H20 WS3 58
WS3 H21 H21 H 0 1 N N N N N N 16.683 10.906 5.802 6.176 1.370 3.473 H21 WS3 59
WS3 H22 H22 H 0 1 N N N N N N 18.722 10.509 4.759 4.550 0.031 4.599 H22 WS3 60
WS3 H23 H23 H 0 1 N N N N N N 19.484 11.262 7.905 7.814 -0.173 1.253 H23 WS3 61
WS3 H24 H24 H 0 1 N N N N N N 18.537 9.272 8.697 8.610 2.079 1.189 H24 WS3 62
WS3 H25 H25 H 0 1 N N N N N N 18.710 12.692 9.759 6.699 -0.166 -0.944 H25 WS3 63
WS3 H26 H26 H 0 1 N N N N N N 19.133 11.096 11.417 8.374 1.134 -2.046 H26 WS3 64
WS3 H27 H27 H 0 1 N N N N N N 16.675 10.494 10.290 6.505 2.854 -0.532 H27 WS3 65
WS3 H28 H28 H 0 1 N N N N N N 17.465 11.795 12.068 5.347 2.663 -2.615 H28 WS3 66
#
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
WS3 O22 C22 SING N N 1
WS3 O33 C33 SING N N 2
WS3 C22 C33 SING N N 3
WS3 C22 C11 SING N N 4
WS3 C33 C44 SING N N 5
WS3 C44 C55 SING N N 6
WS3 C44 O44 SING N N 7
WS3 "O6'" "C6'" SING N N 8
WS3 O13 C12 DOUB N N 9
WS3 C55 N11 SING N N 10
WS3 "C6'" "C5'" SING N N 11
WS3 O44 C11 SING N N 12
WS3 C11 N1 SING N N 13
WS3 C12 N11 SING N N 14
WS3 C12 C14 SING N N 15
WS3 O2 C2 DOUB N N 16
WS3 "C5'" "O5'" SING N N 17
WS3 "C5'" "C4'" SING N N 18
WS3 N1 C2 SING N N 19
WS3 N1 C6 SING N N 20
WS3 C2 N3 SING N N 21
WS3 "O5'" "C1'" SING N N 22
WS3 N19 C14 DOUB Y N 23
WS3 N19 C18 SING Y N 24
WS3 C14 C15 SING Y N 25
WS3 "O4'" "C4'" SING N N 26
WS3 "C4'" "C3'" SING N N 27
WS3 C6 C5 DOUB N N 28
WS3 C20 C18 SING N N 29
WS3 C20 "O1'" SING N N 30
WS3 C18 C17 DOUB Y N 31
WS3 N3 C4 SING N N 32
WS3 "C1'" "O1'" SING N N 33
WS3 "C1'" "C2'" SING N N 34
WS3 C15 C16 DOUB Y N 35
WS3 "C3'" "C2'" SING N N 36
WS3 "C3'" "O3'" SING N N 37
WS3 C5 C4 SING N N 38
WS3 C4 O4 DOUB N N 39
WS3 "C2'" "O2'" SING N N 40
WS3 C17 C16 SING Y N 41
WS3 N3 H1 SING N N 42
WS3 C5 H2 SING N N 43
WS3 C6 H3 SING N N 44
WS3 C11 H4 SING N N 45
WS3 C22 H5 SING N N 46
WS3 O22 H6 SING N N 47
WS3 C33 H7 SING N N 48
WS3 O33 H8 SING N N 49
WS3 C44 H9 SING N N 50
WS3 C55 H10 SING N N 51
WS3 C55 H11 SING N N 52
WS3 N11 H12 SING N N 53
WS3 C15 H13 SING N N 54
WS3 C16 H14 SING N N 55
WS3 C17 H15 SING N N 56
WS3 C20 H16 SING N N 57
WS3 C20 H17 SING N N 58
WS3 "C1'" H18 SING N N 59
WS3 "C5'" H19 SING N N 60
WS3 "C6'" H20 SING N N 61
WS3 "C6'" H21 SING N N 62
WS3 "O6'" H22 SING N N 63
WS3 "C4'" H23 SING N N 64
WS3 "O4'" H24 SING N N 65
WS3 "C3'" H25 SING N N 66
WS3 "O3'" H26 SING N N 67
WS3 "C2'" H27 SING N N 68
WS3 "O2'" H28 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
