data_OPM # _chem_comp.id OPM _chem_comp.name "pentyl alpha-D-mannopyranoside" _chem_comp.type D-saccharide _chem_comp.pdbx_type ATOMS _chem_comp.formula "C11 H22 O6" _chem_comp.mon_nstd_parent_comp_id MAN _chem_comp.pdbx_synonyms "O1-PENTYL-MANNOSE; pentyl alpha-D-mannoside; pentyl D-mannoside; pentyl mannoside" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2002-07-10 _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 250.289 _chem_comp.one_letter_code ? _chem_comp.three_letter_code OPM _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 1M5J _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # # 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 OPM O1-PENTYL-MANNOSE PDB ? 2 OPM "pentyl alpha-D-mannoside" PDB ? 3 OPM "pentyl D-mannoside" PDB ? 4 OPM "pentyl 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 OPM "C3'" "C3'" C 0 1 N N N 21.035 59.110 140.405 0.319 -0.129 3.969 "C3'" OPM 1 OPM "C4'" "C4'" C 0 1 N N N 21.709 60.205 141.264 0.485 0.884 5.103 "C4'" OPM 2 OPM "C5'" "C5'" C 0 1 N N N 22.768 59.599 142.196 -0.056 0.287 6.404 "C5'" OPM 3 OPM "C1'" "C1'" C 0 1 N N N 20.476 60.255 138.120 0.695 -0.547 1.534 "C1'" OPM 4 OPM "C2'" "C2'" C 0 1 N N N 19.954 59.632 139.436 0.860 0.466 2.668 "C2'" OPM 5 OPM C2 C2 C 0 1 N N S 21.039 57.251 136.028 1.546 -0.443 -2.028 C2 OPM 6 OPM O2 O2 O 0 1 N N N 20.218 56.108 135.831 1.339 -1.417 -3.052 O2 OPM 7 OPM C3 C3 C 0 1 N N S 21.660 57.705 134.674 0.793 0.842 -2.383 C3 OPM 8 OPM O3 O3 O 0 1 N N N 22.163 56.575 133.910 1.166 1.274 -3.693 O3 OPM 9 OPM C4 C4 C 0 1 N N S 20.638 58.458 133.808 -0.712 0.554 -2.347 C4 OPM 10 OPM O4 O4 O 0 1 N N N 21.307 59.040 132.701 -1.438 1.771 -2.530 O4 OPM 11 OPM C5 C5 C 0 1 N N R 19.927 59.551 134.616 -1.069 -0.056 -0.990 C5 OPM 12 OPM O5 O5 O 0 1 N N N 19.286 58.960 135.771 -0.368 -1.286 -0.814 O5 OPM 13 OPM C6 C6 C 0 1 N N N 18.855 60.316 133.826 -2.576 -0.317 -0.932 C6 OPM 14 OPM O6 O6 O 0 1 N N N 18.131 59.423 132.946 -2.914 -0.881 0.336 O6 OPM 15 OPM O1 O1 O 0 1 N N N 21.058 59.364 137.186 1.200 0.009 0.319 O1 OPM 16 OPM C1 C1 C 0 1 N N S 20.221 58.370 136.698 1.018 -0.979 -0.695 C1 OPM 17 OPM "H3'1" "H3'1" H 0 0 N N N 21.804 58.524 139.849 0.872 -1.037 4.210 "H3'1" OPM 18 OPM "H3'2" "H3'2" H 0 0 N N N 20.617 58.307 141.056 -0.736 -0.369 3.847 "H3'2" OPM 19 OPM "H4'1" "H4'1" H 0 0 N N N 22.134 61.019 140.632 -0.067 1.792 4.862 "H4'1" OPM 20 OPM "H4'2" "H4'2" H 0 0 N N N 20.957 60.804 141.829 