data_ARI
#
_chem_comp.id ARI
_chem_comp.name "(2R,3R,6R)-6-hydroxy-2-methyltetrahydro-2H-pyran-3-yl acetate"
_chem_comp.type "D-saccharide, beta linking"
_chem_comp.pdbx_type ATOMS
_chem_comp.formula "C8 H14 O4"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "[O4]-ACETOXY-2,3-DIDEOXYFUCOSE"
_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 174.194
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code ARI
_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 1D83
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id ARI
_pdbx_chem_comp_synonyms.name "[O4]-ACETOXY-2,3-DIDEOXYFUCOSE"
_pdbx_chem_comp_synonyms.provenance PDB
_pdbx_chem_comp_synonyms.type ?
#
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
ARI O1 OGL O 0 1 N Y N N N N 8.457 3.267 -4.692 -0.886 0.902 3.274 O1 ARI 1
ARI C1 C1 C 0 1 N N R N N N 9.242 2.493 -5.643 -0.393 -0.022 2.303 C1 ARI 2
ARI C2 C2 C 0 1 N N N N N N 8.734 2.511 -7.097 -1.504 -0.347 1.302 C2 ARI 3
ARI C3 C3 C 0 1 N N N N N N 9.569 1.706 -8.106 -0.977 -1.365 0.284 C3 ARI 4
ARI C4 C4 C 0 1 N N R N N N 11.061 2.041 -7.951 0.315 -0.817 -0.330 C4 ARI 5
ARI O4 O4 O 0 1 N N N N N N 11.205 3.310 -8.669 0.016 0.366 -1.116 O4 ARI 6
ARI CME CME C 0 1 N N N N N N 9.842 4.526 -10.502 -0.597 1.478 -3.233 CME ARI 7
ARI CO4 CO4 C 0 1 N N N N N N 10.935 3.471 -10.024 -0.287 0.249 -2.418 CO4 ARI 8
ARI OC4 OC4 O 0 1 N N N N N N 11.513 2.834 -10.881 -0.311 -0.841 -2.937 OC4 ARI 9
ARI C5 C5 C 0 1 N N R N N N 11.480 2.028 -6.446 1.289 -0.458 0.793 C5 ARI 10
ARI O5 O1 O 0 1 N N N N N N 10.619 2.876 -5.674 0.718 0.553 1.620 O5 ARI 11
ARI C6 C6 C 0 1 N N N N N N 12.930 2.564 -6.308 2.597 0.055 0.189 C6 ARI 12
ARI HO1 HOG H 0 1 N Y N N N N 8.770 3.255 -3.795 -0.159 1.077 3.887 HO1 ARI 13
ARI H1 H1 H 0 1 N N N N N N 9.121 1.458 -5.244 -0.076 -0.938 2.803 H1 ARI 14
ARI H2 H21 H 0 1 N N N N N N 7.670 2.177 -7.132 -2.359 -0.768 1.830 H2 ARI 15
ARI H22 H22 H 0 1 N N N N N N 8.624 3.563 -7.448 -1.806 0.563 0.784 H22 ARI 16
ARI H3 H31 H 0 1 N N N N N N 9.378 0.610 -8.023 -0.773 -2.311 0.785 H3 ARI 17
ARI H32 H32 H 0 1 N N N N N N 9.215 1.856 -9.152 -1.719 -1.516 -0.499 H32 ARI 18
ARI H4 H4 H 0 1 N N N N N N 11.766 1.294 -8.385 0.764 -1.576 -0.971 H4 ARI 19
ARI H41 H41 H 0 1 N N N N N N 9.625 4.655 -11.588 -0.818 1.187 -4.260 H41 ARI 20
ARI H42 H42 H 0 1 N N N N N N 8.884 4.302 -9.976 -1.460 1.989 -2.806 H42 ARI 21
ARI H43 H43 H 0 1 N N N N N N 10.104 5.522 -10.075 0.262 2.148 -3.222 H43 ARI 22
ARI H5 H5 H 0 1 N N N N N N 11.407 0.979 -6.073 1.492 -1.345 1.394 H5 ARI 23
