data_PNA # _chem_comp.id PNA _chem_comp.name "4-nitrophenyl alpha-D-mannopyranoside" _chem_comp.type D-saccharide _chem_comp.pdbx_type ATOMS _chem_comp.formula "C12 H15 N O8" _chem_comp.mon_nstd_parent_comp_id MAN _chem_comp.pdbx_synonyms ;4'-NITROPHENYL-ALPHA-D-MANNOPYRANOSIDE; 4-nitrophenyl alpha-D-mannoside; 4-nitrophenyl D-mannoside; 4-nitrophenyl mannoside ; _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _chem_comp.pdbx_modified_date 2020-07-17 _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 301.249 _chem_comp.one_letter_code ? _chem_comp.three_letter_code PNA _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1VAM _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # # loop_ _pdbx_chem_comp_synonyms.ordinal _pdbx_chem_comp_synonyms.comp_id _pdbx_chem_comp_synonyms.name _pdbx_chem_comp_synonyms.provenance _pdbx_chem_comp_synonyms.type 1 PNA "4'-NITROPHENYL-ALPHA-D-MANNOPYRANOSIDE" PDB ? 2 PNA "4-nitrophenyl alpha-D-mannoside" PDB ? 3 PNA "4-nitrophenyl D-mannoside" PDB ? 4 PNA "4-nitrophenyl mannoside" PDB ? # # 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 PNA C1 C1 C 0 1 N N R 6.219 44.578 -20.504 -1.174 -1.094 0.525 C1 PNA 1 PNA C2 C2 C 0 1 N N S 5.083 45.142 -19.651 -2.627 -1.553 0.384 C2 PNA 2 PNA C3 C3 C 0 1 N N S 5.637 45.850 -18.421 -3.346 -0.636 -0.612 C3 PNA 3 PNA C4 C4 C 0 1 N N S 6.593 44.940 -17.651 -3.162 0.817 -0.160 C4 PNA 4 PNA C5 C5 C 0 1 N N R 7.649 44.336 -18.575 -1.668 1.097 0.021 C5 PNA 5 PNA C6 C6 C 0 1 N N N 8.471 43.271 -17.872 -1.471 2.556 0.438 C6 PNA 6 PNA C7 C7 C 0 1 Y N N 8.062 45.378 -21.964 0.776 -0.854 -0.549 C7 PNA 7 PNA C8 C8 C 0 1 Y N N 8.802 46.450 -22.467 1.262 -0.712 0.743 C8 PNA 8 PNA C9 C9 C 0 1 Y N N 9.892 46.237 -23.323 2.598 -0.424 0.948 C9 PNA 9 PNA C10 C10 C 0 1 Y N N 10.253 44.926 -23.684 3.449 -0.278 -0.131 C10 PNA 10 PNA C11 C11 C 0 1 Y N N 9.511 43.855 -23.180 2.967 -0.420 -1.419 C11 PNA 11 PNA C12 C12 C 0 1 Y N N 8.429 44.084 -22.329 1.633 -0.713 -1.630 C12 PNA 12 PNA N1 N1 N 1 1 N N N 11.319 44.637 -24.539 4.879 0.031 0.092 N1 PNA 13 PNA O1 O1 O 0 1 N N N 6.956 45.635 -21.074 -0.537 -1.138 -0.754 O1 PNA 14 PNA O2 O2 O 0 1 N N N 4.230 44.086 -19.238 -3.276 -1.484 1.655 O2 PNA 15 PNA O3 O3 O 0 1 N N N 4.564 46.219 -17.567 -4.738 -0.959 -0.642 O3 PNA 16 PNA O4 O4 O 0 1 N N N 7.236 45.693 -16.631 -3.697 1.697 -1.150 O4 PNA 17 PNA O5 O5 O 0 1 N N N 7.021 43.706 -19.713 -1.135 0.240 1.028 O5 PNA 18 PNA O6 O6 O 0 1 N N N 7.655 42.188 -17.446 -0.074 2.852 0.490 O6 PNA 19 PNA O7 O7 O 0 1 N N N 12.377 45.212 -24.500 5.305 0.157 1.226 O7 PNA 20 PNA