1.541 1.123 5.225 "H4'2" OPM 21 OPM "H5'1" "H5'1" H 0 0 N N N 23.254 60.388 142.815 0.061 1.010 7.211 "H5'1" OPM 22 OPM "H5'2" "H5'2" H 0 0 N N N 22.342 58.784 142.827 -1.112 0.048 6.282 "H5'2" OPM 23 OPM "H5'3" "H5'3" H 0 0 N N N 23.519 58.999 141.630 0.496 -0.620 6.644 "H5'3" OPM 24 OPM "H1'1" "H1'1" H 0 0 N N N 19.658 60.832 137.628 1.248 -1.455 1.775 "H1'1" OPM 25 OPM "H1'2" "H1'2" H 0 0 N N N 21.193 61.076 138.352 -0.361 -0.786 1.412 "H1'2" OPM 26 OPM "H2'1" "H2'1" H 0 0 N N N 19.223 58.820 139.209 0.308 1.374 2.427 "H2'1" OPM 27 OPM "H2'2" "H2'2" H 0 0 N N N 19.289 60.356 139.962 1.917 0.706 2.790 "H2'2" OPM 28 OPM H2 H2 H 0 1 N N N 21.883 56.996 136.709 2.610 -0.229 -1.938 H2 OPM 29 OPM HO2 HO2 H 0 1 N Y N 19.839 55.831 136.657 1.829 -2.208 -2.789 HO2 OPM 30 OPM H3 H3 H 0 1 N N N 22.504 58.385 134.932 1.034 1.620 -1.659 H3 OPM 31 OPM HO3 HO3 H 0 1 N Y N 22.541 56.852 133.084 2.118 1.443 -3.671 HO3 OPM 32 OPM H4 H4 H 0 1 N N N 19.867 57.733 133.453 -0.968 -0.146 -3.141 H4 OPM 33 OPM HO4 HO4 H 0 1 N Y N 20.675 59.505 132.165 -1.183 2.121 -3.394 HO4 OPM 34 OPM H5 H5 H 0 1 N N N 20.720 60.280 134.900 -0.791 0.635 -0.196 H5 OPM 35 OPM H61 H61 H 0 1 N N N 18.167 60.878 134.500 -3.112 0.622 -1.067 H61 OPM 36 OPM H62 H62 H 0 1 N N N 19.289 61.180 133.271 -2.855 -1.011 -1.725 H62 OPM 37 OPM HO6 HO6 H 0 1 N Y N 17.467 59.896 132.457 -3.869 -1.029 0.330 HO6 OPM 38 OPM H1 H1 H 0 1 N N N 19.656 57.907 137.541 1.567 -1.881 -0.424 H1 OPM 39 # # 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 OPM "C3'" "C4'" SING N N 1 OPM "C3'" "C2'" SING N N 2 OPM "C3'" "H3'1" SING N N 3 OPM "C3'" "H3'2" SING N N 4 OPM "C4'" "C5'" SING N N 5 OPM "C4'" "H4'1" SING N N 6 OPM "C4'" "H4'2" SING N N 7 OPM "C5'" "H5'1" SING N N 8 OPM "C5'" "H5'2" SING N N 9 OPM "C5'" "H5'3" SING N N 10 OPM "C1'" "C2'" SING N N 11 OPM "C1'" O1 SING N N 12 OPM "C1'" "H1'1" SING N N 13 OPM "C1'" "H1'2" SING N N 14 OPM "C2'" "H2'1" SING N N 15 OPM "C2'" "H2'2" SING N N 16 OPM C2 O2 SING N N 17 OPM C2 C3 SING N N 18 OPM C2 C1 SING N N 19 OPM C2 H2 SING N N 20 OPM O2 HO2 SING N N 21 OPM C3 O3 SING N N 22 OPM C3 C4 SING N N 23 OPM C3 H3 SING N N 24 OPM O3 HO3 SING N N 25 OPM C4 O4 SING N N 26 OPM C4 C5 SING N N 27 OPM C4 H4 SING N N 28 OPM O4 HO4 SING N N 29 OPM C5 O5 SING N N 30 OPM C5 C6 SING N N 31 OPM C5 H5 SING N N 32 OPM O5 C1 SING N N 33 OPM C6 O6 SING N N 34 OPM C6 H61 SING N N 35 OPM C6 H62 SING N N 36 OPM O6 HO6 SING N N 37 