ARI H61 H61 H 0 1 N N N N N N 13.229 2.554 -5.233 3.292 0.309 0.989 H61 ARI 24
ARI H62 H62 H 0 1 N N N N N N 13.649 2.004 -6.950 3.035 -0.718 -0.441 H62 ARI 25
ARI H63 H63 H 0 1 N N N N N N 13.053 3.570 -6.771 2.395 0.942 -0.411 H63 ARI 26
#
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
ARI O1 C1 SING N N 1
ARI O1 HO1 SING N N 2
ARI C1 C2 SING N N 3
ARI C1 O5 SING N N 4
ARI C1 H1 SING N N 5
ARI C2 C3 SING N N 6
ARI C2 H2 SING N N 7
ARI C2 H22 SING N N 8
ARI C3 C4 SING N N 9
ARI C3 H3 SING N N 10
ARI C3 H32 SING N N 11
ARI C4 O4 SING N N 12
ARI C4 C5 SING N N 13
ARI C4 H4 SING N N 14
ARI O4 CO4 SING N N 15
ARI CME CO4 SING N N 16
ARI CME H41 SING N N 17
ARI CME H42 SING N N 18
ARI CME H43 SING N N 19
ARI CO4 OC4 DOUB N N 20
ARI C5 O5 SING N N 21
ARI C5 C6 SING N N 22
ARI C5 H5 SING N N 23
ARI C6 H61 SING N N 24
ARI C6 H62 SING N N 25
ARI C6 H63 SING N N 26
#
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
ARI SMILES ACDLabs 10.04 O=C(OC1C(OC(O)CC1)C)C
ARI SMILES_CANONICAL CACTVS 3.341 C[C@H]1O[C@@H](O)CC[C@H]1OC(C)=O
ARI SMILES CACTVS 3.341 C[CH]1O[CH](O)CC[CH]1OC(C)=O
ARI SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 C[C@@H]1[C@@H](CC[C@@H](O1)O)OC(=O)C
ARI SMILES "OpenEye OEToolkits" 1.5.0 CC1C(CCC(O1)O)OC(=O)C
ARI InChI InChI 1.03 InChI=1S/C8H14O4/c1-5-7(12-6(2)9)3-4-8(10)11-5/h5,7-8,10H,3-4H2,1-2H3/t5-,7-,8-/m1/s1
ARI InChIKey InChI 1.03 NNWBJOVUTCFRGH-LPBLVHEISA-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
ARI "SYSTEMATIC NAME" ACDLabs 10.04 "(2R,3R,6R)-6-hydroxy-2-methyltetrahydro-2H-pyran-3-yl acetate"
ARI "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3R,6R)-6-hydroxy-2-methyl-oxan-3-yl] ethanoate"
#
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
ARI "CARBOHYDRATE ISOMER" D PDB ?
ARI "CARBOHYDRATE RING" pyranose PDB ?
ARI "CARBOHYDRATE ANOMER" beta PDB ?
ARI "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
ARI 'Create component' 1999-07-08 EBI
ARI 'Modify descriptor' 2011-06-04 RCSB
ARI 'Other modification' 2020-07-03 RCSB
ARI 'Modify name' 2020-07-17 RCSB
ARI 'Modify synonyms' 2020-07-17 RCSB
ARI 'Modify linking type' 2020-07-17 RCSB
ARI 'Modify atom id' 2020-07-17 RCSB
ARI 'Modify component atom id' 2020-07-17 RCSB
ARI 'Modify leaving atom flag' 2020-07-17 RCSB
#
_pdbe_chem_comp_synonyms.comp_id ARI
_pdbe_chem_comp_synonyms.name '[O4]-ACETOXY-2,3-DIDEOXYFUCOSE'
_pdbe_chem_comp_synonyms.provenance wwPDB
_pdbe_chem_comp_synonyms.type ?
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.09.6 'Core functionality.'