WS3 SMILES ACDLabs 12.01 O=C1C=CN(C(=O)N1)C2OC(C(O)C2O)CNC(=O)c3nc(ccc3)COC4OC(C(O)C(O)C4O)CO
WS3 InChI InChI 1.03 InChI=1S/C22H28N4O12/c27-7-12-15(30)16(31)18(33)21(38-12)36-8-9-2-1-3-10(24-9)19(34)23-6-11-14(29)17(32)20(37-11)26-5-4-13(28)25-22(26)35/h1-5,11-12,14-18,20-21,27,29-33H,6-8H2,(H,23,34)(H,25,28,35)/t11-,12-,14-,15+,16+,17-,18-,20-,21+/m1/s1
WS3 InChIKey InChI 1.03 KPOTWZYLDCHCIG-DSVOXYOZSA-N
WS3 SMILES_CANONICAL CACTVS 3.385 OC[C@H]1O[C@H](OCc2cccc(n2)C(=O)NC[C@H]3O[C@H]([C@H](O)[C@@H]3O)N4C=CC(=O)NC4=O)[C@H](O)[C@@H](O)[C@H]1O
WS3 SMILES CACTVS 3.385 OC[CH]1O[CH](OCc2cccc(n2)C(=O)NC[CH]3O[CH]([CH](O)[CH]3O)N4C=CC(=O)NC4=O)[CH](O)[CH](O)[CH]1O
WS3 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 c1cc(nc(c1)C(=O)NC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=O)NC3=O)O)O)CO[C@@H]4[C@@H]([C@H]([C@H]([C@H](O4)CO)O)O)O
WS3 SMILES "OpenEye OEToolkits" 1.7.6 c1cc(nc(c1)C(=O)NCC2C(C(C(O2)N3C=CC(=O)NC3=O)O)O)COC4C(C(C(C(O4)CO)O)O)O
#
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
WS3 "SYSTEMATIC NAME" ACDLabs 12.01 "5'-deoxy-5'-[({6-[(alpha-D-galactopyranosyloxy)methyl]pyridin-2-yl}carbonyl)amino]uridine"
WS3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 N-[[(2R,3S,4R,5R)-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-6-[[(2S,3R,4S,5R,6R)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxymethyl]pyridine-2-carboxamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
WS3 'Create component' 2013-08-15 RCSB
WS3 'Initial release' 2013-09-11 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.03.3 'Core functionality.'
pdbeccdutils 0.8.4 '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
WS3 O4 O 26.436 1.522 1
WS3 C4 C 24.944 1.679 2
WS3 N3 N 24.062 0.465 3
WS3 C2 C 22.571 0.622 4
WS3 O2 O 21.689 -0.592 5
WS3 C5 C 24.334 3.049 6
WS3 C6 C 22.842 3.206 7
WS3 N1 N 21.961 1.992 8
WS3 C11 C 20.469 2.149 9
WS3 O44 O 19.465 1.034 10
WS3 C22 C 19.719 3.448 11
WS3 O22 O 20.329 4.818 12
WS3 C33 C 18.252 3.136 13
WS3 O33 O 17.137 4.140 14
WS3 C44 C 18.095 1.644 15
WS3 C55 C 16.796 0.894 16
WS3 N11 N 15.497 1.644 17
WS3 C12 C 14.198 0.894 18
WS3 O13 O 14.198 -0.606 19
WS3 C14 C 12.899 1.644 20
WS3 C15 C 12.899 3.144 21
WS3 C16 C 11.600 3.894 22
WS3 C17 C 10.301 3.144 23
WS3 C18 C 10.301 1.644 24
WS3 N19 N 11.600 0.894 25
WS3 C20 C 9.002 0.894 26
WS3 "O1'" O 9.002 -0.606 27
WS3 "C1'" C 7.702 -1.356 28
WS3 "O5'" O 6.404 -0.606 29
WS3 "C5'" C 5.104 -1.356 30
WS3 "C6'" C 3.805 -0.606 31
WS3 "O6'" O 3.805 0.894 32
WS3 "C4'" C 5.104 -2.856 33
WS3 "O4'" O 3.805 -3.606 34
WS3 "C3'" C 6.404 -3.606 35
WS3 "O3'" O 6.404 -5.106 36
WS3 "C2'" C 7.702 -2.856 37
WS3 "O2'" O 9.002 -3.606 38
#
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
WS3 C22 O22 SINGLE BEGINWEDGE 1
WS3 C33 O33 SINGLE BEGINWEDGE 2
WS3 C22 C33 SINGLE NONE 3
WS3 C22 C11 SINGLE NONE 4
WS3 C33 C44 SINGLE NONE 5
WS3 C44 C55 SINGLE BEGINDASH 6
WS3 C44 O44 SINGLE NONE 7
WS3 "O6'" "C6'" SINGLE NONE 8
WS3 O13 C12 DOUBLE NONE 9
WS3 C55 N11 SINGLE NONE 10
WS3 "C5'" "C6'" SINGLE BEGINWEDGE 11
WS3 O44 C11 SINGLE NONE 12
WS3 C11 N1 SINGLE BEGINDASH 13
WS3 C12 N11 SINGLE NONE 14
WS3 C12 C14 SINGLE NONE 15
WS3 O2 C2 DOUBLE NONE 16
WS3 "C5'" "O5'" SINGLE NONE 17
WS3 "C5'" "C4'" SINGLE NONE 18
WS3 N1 C2 SINGLE NONE 19
WS3 N1 C6 SINGLE NONE 20
WS3 C2 N3 SINGLE NONE 21
WS3 "O5'" "C1'" SINGLE NONE 22
WS3 N19 C14 SINGLE NONE 23
WS3 N19 C18 DOUBLE NONE 24
WS3 C14 C15 DOUBLE NONE 25
WS3 "C4'" "O4'" SINGLE BEGINWEDGE 26
WS3 "C4'" "C3'" SINGLE NONE 27
WS3 C6 C5 DOUBLE NONE 28
WS3 C20 C18 SINGLE NONE 29
WS3 C20 "O1'" SINGLE NONE 30
WS3 C18 C17 SINGLE NONE 31
WS3 N3 C4 SINGLE NONE 32
WS3 "C1'" "O1'" SINGLE BEGINDASH 33
WS3 "C1'" "C2'" SINGLE NONE 34
WS3 C15 C16 SINGLE NONE 35
WS3 "C3'" "C2'" SINGLE NONE 36
WS3 "C3'" "O3'" SINGLE BEGINWEDGE 37
WS3 C5 C4 SINGLE NONE 38
WS3 C4 O4 DOUBLE NONE 39
WS3 "C2'" "O2'" SINGLE BEGINDASH 40
WS3 C17 C16 DOUBLE NONE 41
#
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
WS3 MurckoScaffold S1 scaffold 'O=C(NC[C@@H]1CC[C@H](n2ccc(=O)[nH]c2=O)O1)c1cccc(CO[C@@H]2CCCCO2)n1' InChI=1S/C21H26N4O6/c26-17-9-10-25(21(28)24-17)18-8-7-15(31-18)12-22-20(27)16-5-3-4-14(23-16)13-30-19-6-1-2-11-29-19/h3-5,9-10,15,18-19H,1-2,6-8,11-13H2,(H,22,27)(H,24,26,28)/t15-,18+,19+/m0/s1 VRNKUFXLWHJROZ-KFKAGJAMSA-N
WS3 amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
WS3 pyranose F2 fragment OC1CCCCO1 InChI=1S/C5H10O2/c6-5-3-1-2-4-7-5/h5-6H,1-4H2 CELWCAITJAEQNL-UHFFFAOYSA-N
WS3 pyridine F3 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
WS3 pyrimidine F4 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-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
WS3 O4 S1 1
WS3 C4 S1 1
WS3 N3 S1 1
WS3 C2 S1 1
WS3 O2 S1 1
WS3 C5 S1 1
WS3 C6 S1 1
WS3 N1 S1 1
WS3 C11 S1 1
WS3 O44 S1 1
WS3 C22 S1 1
WS3 C33 S1 1
WS3 C44 S1 1
WS3 C55 S1 1
WS3 N11 S1 1
WS3 C12 S1 1
WS3 O13 S1 1
WS3 C14 S1 1
WS3 C15 S1 1
WS3 C16 S1 1
