data_MO8
#
_chem_comp.id MO8
_chem_comp.name 4-methyl-7,8-dihydro-5H-thiopyrano[4,3-d]pyrimidin-2-amine
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C8 H11 N3 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2009-01-13
_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 181.258
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code MO8
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 3FT5
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
#
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
MO8 N11 N11 N 0 1 N N N N N N 29.069 11.469 23.736 3.578 -1.160 -0.111 N11 MO8 1
MO8 C9 C9 C 0 1 Y N N N N N 30.137 10.879 24.318 2.323 -0.579 -0.050 C9 MO8 2
MO8 N8 N8 N 0 1 Y N N N N N 29.922 10.188 25.446 2.219 0.742 -0.013 N8 MO8 3
MO8 C7 C7 C 0 1 Y N N N N N 30.893 9.542 26.113 1.031 1.307 0.054 C7 MO8 4
MO8 C12 C12 C 0 1 N N N N N N 30.572 8.768 27.370 0.916 2.809 0.103 C12 MO8 5
MO8 C2 C2 C 0 1 Y N N N N N 32.257 9.640 25.574 -0.123 0.519 0.078 C2 MO8 6
MO8 N10 N10 N 0 1 Y N N N N N 31.364 10.991 23.748 1.254 -1.349 -0.036 N10 MO8 7
MO8 C3 C3 C 0 1 Y N N N N N 32.445 10.413 24.342 0.015 -0.843 0.023 C3 MO8 8
MO8 C4 C4 C 0 1 N N N N N N 33.815 10.585 23.726 -1.089 -1.858 -0.017 C4 MO8 9
MO8 C5 C5 C 0 1 N N N N N N 34.567 9.284 23.528 -2.410 -1.335 0.531 C5 MO8 10
MO8 S6 S6 S 0 1 N N N N N N 34.201 8.165 24.826 -2.801 0.214 -0.340 S6 MO8 11
MO8 C1 C1 C 0 1 N N N N N N 33.429 8.957 26.213 -1.426 1.268 0.178 C1 MO8 12
MO8 HN11 HN11 H 0 0 N N N N N N 28.354 11.615 24.420 4.371 -0.602 -0.125 HN11 MO8 13
MO8 HN1A HN1A H 0 0 N N N N N N 29.344 12.349 23.349 3.665 -2.126 -0.134 HN1A MO8 14
MO8 H12 H12 H 0 1 N N N N N N 30.494 7.697 27.132 0.845 3.202 -0.911 H12 MO8 15
MO8 H12A H12A H 0 0 N N N N N N 31.372 8.922 28.109 0.023 3.087 0.663 H12A MO8 16
MO8 H12B H12B H 0 0 N N N N N N 29.616 9.122 27.784 1.796 3.225 0.593 H12B MO8 17
MO8 H4 H4 H 0 1 N N N N N N 33.688 11.058 22.741 -1.239 -2.172 -1.050 H4 MO8 18
MO8 H4A H4A H 0 1 N N N N N N 34.407 11.196 24.423 -0.788 -2.725 0.571 H4A MO8 19
MO8 H5 H5 H 0 1 N N N N N N 34.267 8.836 22.569 -3.198 -2.067 0.354 H5 MO8 20
MO8 H5A H5A H 0 1 N N N N N N 35.647 9.491 23.528 -2.316 -1.144 1.600 H5A MO8 21
MO8 H1 H1 H 0 1 N N N N N N 34.103 9.672 26.707 -1.585 1.579 1.211 H1 MO8 22
MO8 H1A H1A H 0 1 N N N N N N 33.147 8.260 27.016 -1.383 2.152 -0.460 H1A MO8 23
#
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
MO8 N11 C9 SING N N 1
MO8 N11 HN11 SING N N 2
MO8 N11 HN1A SING N N 3
MO8 N10 C9 DOUB Y N 4
MO8 C9 N8 SING Y N 5
MO8 N8 C7 DOUB Y N 6
MO8 C2 C7 SING Y N 7
MO8 C7 C12 SING N N 8
MO8 C12 H12 SING N N 9
MO8 C12 H12A SING N N 10
MO8 C12 H12B SING N N 11
MO8 C3 C2 DOUB Y N 12
MO8 C2 C1 SING N N 13
MO8 N10 C3 SING Y N 14
MO8 C4 C3 SING N N 15
MO8 C5 C4 SING N N 16
MO8 C4 H4 SING N N 17
MO8 C4 H4A SING N N 18
MO8 C5 S6 SING N N 19
MO8 C5 H5 SING N N 20
MO8 C5 H5A SING N N 21
MO8 S6 C1 SING N N 22
MO8 C1 H1 SING N N 23
MO8 C1 H1A SING N N 24
#
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
MO8 SMILES ACDLabs 10.04 n1c(c2c(nc1N)CCSC2)C
MO8 SMILES_CANONICAL CACTVS 3.341 Cc1nc(N)nc2CCSCc12
MO8 SMILES CACTVS 3.341 Cc1nc(N)nc2CCSCc12
MO8 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 Cc1c2c(nc(n1)N)CCSC2
MO8 SMILES "OpenEye OEToolkits" 1.5.0 Cc1c2c(nc(n1)N)CCSC2
MO8 InChI InChI 1.03 InChI=1S/C8H11N3S/c1-5-6-4-12-3-2-7(6)11-8(9)10-5/h2-4H2,1H3,(H2,9,10,11)
