data_VPU # _chem_comp.id VPU _chem_comp.name "[[(3R,4R,5S,6R)-4,5-dihydroxy-6-(hydroxymethyl)-3-(pentanoylamino)oxan-2-ylidene]amino] N-phenylcarbamate" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H25 N3 O7" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms N-Valeryl-PUGNAc _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2009-04-15 _chem_comp.pdbx_modified_date 2021-03-01 _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 395.407 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VPU _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 3GSM _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.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 VPU C3 C3 C 0 1 N N N -8.481 18.949 12.692 1.735 6.659 -0.792 C3 VPU 1 VPU C2 C2 C 0 1 N N N -7.516 18.736 13.874 1.005 5.792 0.235 C2 VPU 2 VPU C1 C1 C 0 1 N N N -7.561 17.301 14.436 0.304 4.635 -0.480 C1 VPU 3 VPU CAH CAH C 0 1 N N N -6.140 16.821 14.757 -0.427 3.768 0.547 CAH VPU 4 VPU CAG CAG C 0 1 N N N -5.536 16.183 13.501 -1.118 2.629 -0.157 CAG VPU 5 VPU OAN OAN O 0 1 N N N -6.180 15.355 12.855 -1.034 2.521 -1.362 OAN VPU 6 VPU NAI NAI N 0 1 N N N -4.312 16.590 13.162 -1.828 1.730 0.552 NAI VPU 7 VPU CAB CAB C 0 1 N N R -3.655 16.032 11.965 -2.500 0.623 -0.133 CAB VPU 8 VPU CAC CAC C 0 1 N N R -2.533 15.022 12.298 -3.688 0.139 0.709 CAC VPU 9 VPU OAJ OAJ O 0 1 N N N -3.050 13.811 12.885 -4.702 1.145 0.729 OAJ VPU 10 VPU CAD CAD C 0 1 N N S -1.877 14.702 10.966 -4.249 -1.142 0.084 CAD VPU 11 VPU OAK OAK O 0 1 N N N -1.040 13.539 11.058 -5.354 -1.608 0.862 OAK VPU 12 VPU CAE CAE C 0 1 N N R -1.104 15.936 10.498 -3.157 -2.215 0.054 CAE VPU 13 VPU CAF CAF C 0 1 N N N -0.354 15.506 9.231 -3.704 -3.483 -0.603 CAF VPU 14 VPU OAM OAM O 0 1 N N N -1.266 15.431 8.132 -2.725 -4.520 -0.526 OAM VPU 15 VPU OAL OAL O 0 1 N N N -2.010 17.081 10.260 -2.039 -1.730 -0.698 OAL VPU 16 VPU CAA CAA C 0 1 N N N -3.204 17.134 10.966 -1.537 -0.532 -0.302 CAA VPU 17 VPU NAY NAY N 0 1 N N N -4.117 18.124 10.799 -0.275 -0.382 -0.076 NAY VPU 18 VPU OAQ OAQ O 0 1 N N N -4.129 19.235 9.969 0.484 -1.324 -0.219 OAQ VPU 19 VPU CAP CAP C 0 1 N N N -5.467 19.538 9.683 1.788 -1.101 0.033 CAP VPU 20 VPU OAR OAR O 0 1 N N N -6.372 18.747 9.965 2.158 0.002 0.385 OAR VPU 21 VPU NAO NAO N 0 1 N N N -5.819 20.689 9.092 2.681 -2.100 -0.105 NAO VPU 22 VPU CAS CAS C 0 1 Y N N -5.037 21.696 8.690 4.047 -1.846 0.062 CAS VPU 23 VPU CAT CAT C 0 1 Y N N -4.396 22.521 9.620 4.472 -0.917 1.003 CAT VPU 24 VPU CAU CAU C 0 1 Y N N -3.601 23.581 