data_APS
#
_chem_comp.id APS
_chem_comp.name "9-HYDROXYPROPYLADENINE, S-ISOMER"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C8 H11 N5 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2000-05-24
_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 193.206
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code APS
_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 1E2I
_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
APS C7 C7 C 0 1 N N N N N N 19.674 20.420 9.523 0.420 -0.825 2.145 C7 APS 1
APS C8 C8 C 0 1 N N S N N N 18.294 20.973 10.028 0.085 0.437 2.942 C8 APS 2
APS O1 O1 O 0 1 N N N N N N 17.697 21.966 9.034 -1.033 1.094 2.344 O1 APS 3
APS C9 C9 C 0 1 N N N N N N 17.455 19.840 10.112 -0.257 0.055 4.383 C9 APS 4
APS C4 C4 C 0 1 Y N N N N N 20.660 22.796 9.864 -0.132 -0.367 -0.281 C4 APS 5
APS C3 C3 C 0 1 Y N N N N N 21.973 23.247 10.066 0.631 0.012 -1.398 C3 APS 6
APS C2 C2 C 0 1 Y N N N N N 22.229 24.642 10.225 -0.029 0.186 -2.625 C2 APS 7
APS N2 N2 N 0 1 Y N N N N N 21.178 25.494 10.174 -1.343 -0.010 -2.671 N2 APS 8
APS C1 C1 C 0 1 Y N N N N N 19.923 24.969 9.971 -2.020 -0.362 -1.593 C1 APS 9
APS N5 N5 N 0 1 N N N N N N 23.541 25.005 10.420 0.670 0.554 -3.761 N5 APS 10
APS N4 N4 N 0 1 Y N N N N N 20.758 21.402 9.748 0.748 -0.459 0.765 N4 APS 11
APS N3 N3 N 0 1 Y N N N N N 22.872 22.165 10.077 1.916 0.121 -0.984 N3 APS 12
APS C6 C6 C 0 1 Y N N N N N 22.132 21.049 9.883 1.987 -0.155 0.285 C6 APS 13
APS N1 N1 N 0 1 Y N N N N N 19.597 23.669 9.812 -1.443 -0.536 -0.422 N1 APS 14
APS H72 2H7 H 0 1 N N N N N N 19.913 19.432 9.982 1.273 -1.327 2.602 H72 APS 15
APS H71 1H7 H 0 1 N N N N N N 19.622 20.103 8.455 -0.439 -1.495 2.149 H71 APS 16
APS H8 H8 H 0 1 N N N N N N 18.406 21.508 10.999 0.945 1.107 2.938 H8 APS 17
APS H1 H1 H 0 1 N N N N N N 16.862 22.300 9.339 -1.770 0.469 2.367 H1 APS 18
APS H93 3H9 H 0 1 N N N N N N 16.475 20.232 10.470 -0.496 0.955 4.950 H93 APS 19
APS H92 2H9 H 0 1 N N N N N N 17.388 19.256 9.164 -1.117 -0.614 4.386 H92 APS 20
APS H91 1H9 H 0 1 N N N N N N 17.869 19.017 10.740 0.595 -0.446 4.839 H91 APS 21
APS H1C1 1H1C H 0 0 N N N N N N 19.076 25.675 9.930 -3.086 -0.512 -1.674 H1C1 APS 22
APS H52 2H5 H 0 1 N N N N N N 23.724 26.002 10.533 0.202 0.671 -4.602 H52 APS 23
APS H51 1H5 H 0 1 N N N N N N 24.116 24.634 9.663 1.629 0.695 -3.715 H51 APS 24
APS H6 H6 H 0 1 N N N N N N 22.568 20.037 9.842 2.894 -0.144 0.872 H6 APS 25
#
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
APS C7 C8 SING N N 1
APS C7 N4 SING N N 2
APS C7 H72 SING N N 3
APS C7 H71 SING N N 4
APS C8 O1 SING N N 5
APS C8 C9 SING N N 6
APS C8 H8 SING N N 7
APS O1 H1 SING N N 8
APS C9 H93 SING N N 9
APS C9 H92 SING N N 10
APS C9 H91 SING N N 11
APS C4 C3 DOUB Y N 12
APS C4 N4 SING Y N 13
APS C4 N1 SING Y N 14
APS C3 C2 SING Y N 15
APS C3 N3 SING Y N 16
APS C2 N2 DOUB Y N 17
APS C2 N5 SING N N 18
APS N2 C1 SING Y N 19
APS C1 N1 DOUB Y N 20
APS C1 H1C1 SING N N 21
APS N5 H52 SING N N 22
APS N5 H51 SING N N 23
APS N4 C6 SING Y N 24
APS N3 C6 DOUB Y N 25
APS C6 H6 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
APS SMILES ACDLabs 10.04 n1c(c2ncn(c2nc1)CC(O)C)N
APS SMILES_CANONICAL CACTVS 3.341 C[C@H](O)Cn1cnc2c(N)ncnc12
APS SMILES CACTVS 3.341 C[CH](O)Cn1cnc2c(N)ncnc12
APS SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 C[C@@H](Cn1cnc2c1ncnc2N)O
APS SMILES "OpenEye OEToolkits" 1.5.0 CC(Cn1cnc2c1ncnc2N)O
APS InChI InChI 1.03 InChI=1S/C8H11N5O/c1-5(14)2-13-4-12-6-7(9)10-3-11-8(6)13/h3-5,14H,2H2,1H3,(H2,9,10,11)/t5-/m0/s1
APS InChIKey InChI 1.03 MJZYTEBKXLVLMY-YFKPBYRVSA-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
APS "SYSTEMATIC NAME" ACDLabs 10.04 (2S)-1-(6-amino-9H-purin-9-yl)propan-2-ol
APS "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 (2S)-1-(6-aminopurin-9-yl)propan-2-ol
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
APS 'Create component' 2000-05-24 EBI
APS 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id APS
_pdbe_chem_comp_drugbank_details.drugbank_id DB03000
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name S-9-(2-hydroxypropyl)adenine
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number 14047-27-9
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id APS
_pdbe_chem_comp_synonyms.name '9-Hydroxypropyladenine, S-Isomer'
_pdbe_chem_comp_synonyms.provenance DrugBank
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id APS
_pdbe_chem_comp_drugbank_classification.drugbank_id DB03000
_pdbe_chem_comp_drugbank_classification.parent 6-aminopurines
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class Imidazopyrimidines
_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 6-aminopurines. These are purines that carry an amino group at position 6. Purine is a bicyclic aromatic compound made up of a pyrimidine ring fused to an imidazole ring.'
#
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
APS DB03000 'Thymidine kinase' 'Human herpesvirus 1 (strain KOS)' P17402 unknown 1
APS DB03000 'Adenosine deaminase' Humans P00813 unknown 2
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.03.3 'Core functionality.'
pdbeccdutils 0.8.4 '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
APS C7 C 7.483 -2.086 1
APS C8 C 8.951 -2.395 2
APS O1 O 9.417 -3.821 3
APS C9 C 9.953 -1.278 4
APS C4 C 5.598 -0.203 5
APS C3 C 5.598 1.297 6
APS C2 C 4.299 2.047 7
APS N2 N 3.000 1.297 8
APS C1 C 3.000 -0.203 9
APS N5 N 4.299 3.547 10
APS N4 N 7.018 -0.660 11
APS N3 N 7.018 1.755 12
APS C6 C 7.893 0.547 13
APS N1 N 4.299 -0.953 14
#
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
APS C7 C8 SINGLE NONE 1
APS C7 N4 SINGLE NONE 2
APS C8 O1 SINGLE NONE 3
APS C8 C9 SINGLE BEGINDASH 4
APS C4 C3 SINGLE NONE 5
APS C4 N4 SINGLE NONE 6
APS C4 N1 DOUBLE NONE 7
APS C3 C2 DOUBLE NONE 8
APS C3 N3 SINGLE NONE 9
APS C2 N2 SINGLE NONE 10
APS C2 N5 SINGLE NONE 11
APS N2 C1 DOUBLE NONE 12
APS C1 N1 SINGLE NONE 13
APS N4 C6 SINGLE NONE 14
APS N3 C6 DOUBLE NONE 15
#
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
APS MurckoScaffold S1 scaffold 'c1ncc2nc[nH]c2n1' InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9) KDCGOANMDULRCW-UHFFFAOYSA-N
APS adenine F1 fragment 'Nc1ncnc2nc[nH]c12' InChI=1S/C5H5N5/c6-4-3-5(9-1-7-3)10-2-8-4/h1-2H,(H3,6,7,8,9,10) GFFGJBXGBJISGV-UHFFFAOYSA-N
APS imidazole F2 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
APS purine F3 fragment 'c1ncc2[nH]cnc2n1' InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9) KDCGOANMDULRCW-UHFFFAOYSA-N