pdbeccdutils 0.8.6 '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
ARI O1 O 9.495 2.625 1
ARI C1 C 8.196 1.875 2
ARI C2 C 8.196 0.375 3
ARI C3 C 6.897 -0.375 4
ARI C4 C 5.598 0.375 5
ARI O4 O 4.299 -0.375 6
ARI CME C 5.598 -2.625 7
ARI CO4 C 4.299 -1.875 8
ARI OC4 O 3.000 -2.625 9
ARI C5 C 5.598 1.875 10
ARI O5 O 6.897 2.625 11
ARI C6 C 4.299 2.625 12
#
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
ARI C1 O1 SINGLE BEGINWEDGE 1
ARI C1 C2 SINGLE NONE 2
ARI C1 O5 SINGLE NONE 3
ARI C2 C3 SINGLE NONE 4
ARI C3 C4 SINGLE NONE 5
ARI C4 O4 SINGLE BEGINWEDGE 6
ARI C4 C5 SINGLE NONE 7
ARI O4 CO4 SINGLE NONE 8
ARI CME CO4 SINGLE NONE 9
ARI CO4 OC4 DOUBLE NONE 10
ARI C5 O5 SINGLE NONE 11
ARI C5 C6 SINGLE BEGINWEDGE 12
#
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
ARI MurckoScaffold S1 scaffold C1CCOCC1 InChI=1S/C5H10O/c1-2-4-6-5-3-1/h1-5H2 DHXVGJBLRPWPCS-UHFFFAOYSA-N
ARI pyranose F1 fragment OC1CCCCO1 InChI=1S/C5H10O2/c6-5-3-1-2-4-7-5/h5-6H,1-4H2 CELWCAITJAEQNL-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
ARI C1 S1 1
ARI C2 S1 1
ARI C3 S1 1
ARI C4 S1 1
ARI C5 S1 1
ARI O5 S1 1
ARI C4 F1 1
ARI C5 F1 1
ARI O5 F1 1
ARI C1 F1 1
ARI C2 F1 1
ARI C3 F1 1
ARI O1 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id ARI
_pdbe_chem_comp_rdkit_properties.exactmw 174.089
_pdbe_chem_comp_rdkit_properties.amw 174.196
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 4
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 12
_pdbe_chem_comp_rdkit_properties.NumAtoms 26
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.875
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 3
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 91.227
_pdbe_chem_comp_rdkit_properties.tpsa 55.760
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.435
_pdbe_chem_comp_rdkit_properties.CrippenMR 41.342
_pdbe_chem_comp_rdkit_properties.chi0v 5.633
_pdbe_chem_comp_rdkit_properties.chi1v 2.725
_pdbe_chem_comp_rdkit_properties.chi2v 0.874
_pdbe_chem_comp_rdkit_properties.chi3v 0.874
_pdbe_chem_comp_rdkit_properties.chi4v 0.494
_pdbe_chem_comp_rdkit_properties.chi0n 19.633
_pdbe_chem_comp_rdkit_properties.chi1n 9.633
_pdbe_chem_comp_rdkit_properties.chi2n 0.874
_pdbe_chem_comp_rdkit_properties.chi3n 0.874
_pdbe_chem_comp_rdkit_properties.chi4n 0.494
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.610
_pdbe_chem_comp_rdkit_properties.kappa1 1.907
_pdbe_chem_comp_rdkit_properties.kappa2 3.868
_pdbe_chem_comp_rdkit_properties.kappa3 2.461
_pdbe_chem_comp_rdkit_properties.Phi 0.615
#
_pdbe_chem_comp_external_mappings.comp_id ARI
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PubChem
_pdbe_chem_comp_external_mappings.resource_id 5287704
#
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
ARI O1 -3.273 -0.592 1.213 ETKDGv3 1
ARI C1 -2.579 0.105 0.214 ETKDGv3 2
ARI C2 -1.845 1.309 0.861 ETKDGv3 3
ARI C3 -0.362 0.997 1.064 ETKDGv3 4
ARI C4 0.307 0.557 -0.257 ETKDGv3 5
ARI O4 1.374 -0.351 0.029 ETKDGv3 6
ARI CME 3.635 -0.984 0.878 ETKDGv3 7
ARI CO4 2.585 0.040 0.610 ETKDGv3 8
ARI OC4 2.817 1.253 0.867 ETKDGv3 9
ARI C5 -0.733 -0.100 -1.205 ETKDGv3 10
ARI O5 -1.700 -0.801 -0.446 ETKDGv3 11
ARI C6 -0.090 -1.056 -2.212 ETKDGv3 12
ARI HO1 -3.839 -1.262 0.749 ETKDGv3 13
ARI H1 -3.319 0.498 -0.522 ETKDGv3 14
ARI H2 -2.309 1.580 1.835 ETKDGv3 15
ARI H22 -1.934 2.196 0.196 ETKDGv3 16
ARI H3 0.156 1.893 1.470 ETKDGv3 17
ARI H32 -0.275 0.185 1.819 ETKDGv3 18
ARI H4 0.719 1.451 -0.778 ETKDGv3 19
ARI H41 3.168 -1.986 0.984 ETKDGv3 20
ARI H42 4.176 -0.740 1.815 ETKDGv3 21
ARI H43 4.354 -1.006 0.033 ETKDGv3 22
ARI H5 -1.223 0.701 -1.810 ETKDGv3 23
ARI H61 -0.857 -1.410 -2.933 ETKDGv3 24
ARI H62 0.339 -1.942 -1.696 ETKDGv3 25
ARI H63 0.712 -0.536 -2.778 ETKDGv3 26
#