9.181 5.820 -0.668 1.166 CAU VPU 25 VPU CAV CAV C 0 1 Y N N -3.459 23.826 7.817 6.748 -1.343 0.394 CAV VPU 26 VPU CAW CAW C 0 1 Y N N -4.110 23.011 6.892 6.328 -2.269 -0.544 CAW VPU 27 VPU CAX CAX C 0 1 Y N N -4.905 21.953 7.324 4.981 -2.526 -0.708 CAX VPU 28 VPU H3 H3 H 0 1 N N N -9.514 19.000 13.066 2.475 6.055 -1.318 H3 VPU 29 VPU H3A H3A H 0 1 N N N -8.230 19.889 12.179 1.017 7.057 -1.508 H3A VPU 30 VPU H3B H3B H 0 1 N N N -8.387 18.110 11.987 2.235 7.483 -0.283 H3B VPU 31 VPU H2 H2 H 0 1 N N N -6.493 18.939 13.526 1.724 5.394 0.951 H2 VPU 32 VPU H2A H2A H 0 1 N N N -7.824 19.418 14.680 0.266 6.396 0.761 H2A VPU 33 VPU H1 H1 H 0 1 N N N -8.166 17.289 15.355 -0.415 5.034 -1.196 H1 VPU 34 VPU H1A H1A H 0 1 N N N -8.009 16.632 13.686 1.043 4.031 -1.005 H1A VPU 35 VPU HAH HAH H 0 1 N N N -5.523 17.676 15.071 0.292 3.370 1.263 HAH VPU 36 VPU HAHA HAHA H 0 0 N N N -6.171 16.082 15.572 -1.166 4.373 1.073 HAHA VPU 37 VPU HNAI HNAI H 0 0 N N N -3.840 17.273 13.719 -1.895 1.816 1.516 HNAI VPU 38 VPU HAB HAB H 0 1 N N N -4.427 15.445 11.445 -2.852 0.955 -1.109 HAB VPU 39 VPU HAC HAC H 0 1 N N N -1.834 15.448 13.032 -3.355 -0.065 1.727 HAC VPU 40 VPU HOAJ HOAJ H 0 0 N N N -3.164 13.154 12.208 -5.484 0.906 1.245 HOAJ VPU 41 VPU HAD HAD H 0 1 N N N -2.648 14.458 10.220 -4.583 -0.934 -0.933 HAD VPU 42 VPU HOAK HOAK H 0 0 N N N -0.855 13.212 10.186 -5.760 -2.418 0.523 HOAK VPU 43 VPU HAE HAE H 0 1 N N N -0.397 16.288 11.264 -2.841 -2.440 1.073 HAE VPU 44 VPU HAF HAF H 0 1 N N N 0.431 16.242 9.004 -4.610 -3.799 -0.085 HAF VPU 45 VPU HAFA HAFA H 0 0 N N N 0.101 14.518 9.395 -3.937 -3.279 -1.649 HAFA VPU 46 VPU HOAM HOAM H 0 0 N N N -2.157 15.414 8.460 -3.004 -5.356 -0.924 HOAM VPU 47 VPU HNAO HNAO H 0 0 N N N -6.798 20.810 8.930 2.378 -2.996 -0.320 HNAO VPU 48 VPU HAT HAT H 0 1 N N N -4.516 22.338 10.678 3.748 -0.389 1.607 HAT VPU 49 VPU HAU HAU H 0 1 N N N -3.096 24.211 9.898 6.151 0.054 1.898 HAU VPU 50 VPU HAV HAV H 0 1 N N N -2.845 24.647 7.476 7.802 -1.146 0.522 HAV VPU 51 VPU HAW HAW H 0 1 N N N -3.997 23.201 5.835 7.055 -2.793 -1.146 HAW VPU 52 VPU HAX HAX H 0 1 N N N -5.418 21.333 6.604 4.654 -3.252 -1.438 HAX VPU 53 # # 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 VPU C3 C2 SING N N 1 VPU C2 C1 SING N N 2 VPU C1 CAH SING N N 3 VPU CAH CAG SING N N 4 VPU CAG OAN DOUB N N 5 VPU CAG NAI SING N N 6 VPU NAI CAB SING N N 7 VPU CAB CAC SING N N 8 VPU CAB CAA SING N N 9 VPU CAC OAJ SING N N 10 VPU CAC CAD SING N N 11 VPU CAD OAK SING N N 12 VPU CAD CAE SING N N 13 