data_AMI
#
_chem_comp.id AMI
_chem_comp.name ALLOSAMIZOLINE
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C9 H16 N2 O4"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-08
_chem_comp.pdbx_modified_date 2011-06-04
_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 216.234
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code AMI
_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 1LLO
_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.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
AMI C1 C1 C 0 1 N N S N N N 20.881 43.121 21.953 -0.224 -1.245 -0.326 C1 AMI 1
AMI C2 C2 C 0 1 N N R N N N 19.824 43.278 23.073 1.275 -0.892 -0.120 C2 AMI 2
AMI C3 C3 C 0 1 N N R N N N 18.527 43.618 22.328 1.647 0.038 -1.283 C3 AMI 3
AMI C4 C4 C 0 1 N N R N N N 18.995 44.455 21.134 0.356 0.767 -1.682 C4 AMI 4
AMI C5 C5 C 0 1 N N R N N N 20.184 43.618 20.672 -0.815 -0.031 -1.096 C5 AMI 5
AMI C6 C6 C 0 1 N N N N N N 21.110 44.448 19.772 -1.722 -0.525 -2.225 C6 AMI 6
AMI C7 C7 C 0 1 N N N N N N 20.444 41.119 22.903 0.099 -0.363 1.722 C7 AMI 7
AMI C8 C8 C 0 1 N N N N N N 19.930 39.134 24.101 0.667 1.105 3.611 C8 AMI 8
AMI C9 C9 C 0 1 N N N N N N 21.457 38.974 22.220 -1.559 -0.107 3.518 C9 AMI 9
AMI N2 N2 N 0 1 N N N N N N 19.739 41.995 23.663 1.238 -0.134 1.142 N2 AMI 10
AMI N7 N7 N 0 1 N N N N N N 20.624 39.784 23.047 -0.256 0.198 2.924 N7 AMI 11
AMI O3 O3 O 0 1 N N N N N N 17.700 44.390 23.171 2.141 -0.725 -2.384 O3 AMI 12
AMI O4 O4 O 0 1 N N N N N N 18.043 44.477 20.073 0.360 2.092 -1.147 O4 AMI 13
AMI O6 O6 O 0 1 N N N N N N 22.063 43.565 19.226 -2.257 0.595 -2.932 O6 AMI 14
AMI O7 O7 O 0 1 N N N N N N 21.089 41.709 21.877 -0.698 -1.208 1.040 O7 AMI 15
AMI H1 H1 H 0 1 N N N N N N 21.840 43.667 22.109 -0.392 -2.198 -0.828 H1 AMI 16
AMI H2 H2 H 0 1 N N N N N N 20.042 44.048 23.848 1.916 -1.772 -0.065 H2 AMI 17
AMI H3 H3 H 0 1 N N N N N N 17.945 42.719 22.015 2.399 0.758 -0.960 H3 AMI 18
AMI H4 H4 H 0 1 N N N N N N 19.186 45.521 21.398 0.272 0.806 -2.768 H4 AMI 19
AMI H5 H5 H 0 1 N N N N N N 19.870 42.747 20.049 -1.386 0.597 -0.412 H5 AMI 20
AMI H61 1H6 H 0 1 N N N N N N 20.558 45.029 18.996 -1.143 -1.144 -2.911 H61 AMI 21
AMI H62 2H6 H 0 1 N N N N N N 21.570 45.314 20.300 -2.538 -1.113 -1.805 H62 AMI 22
AMI H81 1H8 H 0 1 N N N N N N 20.078 38.035 24.219 0.214 1.448 4.541 H81 AMI 23
AMI H82 2H8 H 0 1 N N N N N N 20.166 39.642 25.064 1.595 0.579 3.831 H82 AMI 24
AMI H83 3H8 H 0 1 N N N N N N 18.839 39.350 24.010 0.878 1.962 2.971 H83 AMI 25
AMI H91 1H9 H 0 1 N N N N N N 21.605 37.875 22.338 -1.662 0.426 4.463 H91 AMI 26
AMI H92 2H9 H 0 1 N N N N N N 21.123 39.140 21.169 -2.351 0.202 2.837 H92 AMI 27
AMI H93 3H9 H 0 1 N N N N N N 22.471 39.437 22.235 -1.634 -1.180 3.697 H93 AMI 28
AMI HO3 HO3 H 0 1 N N N N N N 16.896 44.600 22.709 2.360 -0.096 -3.085 HO3 AMI 29
AMI HO4 HO4 H 0 1 N N N N N N 18.333 44.996 19.332 1.119 2.548 -1.536 HO4 AMI 30