WS3 C17 S1 1
WS3 C18 S1 1
WS3 N19 S1 1
WS3 C20 S1 1
WS3 "O1'" S1 1
WS3 "C1'" S1 1
WS3 "O5'" S1 1
WS3 "C5'" S1 1
WS3 "C4'" S1 1
WS3 "C3'" S1 1
WS3 "C2'" S1 1
WS3 N11 F1 1
WS3 C12 F1 1
WS3 O13 F1 1
WS3 C14 F1 1
WS3 "C4'" F2 1
WS3 "C5'" F2 1
WS3 "O5'" F2 1
WS3 "C1'" F2 1
WS3 "C2'" F2 1
WS3 "C3'" F2 1
WS3 "O1'" F2 1
WS3 C14 F3 1
WS3 C15 F3 1
WS3 C16 F3 1
WS3 C17 F3 1
WS3 C18 F3 1
WS3 N19 F3 1
WS3 C5 F4 1
WS3 C6 F4 1
WS3 N1 F4 1
WS3 C2 F4 1
WS3 N3 F4 1
WS3 C4 F4 1
#
_pdbe_chem_comp_rdkit_properties.comp_id WS3
_pdbe_chem_comp_rdkit_properties.exactmw 540.170
_pdbe_chem_comp_rdkit_properties.amw 540.482
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 16
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 8
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 14
_pdbe_chem_comp_rdkit_properties.NumHBD 8
_pdbe_chem_comp_rdkit_properties.NumHBA 14
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 38
_pdbe_chem_comp_rdkit_properties.NumAtoms 66
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 16
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.545
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 2
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 4
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 9
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 253.206
_pdbe_chem_comp_rdkit_properties.tpsa 245.920
_pdbe_chem_comp_rdkit_properties.CrippenClogP -3.012
_pdbe_chem_comp_rdkit_properties.CrippenMR 122.057
_pdbe_chem_comp_rdkit_properties.chi0v 17.688
_pdbe_chem_comp_rdkit_properties.chi1v 9.324
_pdbe_chem_comp_rdkit_properties.chi2v 4.051
_pdbe_chem_comp_rdkit_properties.chi3v 4.051
_pdbe_chem_comp_rdkit_properties.chi4v 2.399
_pdbe_chem_comp_rdkit_properties.chi0n 45.688
_pdbe_chem_comp_rdkit_properties.chi1n 22.668
_pdbe_chem_comp_rdkit_properties.chi2n 4.051
_pdbe_chem_comp_rdkit_properties.chi3n 4.051
_pdbe_chem_comp_rdkit_properties.chi4n 2.399
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -3.060
_pdbe_chem_comp_rdkit_properties.kappa1 9.257
_pdbe_chem_comp_rdkit_properties.kappa2 11.768
_pdbe_chem_comp_rdkit_properties.kappa3 5.827
_pdbe_chem_comp_rdkit_properties.Phi 2.867
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
WS3 UniChem PDBe WS3
WS3 UniChem ZINC ZINC000098209586
WS3 UniChem PubChem 73213222
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
WS3 O4 9.356 -1.066 -4.651 ETKDGv3 1
WS3 C4 8.427 -0.646 -3.911 ETKDGv3 2
WS3 N3 7.554 -1.570 -3.262 ETKDGv3 3