O8 O8 O -1 1 N N N 11.208 43.772 -25.369 5.630 0.160 -0.858 O8 PNA 21 PNA H1 H1 H 0 1 N N N 5.810 43.974 -21.347 -0.650 -1.757 1.213 H1 PNA 22 PNA H2 H2 H 0 1 N N N 4.510 45.876 -20.263 -2.652 -2.580 0.018 H2 PNA 23 PNA H3 H3 H 0 1 N N N 6.194 46.754 -18.757 -2.919 -0.768 -1.606 H3 PNA 24 PNA H4 H4 H 0 1 N N N 6.001 44.106 -17.204 -3.681 0.973 0.786 H4 PNA 25 PNA H5 H5 H 0 1 N N N 8.310 45.175 -18.891 -1.149 0.916 -0.921 H5 PNA 26 PNA H61 H61 H 0 1 N N N 9.317 42.920 -18.507 -1.913 2.716 1.421 H61 PNA 27 PNA H62 H62 H 0 1 N N N 9.058 43.698 -17.026 -1.954 3.210 -0.289 H62 PNA 28 PNA H8 H8 H 0 1 N N N 8.521 47.478 -22.184 0.598 -0.825 1.586 H8 PNA 29 PNA H9 H9 H 0 1 N N N 10.463 47.097 -23.710 2.977 -0.313 1.954 H9 PNA 30 PNA H11 H11 H 0 1 N N N 9.781 42.821 -23.455 3.634 -0.305 -2.261 H11 PNA 31 PNA H12 H12 H 0 1 N N N 7.854 43.227 -21.938 1.257 -0.824 -2.636 H12 PNA 32 PNA HO2 HO2 H 0 1 N Y N 3.523 44.436 -18.707 -2.788 -2.069 2.250 HO2 PNA 33 PNA HO3 HO3 H 0 1 N Y N 4.909 46.660 -16.800 -4.805 -1.883 -0.919 HO3 PNA 34 PNA HO4 HO4 H 0 1 N Y N 7.830 45.127 -16.152 -4.636 1.482 -1.237 HO4 PNA 35 PNA HO6 HO6 H 0 1 N Y N 8.169 41.521 -17.006 0.006 3.778 0.756 HO6 PNA 36 # # 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 PNA C1 C2 SING N N 1 PNA C1 O1 SING N N 2 PNA C1 O5 SING N N 3 PNA C1 H1 SING N N 4 PNA C2 C3 SING N N 5 PNA C2 O2 SING N N 6 PNA C2 H2 SING N N 7 PNA C3 C4 SING N N 8 PNA C3 O3 SING N N 9 PNA C3 H3 SING N N 10 PNA C4 C5 SING N N 11 PNA C4 O4 SING N N 12 PNA C4 H4 SING N N 13 PNA C5 C6 SING N N 14 PNA C5 O5 SING N N 15 PNA C5 H5 SING N N 16 PNA C6 O6 SING N N 17 PNA C6 H61 SING N N 18 PNA C6 H62 SING N N 19 PNA C7 C8 DOUB Y N 20 PNA C7 C12 SING Y N 21 PNA C7 O1 SING N N 22 PNA C8 C9 SING Y N 23 PNA C8 H8 SING N N 24 PNA C9 C10 DOUB Y N 25 PNA C9 H9 SING N N 26 PNA C10 C11 SING Y N 27 PNA C10 N1 SING N N 28 PNA C11 C12 DOUB Y N 29 PNA C11 H11 SING N N 30 PNA C12 H12 SING N N 31 PNA N1 O7 DOUB N N 32 PNA N1 O8 SING N N 33 PNA O2 HO2 SING N N 34 PNA O3 HO3 SING N N 35 PNA O4 HO4 SING N N 36 PNA O6 HO6 SING N N 37 # # 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 PNA SMILES ACDLabs 10.04 "[O-][N+](=O)c2ccc(OC1OC(C(O)C(O)C1O)CO)cc2" PNA SMILES_CANONICAL CACTVS 3.341 "OC[C@H]1O[C@H](Oc2ccc(cc2)[N+]([O-])=O)[C@@H](O)[C@@H](O)[C@@H]1O" PNA SMILES CACTVS 3.341 "OC[CH]1O[CH](Oc2ccc(cc2)[N+]([O-])=O)[CH](O)[CH](O)[CH]1O" PNA SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1cc(ccc1[N+](=O)[O-])O[C@@H]2[C@H]([C@H]([C@@H]([C@H](O2)CO)O)O)O" PNA SMILES "OpenEye OEToolkits" 1.5.0 "c1cc(ccc1[N+](=O)[O-])OC2C(C(C(C(O2)CO)O)O)O" PNA InChI InChI 1.03 "InChI=1S/C12H15NO8/c14-5-8-9(15)10(16)11(17)12(21-8)20-7-3-1-6(2-4-7)13(18)19/h1-4,8-12,14-17H,5H2/t8-,9-,10+,11+,12+/m1/s1" PNA InChIKey InChI 1.03 IFBHRQDFSNCLOZ-GCHJQGSQSA-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 PNA "SYSTEMATIC NAME" ACDLabs 10.04 "4-nitrophenyl alpha-D-mannopyranoside" PNA "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2R,3S,4S,5S,6R)-2-(hydroxymethyl)-6-(4-nitrophenoxy)oxane-3,4,5-triol" PNA "IUPAC CARBOHYDRATE SYMBOL" PDB-CARE 1.0 "4'-nitrophenyl-a-D-mannopyranoside" # _pdbx_chem_comp_related.comp_id PNA _pdbx_chem_comp_related.related_comp_id MAN _pdbx_chem_comp_related.relationship_type "Carbohydrate core" _pdbx_chem_comp_related.details ? # # loop_ _pdbx_chem_comp_atom_related.ordinal _pdbx_chem_comp_atom_related.comp_id _pdbx_chem_comp_atom_related.atom_id _pdbx_chem_comp_atom_related.related_comp_id _pdbx_chem_comp_atom_related.related_atom_id _pdbx_chem_comp_atom_related.related_type 1 PNA C1 MAN C1 "Carbohydrate core" 2 PNA C2 MAN C2 "Carbohydrate core" 3 PNA C3 MAN C3 "Carbohydrate core" 4 PNA C4 MAN C4 "Carbohydrate core" 5 PNA C5 MAN C5 "Carbohydrate core" 6 PNA C6 MAN C6 "Carbohydrate core" 7 PNA O1 MAN O1 "Carbohydrate core" 8 PNA O2 MAN O2 "Carbohydrate core" 9 PNA O3 MAN O3 "Carbohydrate core" 10 PNA O4 MAN O4 "Carbohydrate core" 11 PNA O5 MAN O5 "Carbohydrate core" 12 PNA O6 MAN O6 "Carbohydrate core" 13 PNA H1 MAN H1 "Carbohydrate core" 14 PNA H2 MAN H2 "Carbohydrate core" 15 PNA H3 MAN H3 "Carbohydrate core" 16 PNA H4 MAN H4 "Carbohydrate core" 17 PNA H5 MAN H5 "Carbohydrate core" 18 PNA H61 MAN H61 "Carbohydrate core" 19 PNA H62 MAN H62 "Carbohydrate core" 20 PNA HO2 MAN HO2 "Carbohydrate core" 21 PNA HO3 MAN HO3 "Carbohydrate core" 22 PNA HO4 MAN HO4 "Carbohydrate core" 23 PNA HO6 MAN HO6 "Carbohydrate core" # # loop_ _pdbx_chem_comp_feature.comp_id _pdbx_chem_comp_feature.type _pdbx_chem_comp_feature.value _pdbx_chem_comp_feature.source _pdbx_chem_comp_feature.support PNA "CARBOHYDRATE ISOMER" D PDB ? PNA "CARBOHYDRATE RING" pyranose PDB ? PNA "CARBOHYDRATE ANOMER" alpha PDB ? PNA "CARBOHYDRATE PRIMARY CARBONYL GROUP" aldose PDB ? # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site PNA "Create component" 1999-07-08 EBI PNA "Modify descriptor" 2011-06-04 RCSB PNA "Other modification" 2020-07-03 RCSB PNA "Modify parent residue" 2020-07-17 RCSB PNA "Modify name" 2020-07-17 RCSB PNA "Modify synonyms" 2020-07-17 RCSB PNA "Modify linking type" 2020-07-17 RCSB PNA "Modify leaving atom flag" 2020-07-17 RCSB ##