APS pyrimidine F4 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-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
APS C4 S1 1
APS C3 S1 1
APS C2 S1 1
APS N2 S1 1
APS C1 S1 1
APS N4 S1 1
APS N3 S1 1
APS C6 S1 1
APS N1 S1 1
APS N2 F1 1
APS C2 F1 1
APS C3 F1 1
APS C4 F1 1
APS N1 F1 1
APS C1 F1 1
APS N4 F1 1
APS C6 F1 1
APS N3 F1 1
APS N5 F1 1
APS C4 F2 1
APS C3 F2 1
APS N3 F2 1
APS C6 F2 1
APS N4 F2 1
APS N3 F3 1
APS C6 F3 1
APS N4 F3 1
APS C4 F3 1
APS C3 F3 1
APS C2 F3 1
APS N2 F3 1
APS C1 F3 1
APS N1 F3 1
APS C3 F4 1
APS C4 F4 1
APS N1 F4 1
APS C1 F4 1
APS N2 F4 1
APS C2 F4 1
#
_pdbe_chem_comp_rdkit_properties.comp_id APS
_pdbe_chem_comp_rdkit_properties.exactmw 193.096
_pdbe_chem_comp_rdkit_properties.amw 193.210
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 6
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 6
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 14
_pdbe_chem_comp_rdkit_properties.NumAtoms 25
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.375
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 96.078
_pdbe_chem_comp_rdkit_properties.tpsa 89.850
_pdbe_chem_comp_rdkit_properties.CrippenClogP -1.020
_pdbe_chem_comp_rdkit_properties.CrippenMR 48.386
_pdbe_chem_comp_rdkit_properties.chi0v 6.644
_pdbe_chem_comp_rdkit_properties.chi1v 3.440
_pdbe_chem_comp_rdkit_properties.chi2v 1.422
_pdbe_chem_comp_rdkit_properties.chi3v 1.422
_pdbe_chem_comp_rdkit_properties.chi4v 0.908
_pdbe_chem_comp_rdkit_properties.chi0n 17.644
_pdbe_chem_comp_rdkit_properties.chi1n 8.743
_pdbe_chem_comp_rdkit_properties.chi2n 1.422
_pdbe_chem_comp_rdkit_properties.chi3n 1.422
_pdbe_chem_comp_rdkit_properties.chi4n 0.908
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.690
_pdbe_chem_comp_rdkit_properties.kappa1 2.664
_pdbe_chem_comp_rdkit_properties.kappa2 3.224
_pdbe_chem_comp_rdkit_properties.kappa3 1.395
_pdbe_chem_comp_rdkit_properties.Phi 0.614
#
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
APS UniChem DrugBank DB03000
APS UniChem PDBe APS
APS UniChem ZINC ZINC000002046907
APS UniChem 'EPA CompTox Dashboard' DTXSID60332177
APS UniChem ChemicalBook CB22645595
APS UniChem 'Probes And Drugs' PD059702
APS UniChem Nikkaji J2.884.818H
APS UniChem SureChEMBL SCHEMBL5810639
APS UniChem 'PubChem TPHARMA' 16251308
APS UniChem PubChem 445210
#
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
APS C7 -1.527 -0.919 0.062 ETKDGv3 1
APS C8 -2.186 0.469 0.156 ETKDGv3 2
APS O1 -2.177 1.119 -1.091 ETKDGv3 3
APS C9 -3.618 0.365 0.692 ETKDGv3 4
APS C4 0.957 -0.334 0.377 ETKDGv3 5
APS C3 1.983 0.046 -0.522 ETKDGv3 6
APS C2 3.090 0.635 -0.070 ETKDGv3 7
APS N2 3.201 0.829 1.359 ETKDGv3 8
APS C1 2.233 0.475 2.173 ETKDGv3 9
APS N5 4.118 1.087 -0.951 ETKDGv3 10
APS N4 -0.139 -0.806 -0.378 ETKDGv3 11
APS N3 1.532 -0.162 -1.855 ETKDGv3 12
APS C6 0.320 -0.640 -1.736 ETKDGv3 13
APS N1 1.019 -0.120 1.655 ETKDGv3 14
APS H72 -2.087 -1.564 -0.650 ETKDGv3 15
APS H71 -1.550 -1.412 1.057 ETKDGv3 16
APS H8 -1.602 1.088 0.871 ETKDGv3 17
APS H1 -2.695 0.558 -1.726 ETKDGv3 18
APS H93 -3.614 -0.078 1.710 ETKDGv3 19
APS H92 -4.240 -0.269 0.024 ETKDGv3 20
APS H91 -4.072 1.377 0.750 ETKDGv3 21
APS H1C1 2.339 0.638 3.236 ETKDGv3 22
APS H52 4.967 1.555 -0.563 ETKDGv3 23
APS H51 4.043 0.957 -1.984 ETKDGv3 24
APS H6 -0.294 -0.871 -2.596 ETKDGv3 25
#