OPM O1 C1 SING N N 38 OPM C1 H1 SING N N 39 # # 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 OPM SMILES ACDLabs 10.04 "O(CCCCC)C1OC(C(O)C(O)C1O)CO" OPM SMILES_CANONICAL CACTVS 3.341 "CCCCCO[C@H]1O[C@H](CO)[C@@H](O)[C@H](O)[C@@H]1O" OPM SMILES CACTVS 3.341 "CCCCCO[CH]1O[CH](CO)[CH](O)[CH](O)[CH]1O" OPM SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CCCCCO[C@@H]1[C@H]([C@H]([C@@H]([C@H](O1)CO)O)O)O" OPM SMILES "OpenEye OEToolkits" 1.5.0 "CCCCCOC1C(C(C(C(O1)CO)O)O)O" OPM InChI InChI 1.03 "InChI=1S/C11H22O6/c1-2-3-4-5-16-11-10(15)9(14)8(13)7(6-12)17-11/h7-15H,2-6H2,1H3/t7-,8-,9+,10+,11+/m1/s1" OPM InChIKey InChI 1.03 RYIWDDCNJPSPRA-UVOCVTCTSA-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 OPM "SYSTEMATIC NAME" ACDLabs 10.04 "pentyl alpha-D-mannopyranoside" OPM "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2R,3S,4S,5S,6S)-2-(hydroxymethyl)-6-pentoxy-oxane-3,4,5-triol" OPM "IUPAC CARBOHYDRATE SYMBOL" PDB-CARE 1.0 O1-pentyl-mannose # _pdbx_chem_comp_related.comp_id OPM _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 OPM C1 MAN C1 "Carbohydrate core" 2 OPM C2 MAN C2 "Carbohydrate core" 3 OPM C3 MAN C3 "Carbohydrate core" 4 OPM C4 MAN C4 "Carbohydrate core" 5 OPM C5 MAN C5 "Carbohydrate core" 6 OPM C6 MAN C6 "Carbohydrate core" 7 OPM O1 MAN O1 "Carbohydrate core" 8 OPM O2 MAN O2 "Carbohydrate core" 9 OPM O3 MAN O3 "Carbohydrate core" 10 OPM O4 MAN O4 "Carbohydrate core" 11 OPM O5 MAN O5 "Carbohydrate core" 12 OPM O6 MAN O6 "Carbohydrate core" 13 OPM H1 MAN H1 "Carbohydrate core" 14 OPM H2 MAN H2 "Carbohydrate core" 15 OPM H3 MAN H3 "Carbohydrate core" 16 OPM H4 MAN H4 "Carbohydrate core" 17 OPM H5 MAN H5 "Carbohydrate core" 18 OPM H61 MAN H61 "Carbohydrate core" 19 OPM H62 MAN H62 "Carbohydrate core" 20 OPM HO2 MAN HO2 "Carbohydrate core" 21 OPM HO3 MAN HO3 "Carbohydrate core" 22 OPM HO4 MAN HO4 "Carbohydrate core" 23 OPM 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 OPM "CARBOHYDRATE ISOMER" D PDB ? OPM "CARBOHYDRATE RING" pyranose PDB ? OPM "CARBOHYDRATE ANOMER" alpha PDB ? OPM "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 OPM "Create component" 2002-07-10 RCSB OPM "Modify descriptor" 2011-06-04 RCSB OPM "Other modification" 2020-07-03 RCSB OPM "Modify parent residue" 2020-07-17 RCSB OPM "Modify name" 2020-07-17 RCSB OPM "Modify synonyms" 2020-07-17 RCSB OPM "Modify linking type" 2020-07-17 RCSB OPM "Modify leaving atom flag" 2020-07-17 RCSB ##