AMI HO6 HO6 H 0 1 N N N N N N 22.636 44.078 18.669 -2.821 0.241 -3.633 HO6 AMI 31
#
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
AMI C1 C2 SING N N 1
AMI C1 C5 SING N N 2
AMI C1 O7 SING N N 3
AMI C1 H1 SING N N 4
AMI C2 C3 SING N N 5
AMI C2 N2 SING N N 6
AMI C2 H2 SING N N 7
AMI C3 C4 SING N N 8
AMI C3 O3 SING N N 9
AMI C3 H3 SING N N 10
AMI C4 C5 SING N N 11
AMI C4 O4 SING N N 12
AMI C4 H4 SING N N 13
AMI C5 C6 SING N N 14
AMI C5 H5 SING N N 15
AMI C6 O6 SING N N 16
AMI C6 H61 SING N N 17
AMI C6 H62 SING N N 18
AMI C7 N2 DOUB N N 19
AMI C7 N7 SING N N 20
AMI C7 O7 SING N N 21
AMI C8 N7 SING N N 22
AMI C8 H81 SING N N 23
AMI C8 H82 SING N N 24
AMI C8 H83 SING N N 25
AMI C9 N7 SING N N 26
AMI C9 H91 SING N N 27
AMI C9 H92 SING N N 28
AMI C9 H93 SING N N 29
AMI O3 HO3 SING N N 30
AMI O4 HO4 SING N N 31
AMI O6 HO6 SING N N 32
#
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
AMI SMILES ACDLabs 10.04 N1=C(OC2C1C(O)C(O)C2CO)N(C)C
AMI SMILES_CANONICAL CACTVS 3.341 CN(C)C1=N[C@@H]2[C@@H](O)[C@H](O)[C@@H](CO)[C@@H]2O1
AMI SMILES CACTVS 3.341 CN(C)C1=N[CH]2[CH](O)[CH](O)[CH](CO)[CH]2O1
AMI SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 CN(C)C1=N[C@@H]2[C@H]([C@@H]([C@H]([C@@H]2O1)CO)O)O
AMI SMILES "OpenEye OEToolkits" 1.5.0 CN(C)C1=NC2C(C(C(C2O1)CO)O)O
AMI InChI InChI 1.03 InChI=1S/C9H16N2O4/c1-11(2)9-10-5-7(14)6(13)4(3-12)8(5)15-9/h4-8,12-14H,3H2,1-2H3/t4-,5-,6-,7-,8+/m1/s1
AMI InChIKey InChI 1.03 MKJAYSJDHSEFRI-PVFLNQBWSA-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
AMI "SYSTEMATIC NAME" ACDLabs 10.04 (3aR,4R,5R,6R,6aS)-2-(dimethylamino)-6-(hydroxymethyl)-4,5,6,6a-tetrahydro-3aH-cyclopenta[d][1,3]oxazole-4,5-diol
AMI "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 (3aR,4R,5R,6R,6aS)-2-dimethylamino-6-(hydroxymethyl)-4,5,6,6a-tetrahydro-3aH-cyclopenta[d][1,3]oxazole-4,5-diol
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
AMI 'Create component' 1999-07-08 EBI
AMI 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id AMI
_pdbe_chem_comp_drugbank_details.drugbank_id DB04404
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Allosamizoline
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id AMI
_pdbe_chem_comp_synonyms.name Allosamizoline
_pdbe_chem_comp_synonyms.provenance DrugBank
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id AMI
_pdbe_chem_comp_drugbank_classification.drugbank_id DB04404
_pdbe_chem_comp_drugbank_classification.parent Oxazolines
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class Azolines
_pdbe_chem_comp_drugbank_classification.superclass 'Organoheterocyclic compounds'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as oxazolines. These are organic compounds containing 1,3-oxazoline, a five-membered ring with a nitrogen and an oxygen atoms at the 1- and 3-position, respectively. Additionally, it contains two double bonds.'