WS3 C2 6.506 -1.074 -2.427 ETKDGv3 4
WS3 O2 5.709 -1.884 -1.882 ETKDGv3 5
WS3 C5 8.233 0.796 -3.717 ETKDGv3 6
WS3 C6 7.257 1.249 -2.925 ETKDGv3 7
WS3 N1 6.371 0.350 -2.225 ETKDGv3 8
WS3 C11 5.290 0.912 -1.399 ETKDGv3 9
WS3 O44 5.193 0.209 -0.180 ETKDGv3 10
WS3 C22 3.945 0.842 -2.137 ETKDGv3 11
WS3 O22 3.447 2.135 -2.372 ETKDGv3 12
WS3 C33 3.052 0.075 -1.181 ETKDGv3 13
WS3 O33 1.786 0.667 -1.043 ETKDGv3 14
WS3 C44 3.825 0.125 0.134 ETKDGv3 15
WS3 C55 3.582 -1.114 1.012 ETKDGv3 16
WS3 N11 2.206 -1.168 1.507 ETKDGv3 17
WS3 C12 1.735 -2.282 2.280 ETKDGv3 18
WS3 O13 2.527 -3.221 2.569 ETKDGv3 19
WS3 C14 0.327 -2.335 2.735 ETKDGv3 20
WS3 C15 -0.134 -3.362 3.472 ETKDGv3 21
WS3 C16 -1.548 -3.380 3.894 ETKDGv3 22
WS3 C17 -2.360 -2.377 3.548 ETKDGv3 23
WS3 C18 -1.822 -1.254 2.750 ETKDGv3 24
WS3 N19 -0.575 -1.270 2.374 ETKDGv3 25
WS3 C20 -2.720 -0.144 2.307 ETKDGv3 26
WS3 "O1'" -3.395 -0.545 1.133 ETKDGv3 27
WS3 "C1'" -4.383 0.400 0.758 ETKDGv3 28
WS3 "O5'" -4.400 0.462 -0.659 ETKDGv3 29
WS3 "C5'" -5.336 1.407 -1.163 ETKDGv3 30
WS3 "C6'" -4.869 2.869 -0.967 ETKDGv3 31
WS3 "O6'" -3.523 3.007 -1.337 ETKDGv3 32
WS3 "C4'" -6.783 1.119 -0.675 ETKDGv3 33
WS3 "O4'" -7.663 2.147 -1.053 ETKDGv3 34
WS3 "C3'" -6.855 0.905 0.845 ETKDGv3 35
WS3 "O3'" -6.730 2.133 1.517 ETKDGv3 36
WS3 "C2'" -5.750 -0.068 1.295 ETKDGv3 37
WS3 "O2'" -6.020 -1.363 0.820 ETKDGv3 38
WS3 H1 7.673 -2.598 -3.405 ETKDGv3 39
WS3 H2 8.884 1.499 -4.223 ETKDGv3 40
WS3 H3 7.138 2.320 -2.811 ETKDGv3 41
WS3 H4 5.526 1.971 -1.145 ETKDGv3 42
WS3 H5 4.022 0.285 -3.101 ETKDGv3 43
WS3 H6 3.975 2.507 -3.126 ETKDGv3 44
WS3 H7 2.953 -0.980 -1.532 ETKDGv3 45
WS3 H8 1.274 0.430 -1.860 ETKDGv3 46
WS3 H9 3.543 1.037 0.710 ETKDGv3 47
WS3 H10 3.808 -2.035 0.431 ETKDGv3 48
WS3 H11 4.274 -1.080 1.882 ETKDGv3 49
WS3 H12 1.556 -0.374 1.312 ETKDGv3 50
WS3 H13 0.510 -4.184 3.761 ETKDGv3 51
WS3 H14 -1.926 -4.209 4.479 ETKDGv3 52
WS3 H15 -3.400 -2.390 3.850 ETKDGv3 53
WS3 H16 -3.435 0.086 3.129 ETKDGv3 54
WS3 H17 -2.106 0.763 2.106 ETKDGv3 55
WS3 H18 -4.153 1.413 1.169 ETKDGv3 56
WS3 H19 -5.359 1.255 -2.265 ETKDGv3 57
WS3 H20 -5.499 3.554 -1.578 ETKDGv3 58
WS3 H21 -4.977 3.193 0.086 ETKDGv3 59
WS3 H22 -3.496 2.975 -2.329 ETKDGv3 60
WS3 H23 -7.116 0.167 -1.153 ETKDGv3 61
WS3 H24 -7.779 2.077 -2.037 ETKDGv3 62
WS3 H25 -7.851 0.462 1.084 ETKDGv3 63
WS3 H26 -7.049 1.987 2.446 ETKDGv3 64
WS3 H27 -5.711 -0.083 2.410 ETKDGv3 65
WS3 H28 -6.739 -1.735 1.393 ETKDGv3 66
#