VPU CAE CAF SING N N 14 VPU CAE OAL SING N N 15 VPU CAF OAM SING N N 16 VPU OAL CAA SING N N 17 VPU CAA NAY DOUB N N 18 VPU NAY OAQ SING N N 19 VPU OAQ CAP SING N N 20 VPU CAP OAR DOUB N N 21 VPU CAP NAO SING N N 22 VPU NAO CAS SING N N 23 VPU CAS CAT DOUB Y N 24 VPU CAS CAX SING Y N 25 VPU CAT CAU SING Y N 26 VPU CAU CAV DOUB Y N 27 VPU CAV CAW SING Y N 28 VPU CAW CAX DOUB Y N 29 VPU C3 H3 SING N N 30 VPU C3 H3A SING N N 31 VPU C3 H3B SING N N 32 VPU C2 H2 SING N N 33 VPU C2 H2A SING N N 34 VPU C1 H1 SING N N 35 VPU C1 H1A SING N N 36 VPU CAH HAH SING N Z 37 VPU CAH HAHA SING N N 38 VPU NAI HNAI SING N N 39 VPU CAB HAB SING N N 40 VPU CAC HAC SING N N 41 VPU OAJ HOAJ SING N N 42 VPU CAD HAD SING N N 43 VPU OAK HOAK SING N N 44 VPU CAE HAE SING N N 45 VPU CAF HAF SING N N 46 VPU CAF HAFA SING N N 47 VPU OAM HOAM SING N N 48 VPU NAO HNAO SING N N 49 VPU CAT HAT SING N N 50 VPU CAU HAU SING N N 51 VPU CAV HAV SING N N 52 VPU CAW HAW SING N N 53 VPU CAX HAX 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 VPU SMILES ACDLabs 10.04 "O=C(O\N=C1/OC(CO)C(O)C(O)C1NC(=O)CCCC)Nc2ccccc2" VPU SMILES_CANONICAL CACTVS 3.341 "CCCCC(=O)N[C@@H]\1[C@@H](O)[C@H](O)[C@@H](CO)OC\1=N\OC(=O)Nc2ccccc2" VPU SMILES CACTVS 3.341 "CCCCC(=O)N[CH]1[CH](O)[CH](O)[CH](CO)OC1=NOC(=O)Nc2ccccc2" VPU SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CCCCC(=O)N[C@@H]\1[C@H]([C@@H]([C@H](O/C1=N\OC(=O)Nc2ccccc2)CO)O)O" VPU SMILES "OpenEye OEToolkits" 1.5.0 "CCCCC(=O)NC1C(C(C(OC1=NOC(=O)Nc2ccccc2)CO)O)O" VPU InChI InChI 1.03 "InChI=1S/C18H25N3O7/c1-2-3-9-13(23)20-14-16(25)15(24)12(10-22)27-17(14)21-28-18(26)19-11-7-5-4-6-8-11/h4-8,12,14-16,22,24-25H,2-3,9-10H2,1H3,(H,19,26)(H,20,23)/b21-17-/t12-,14-,15-,16-/m1/s1" VPU InChIKey InChI 1.03 NUNQIQQEEPOGDJ-JDOAOKHLSA-N # # 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 VPU "SYSTEMATIC NAME" ACDLabs 10.04 "N-[(2Z,3R,4R,5S,6R)-4,5-dihydroxy-6-(hydroxymethyl)-2-{[(phenylcarbamoyl)oxy]imino}tetrahydro-2H-pyran-3-yl]pentanamide (non-preferred name)" VPU "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[[(3R,4R,5S,6R)-4,5-dihydroxy-6-(hydroxymethyl)-3-(pentanoylamino)oxan-2-ylidene]amino] N-phenylcarbamate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VPU "Create component" 2009-04-15 RCSB VPU "Modify aromatic_flag" 2011-06-04 RCSB VPU "Modify descriptor" 2011-06-04 RCSB VPU "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id VPU _pdbx_chem_comp_synonyms.name N-Valeryl-PUGNAc _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##