#
loop_
_pdbe_chem_comp_drugbank_targets.comp_id
_pdbe_chem_comp_drugbank_targets.drugbank_id
_pdbe_chem_comp_drugbank_targets.name
_pdbe_chem_comp_drugbank_targets.organism
_pdbe_chem_comp_drugbank_targets.uniprot_id
_pdbe_chem_comp_drugbank_targets.pharmacologically_active
_pdbe_chem_comp_drugbank_targets.ordinal
AMI DB04404 Chitotriosidase-1 Humans Q13231 unknown 1
AMI DB04404 'Chitinase B' 'Serratia marcescens' P11797 unknown 2
AMI DB04404 'Chitinase A' 'Serratia marcescens' P07254 unknown 3
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 '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
AMI C1 C 7.273 0.248 1
AMI C2 C 7.273 -1.252 2
AMI C3 C 5.847 -1.715 3
AMI C4 C 4.965 -0.501 4
AMI C5 C 5.847 0.712 5
AMI C6 C 5.383 2.139 6
AMI C7 C 9.568 -0.501 7
AMI C8 C 11.818 -1.801 8
AMI C9 C 11.818 0.797 9
AMI N2 N 8.693 -1.709 10
AMI N7 N 11.068 -0.501 11
AMI O3 O 5.383 -3.142 12
AMI O4 O 3.465 -0.501 13
AMI O6 O 3.916 2.450 14
AMI O7 O 8.693 0.706 15
#
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
AMI C1 C2 SINGLE NONE 1
AMI C1 C5 SINGLE NONE 2
AMI C1 O7 SINGLE NONE 3
AMI C2 C3 SINGLE NONE 4
AMI C2 N2 SINGLE NONE 5
AMI C3 C4 SINGLE NONE 6
AMI C3 O3 SINGLE BEGINWEDGE 7
AMI C4 C5 SINGLE NONE 8
AMI C4 O4 SINGLE BEGINDASH 9
AMI C5 C6 SINGLE BEGINWEDGE 10
AMI C6 O6 SINGLE NONE 11
AMI C7 N2 DOUBLE NONE 12
AMI C7 N7 SINGLE NONE 13
AMI C7 O7 SINGLE NONE 14
AMI C8 N7 SINGLE NONE 15
AMI C9 N7 SINGLE NONE 16
#
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
AMI MurckoScaffold S1 scaffold 'C1=N[C@@H]2CCC[C@@H]2O1' InChI=1S/C6H9NO/c1-2-5-6(3-1)8-4-7-5/h4-6H,1-3H2/t5-,6+/m1/s1 CNRGPIJQKIDFLX-RITPCOANSA-N
AMI cyclopentane F1 fragment C1CCCC1 InChI=1S/C5H10/c1-2-4-5-3-1/h1-5H2 RGSFGYAAUTVSQA-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
AMI C1 S1 1
AMI C2 S1 1
AMI C3 S1 1
AMI C4 S1 1
AMI C5 S1 1
AMI C7 S1 1
AMI N2 S1 1
AMI O7 S1 1
AMI C1 F1 1
AMI C2 F1 1
AMI C3 F1 1
AMI C4 F1 1
AMI C5 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id AMI
_pdbe_chem_comp_rdkit_properties.exactmw 216.111
_pdbe_chem_comp_rdkit_properties.amw 216.237
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 6
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 6
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 6
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 15
_pdbe_chem_comp_rdkit_properties.NumAtoms 31
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.889
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 2
_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 0
