data_PGZ # _chem_comp.id PGZ _chem_comp.name "METHYL 2-O-[(S)-(BENZYLOXY)(HYDROXY)PHOSPHORYL]-3-DEOXY-3-{[(4-METHYLPHENYL)CARBONYL]AMINO}-1-THIO-BETA-D-GALACTOPYRANOSIDE" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C22 H28 N O8 P S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2011-08-10 _chem_comp.pdbx_modified_date 2014-09-05 _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 497.498 _chem_comp.one_letter_code ? _chem_comp.three_letter_code PGZ _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 3ZXE _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # 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 PGZ O1B O1B O 0 1 N N N 18.300 -10.618 1.275 2.348 2.048 -2.032 O1B PGZ 1 PGZ C1B C1B C 0 1 N N N 18.112 -10.910 0.097 1.870 2.194 -0.924 C1B PGZ 2 PGZ C5B C5B C 0 1 Y N N 19.197 -10.603 -0.899 1.506 3.546 -0.449 C5B PGZ 3 PGZ C6B C6B C 0 1 Y N N 19.025 -10.892 -2.253 1.711 4.656 -1.270 C6B PGZ 4 PGZ C7B C7B C 0 1 Y N N 20.026 -10.578 -3.175 1.369 5.915 -0.820 C7B PGZ 5 PGZ C2B C2B C 0 1 Y N N 21.205 -9.968 -2.738 0.825 6.078 0.442 C2B PGZ 6 PGZ C8B C8B C 0 1 N N N 22.282 -9.633 -3.738 0.455 7.456 0.926 C8B PGZ 7 PGZ C3B C3B C 0 1 Y N N 21.377 -9.662 -1.391 0.619 4.982 1.260 C3B PGZ 8 PGZ C4B C4B C 0 1 Y N N 20.370 -9.973 -0.475 0.951 3.717 0.820 C4B PGZ 9 PGZ N1B N1B N 0 1 N N N 16.963 -11.469 -0.318 1.666 1.124 -0.132 N1B PGZ 10 PGZ C3A C3A C 0 1 N N S 15.876 -11.739 0.625 2.021 -0.216 -0.605 C3A PGZ 11 PGZ C4A C4A C 0 1 N N R 14.664 -10.939 0.138 3.505 -0.481 -0.330 C4A PGZ 12 PGZ O4A O4A O 0 1 N N N 14.292 -11.328 -1.199 3.768 -0.322 1.065 O4A PGZ 13 PGZ C2D C2D C 0 1 N N R 13.532 -11.210 1.132 3.848 -1.911 -0.756 C2D PGZ 14 PGZ C6A C6A C 0 1 N N N 12.266 -10.426 0.805 5.314 -2.203 -0.429 C6A PGZ 15 PGZ O6A O6A O 0 1 N N N 11.268 -10.704 1.802 5.666 -3.493 -0.931 O6A PGZ 16 PGZ O5A O5A O 0 1 N N N 13.236 -12.610 1.157 3.010 -2.830 -0.051 O5A PGZ 17 PGZ C1A C1A C 0 1 N N S 14.339 -13.428 1.589 1.615 -2.661 -0.306 C1A PGZ 18 PGZ S1D S1D S 0 1 N N N 13.811 -15.113 1.643 0.675 -3.906 0.619 S1D PGZ 19 PGZ C1D C1D C 0 1 N N N 12.648 -15.257 2.959 1.207 -5.466 -0.140 C1D PGZ 20 PGZ C2A C2A C 0 1 N N R 15.542 -13.233 0.661 1.182 -1.261 0.137 C2A PGZ 21 PGZ O4P O4P O 0 1 N N N 16.663 -13.932 1.190 -0.200 -1.069 -0.170 O4P PGZ 22 PGZ P P P 0 1 N N N 17.460 -15.025 0.315 -1.311 -0.744 0.950 P PGZ 23 PGZ O3P O3P O 0 1 N N N 18.898 -14.947 0.770 -1.003 0.692 1.610 O3P PGZ 24 PGZ O2P O2P O 0 1 N N N 17.118 -14.872 -1.145 -1.273 -1.787 1.999 O2P PGZ 25 PGZ O1P O1P O 0 1 N N N 16.811 -16.405 0.825 -2.769 -0.721 0.269 O1P PGZ 26 PGZ C1C C1C C 0 1 N N N 17.009 -16.855 2.161 -3.976 -0.562 1.018 C1C PGZ 27 PGZ C5C C5C C 0 1 Y N N 16.353 -18.201 2.344 -5.156 -0.584 0.081 C5C PGZ 28 PGZ C6C C6C C 0 1 Y N N 16.723 -19.273 1.530 -5.775 -1.783 -0.223 C6C PGZ 29 PGZ C7C C7C C 0 1 Y N N 16.111 -20.515 1.713 -6.857 -1.803 -1.082 C7C PGZ 30 PGZ C2C C2C C 0 1 Y N N 15.139 -20.672 2.703 -7.321 -0.625 -1.638 C2C PGZ 31 PGZ C4C C4C C 0 1 Y N N 15.381 -18.358 3.336 -5.622 0.594 -0.470 C4C PGZ 32 PGZ C3C C3C C 0 1 Y N N 14.770 -19.599 3.516 -6.702 0.573 -1.333 C3C PGZ 33 PGZ H1B H1B H 0 1 N N N 16.849 -11.704 -1.283 1.285 1.240 0.752 H1B PGZ 34 PGZ H6B H6B H 0 1 N N N 18.113 -11.361 -2.590 2.135 4.530 -2.255 H6B PGZ 35 PGZ H4B H4B H 0 1 N N N 20.499 -9.725 0.568 0.787 2.862 1.459 H4B PGZ 36 PGZ H7B H7B H 0 1 N N N 19.889 -10.806 -4.222 1.526 6.775 -1.454 H7B PGZ 37 PGZ H8B1 H8B1 H 0 0 N N N 22.114 -8.620 -4.133 -0.578 7.673 0.652 H8B1 PGZ 38 PGZ H8B2 H8B2 H 0 0 N N N 23.265 -9.676 -3.246 0.559 7.500 2.010 H8B2 PGZ 39 PGZ H8B3 H8B3 H 0 0 N N N 22.254 -10.359 -4.564 1.115 8.193 0.467 H8B3 PGZ 40 PGZ H3B H3B H 0 1 N N N 22.286 -9.186 -1.055 0.195 5.116 2.244 H3B PGZ 41 PGZ H3A H3A H 0 1 N N N 16.154 -11.402 1.635 1.830 -0.287 -1.676 H3A PGZ 42 PGZ H4A H4A H 0 1 N N N 14.912 -9.868 0.164 4.112 0.225 -0.898 H4A PGZ 43 PGZ H2A H2A H 0 1 N N N 15.292 -13.583 -0.351 1.336 -1.156 1.211 H2A PGZ 44 PGZ HA HA H 0 1 N N N 13.540 -10.820 -1.479 4.690 -0.475 1.312 HA PGZ 45 PGZ H2D H2D H 0 1 N N N 13.876 -10.896 2.129 3.686 -2.020 -1.828 H2D PGZ 46 PGZ H6A1 H6A1 H 0 0 N N N 12.491 -9.349 0.800 5.947 -1.447 -0.894 H6A1 PGZ 47 PGZ H6A2 H6A2 H 0 0 N N N 11.892 -10.727 -0.184 5.457 -2.181 0.651 H6A2 PGZ 48 PGZ H6A H6A H 0 1 N N N 10.477 -10.218 1.603 6.583 -3.745 -0.759 H6A PGZ 49 PGZ H1A H1A H 0 1 N N N 14.632 -13.161 2.615 1.423 -2.780 -1.373 H1A PGZ 50 PGZ H1D1 H1D1 H 0 0 N N N 12.295 -16.297 3.025 2.284 -5.579 -0.020 H1D1 PGZ 51 PGZ H1D2 H1D2 H 0 0 N N N 13.129 -14.973 3.906 0.698 -6.298 0.346 H1D2 PGZ 52 PGZ H1D3 H1D3 H 0 0 N N N 11.794 -14.591 2.768 0.958 -5.457 -1.201 H1D3 PGZ 53 PGZ H3P H3P H 0 1 N N N 19.461 -14.799 0.019 -1.012 1.425 0.978 H3P PGZ 54 PGZ H1C1 H1C1 H 0 0 N N N 18.087 -16.943 2.362 -4.067 -1.377 1.737 H1C1 PGZ 55 PGZ H1C2 H1C2 H 0 0 N N N 16.563 -16.132 2.861 -3.951 0.389 1.549 H1C2 PGZ 56 PGZ H6C H6C H 0 1 N N N 17.475 -19.143 0.766 -5.412 -2.703 0.212 H6C PGZ 57 PGZ H4C H4C H 0 1 N N N 15.104 -17.522 3.961 -5.142 1.531 -0.229 H4C PGZ 58 PGZ H7C H7C H 0 1 N N N 16.389 -21.352 1.090 -7.340 -2.739 -1.320 H7C PGZ 59 PGZ H2C H2C H 0 1 N N N 14.668 -21.634 2.841 -8.166 -0.641 -2.310 H2C PGZ 60 PGZ H3C H3C H 0 1 N N N 14.017 -19.729 4.279 -7.064 1.493 -1.768 H3C PGZ 61 # 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 PGZ O1B C1B DOUB N N 1 PGZ C1B C5B SING N N 2 PGZ C1B N1B SING N N 3 PGZ C5B C6B SING Y N 4 PGZ C5B C4B DOUB Y N 5 PGZ C6B C7B DOUB Y N 6 PGZ C7B C2B SING Y N 7 PGZ C2B C8B SING N N 8 PGZ C2B C3B DOUB Y N 9 PGZ C3B C4B SING Y N 10 PGZ N1B C3A SING N N 11 PGZ C3A C4A SING N N 12 PGZ C3A C2A SING N N 13 PGZ C4A O4A SING N N 14 PGZ C4A C2D SING N N 15 PGZ C2D C6A SING N N 16 PGZ C2D O5A SING N N 17 PGZ C6A O6A SING N N 18 PGZ O5A C1A SING N N 19 PGZ C1A S1D SING N N 20 PGZ C1A C2A SING N N 21 PGZ S1D C1D SING N N 22 PGZ C2A O4P SING N N 23 PGZ O4P P SING N N 24 PGZ P O3P SING N N 25 PGZ P O2P DOUB N N 26 PGZ P O1P SING N N 27 PGZ O1P C1C SING N N 28 PGZ C1C C5C SING N N 29 PGZ C5C C6C SING Y N 30 PGZ C5C C4C DOUB Y N 31 PGZ C6C C7C DOUB Y N 32 PGZ C7C C2C SING Y N 33 PGZ C2C C3C DOUB Y N 34 PGZ N1B H1B SING N N 35 PGZ C6B H6B SING N N 36 PGZ C4B H4B SING N N 37 PGZ C7B H7B SING N N 38 PGZ C8B H8B1 SING N N 39 PGZ C8B H8B2 SING N N 40 PGZ C8B H8B3 SING N N 41 PGZ C3B H3B SING N N 42 PGZ C3A H3A SING N N 43 PGZ C4A H4A SING N N 44 PGZ C2A H2A SING N N 45 PGZ O4A HA SING N N 46 PGZ C2D H2D SING N N 47 PGZ C6A H6A1 SING N N 48 PGZ C6A H6A2 SING N N 49 PGZ O6A H6A SING N N 50 PGZ C1A H1A SING N N 51 PGZ C1D H1D1 SING N N 52 PGZ C1D H1D2 SING N N 53 PGZ C1D H1D3 SING N N 54 PGZ O3P H3P SING N N 55 PGZ C1C H1C1 SING N N 56 PGZ C1C H1C2 SING N N 57 PGZ C6C H6C SING N N 58 PGZ C4C H4C SING N N 59 PGZ C7C H7C SING N N 60 PGZ C2C H2C SING N N 61 PGZ C3C H3C SING N N 62 PGZ C4C C3C SING Y N 63 # 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 PGZ SMILES ACDLabs 12.01 "O=P(OC2C(NC(=O)c1ccc(cc1)C)C(O)C(OC2SC)CO)(OCc3ccccc3)O" PGZ InChI InChI 1.03 "InChI=1S/C22H28NO8PS/c1-14-8-10-16(11-9-14)21(26)23-18-19(25)17(12-24)30-22(33-2)20(18)31-32(27,28)29-13-15-6-4-3-5-7-15/h3-11,17-20,22,24-25H,12-13H2,1-2H3,(H,23,26)(H,27,28)/t17-,18+,19+,20-,22+/m1/s1" PGZ InChIKey InChI 1.03 IDAWZVIHHBVHNS-QWPXSNKBSA-N PGZ SMILES_CANONICAL CACTVS 3.385 "CS[C@@H]1O[C@H](CO)[C@H](O)[C@H](NC(=O)c2ccc(C)cc2)[C@H]1O[P](O)(=O)OCc3ccccc3" PGZ SMILES CACTVS 3.385 "CS[CH]1O[CH](CO)[CH](O)[CH](NC(=O)c2ccc(C)cc2)[CH]1O[P](O)(=O)OCc3ccccc3" PGZ SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "Cc1ccc(cc1)C(=O)N[C@H]2[C@H]([C@H](O[C@H]([C@@H]2OP(=O)(O)OCc3ccccc3)SC)CO)O" PGZ SMILES "OpenEye OEToolkits" 1.9.2 "Cc1ccc(cc1)C(=O)NC2C(C(OC(C2OP(=O)(O)OCc3ccccc3)SC)CO)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 PGZ "SYSTEMATIC NAME" ACDLabs 12.01 "methyl 2-O-[(S)-(benzyloxy)(hydroxy)phosphoryl]-3-deoxy-3-[(4-methylbenzoyl)amino]-1-thio-beta-D-galactopyranoside" PGZ "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "[(2S,3R,4S,5R,6R)-6-(hydroxymethyl)-4-[(4-methylphenyl)carbonylamino]-2-methylsulfanyl-5-oxidanyl-oxan-3-yl] (phenylmethyl) hydrogen phosphate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site PGZ "Create component" 2011-08-10 EBI PGZ "Modify descriptor" 2014-09-05 RCSB #