_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 5
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 110.538
_pdbe_chem_comp_rdkit_properties.tpsa 85.520
_pdbe_chem_comp_rdkit_properties.CrippenClogP -1.985
_pdbe_chem_comp_rdkit_properties.CrippenMR 52.372
_pdbe_chem_comp_rdkit_properties.chi0v 7.027
_pdbe_chem_comp_rdkit_properties.chi1v 3.639
_pdbe_chem_comp_rdkit_properties.chi2v 1.785
_pdbe_chem_comp_rdkit_properties.chi3v 1.785
_pdbe_chem_comp_rdkit_properties.chi4v 1.145
_pdbe_chem_comp_rdkit_properties.chi0n 23.027
_pdbe_chem_comp_rdkit_properties.chi1n 11.363
_pdbe_chem_comp_rdkit_properties.chi2n 1.785
_pdbe_chem_comp_rdkit_properties.chi3n 1.785
_pdbe_chem_comp_rdkit_properties.chi4n 1.145
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.850
_pdbe_chem_comp_rdkit_properties.kappa1 2.522
_pdbe_chem_comp_rdkit_properties.kappa2 3.622
_pdbe_chem_comp_rdkit_properties.kappa3 1.488
_pdbe_chem_comp_rdkit_properties.Phi 0.609
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
AMI UniChem DrugBank DB04404
AMI UniChem ZINC ZINC000033821203
AMI UniChem SureChEMBL SCHEMBL2441099
AMI UniChem 'PubChem TPHARMA' 15984703
AMI UniChem NMRShiftDB 80020844
AMI UniChem BindingDb 169467
AMI UniChem 'Probes And Drugs' PD059299
AMI UniChem Nikkaji J495.304E
AMI UniChem 'PubChem TPHARMA' 16878745
AMI UniChem PubChem 5287673
#
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
AMI C1 0.490 0.368 0.964 ETKDGv3 1
AMI C2 0.527 1.345 -0.221 ETKDGv3 2
AMI C3 1.524 0.765 -1.235 ETKDGv3 3
AMI C4 2.383 -0.227 -0.446 ETKDGv3 4
AMI C5 1.441 -0.787 0.623 ETKDGv3 5
AMI C6 2.187 -1.306 1.864 ETKDGv3 6
AMI C7 -1.552 0.546 -0.033 ETKDGv3 7
AMI C8 -3.678 -0.616 0.578 ETKDGv3 8
AMI C9 -3.614 0.994 -1.398 ETKDGv3 9
AMI N2 -0.833 1.342 -0.747 ETKDGv3 10
AMI N7 -2.947 0.312 -0.286 ETKDGv3 11
AMI O3 2.299 1.766 -1.847 ETKDGv3 12
AMI O4 2.857 -1.256 -1.275 ETKDGv3 13
AMI O6 3.035 -2.370 1.525 ETKDGv3 14
AMI O7 -0.860 -0.066 0.995 ETKDGv3 15
AMI H1 0.754 0.887 1.912 ETKDGv3 16
AMI H2 0.807 2.367 0.117 ETKDGv3 17
AMI H3 0.973 0.211 -2.029 ETKDGv3 18
AMI H4 3.235 0.301 0.044 ETKDGv3 19
AMI H5 0.851 -1.624 0.181 ETKDGv3 20
AMI H61 1.453 -1.635 2.635 ETKDGv3 21
AMI H62 2.798 -0.492 2.310 ETKDGv3 22
AMI H81 -4.742 -0.707 0.274 ETKDGv3 23
AMI H82 -3.212 -1.622 0.525 ETKDGv3 24
AMI H83 -3.646 -0.254 1.627 ETKDGv3 25
AMI H91 -4.685 0.712 -1.468 ETKDGv3 26
AMI H92 -3.551 2.093 -1.254 ETKDGv3 27
AMI H93 -3.119 0.723 -2.354 ETKDGv3 28
AMI HO3 2.790 2.253 -1.135 ETKDGv3 29
AMI HO4 3.583 -0.862 -1.825 ETKDGv3 30
AMI HO6 2.453 -3.160 1.376 ETKDGv3 31
#