MO8 InChIKey InChI 1.03 ONZWAEXRMZGFAN-UHFFFAOYSA-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
MO8 "SYSTEMATIC NAME" ACDLabs 10.04 4-methyl-7,8-dihydro-5H-thiopyrano[4,3-d]pyrimidin-2-amine
MO8 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 4-methyl-7,8-dihydro-5H-thiopyrano[3,4-e]pyrimidin-2-amine
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
MO8 'Create component' 2009-01-13 RCSB
MO8 'Modify aromatic_flag' 2011-06-04 RCSB
MO8 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id MO8
_pdbe_chem_comp_drugbank_details.drugbank_id DB08194
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name '4-methyl-7,8-dihydro-5H-thiopyrano[4,3-d]pyrimidin-2-amine'
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_drugbank_classification.comp_id MO8
_pdbe_chem_comp_drugbank_classification.drugbank_id DB08194
_pdbe_chem_comp_drugbank_classification.parent Pyranopyridines
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class Pyranopyridines
_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 pyranopyridines. These are polycyclic aromatic compounds containing a pyran ring fused to a pyridine ring.'
#
_pdbe_chem_comp_drugbank_targets.comp_id MO8
_pdbe_chem_comp_drugbank_targets.drugbank_id DB08194
_pdbe_chem_comp_drugbank_targets.name 'Heat shock protein HSP 90-alpha'
_pdbe_chem_comp_drugbank_targets.organism Humans
_pdbe_chem_comp_drugbank_targets.uniprot_id P07900
_pdbe_chem_comp_drugbank_targets.pharmacologically_active unknown
_pdbe_chem_comp_drugbank_targets.ordinal 1
#
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
MO8 N11 N 9.597 1.785 1
MO8 C9 C 8.298 1.035 2
MO8 N8 N 8.298 -0.465 3
MO8 C7 C 6.999 -1.215 4
MO8 C12 C 6.999 -2.715 5
MO8 C2 C 5.700 -0.465 6
MO8 N10 N 6.999 1.785 7
MO8 C3 C 5.700 1.035 8
MO8 C4 C 4.359 1.837 9
MO8 C5 C 3.000 1.066 10
MO8 S6 S 3.000 -0.496 11
MO8 C1 C 4.359 -1.267 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
MO8 N11 C9 SINGLE NONE 1
MO8 N10 C9 DOUBLE NONE 2
MO8 C9 N8 SINGLE NONE 3
MO8 N8 C7 DOUBLE NONE 4
MO8 C2 C7 SINGLE NONE 5
MO8 C7 C12 SINGLE NONE 6
MO8 C3 C2 DOUBLE NONE 7
MO8 C2 C1 SINGLE NONE 8
MO8 N10 C3 SINGLE NONE 9
MO8 C4 C3 SINGLE NONE 10
MO8 C5 C4 SINGLE NONE 11
MO8 C5 S6 SINGLE NONE 12
MO8 S6 C1 SINGLE NONE 13
#
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
MO8 MurckoScaffold S1 scaffold c1ncc2c(n1)CCSC2 InChI=1S/C7H8N2S/c1-2-10-4-6-3-8-5-9-7(1)6/h3,5H,1-2,4H2 GOEUAUKEXPFBAV-UHFFFAOYSA-N
MO8 pyrimidine F1 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
MO8 C9 S1 1
MO8 N8 S1 1
MO8 C7 S1 1
MO8 C2 S1 1
MO8 N10 S1 1
MO8 C3 S1 1
MO8 C4 S1 1
MO8 C5 S1 1
MO8 S6 S1 1
MO8 C1 S1 1
MO8 C2 F1 1
MO8 C7 F1 1
MO8 N8 F1 1
MO8 C9 F1 1
MO8 N10 F1 1
MO8 C3 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id MO8
_pdbe_chem_comp_rdkit_properties.exactmw 181.067
_pdbe_chem_comp_rdkit_properties.amw 181.264
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 2
_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 23
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.500
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_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 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 91.358
_pdbe_chem_comp_rdkit_properties.tpsa 51.800
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.612
_pdbe_chem_comp_rdkit_properties.CrippenMR 49.425
_pdbe_chem_comp_rdkit_properties.chi0v 6.566
_pdbe_chem_comp_rdkit_properties.chi1v 3.843
_pdbe_chem_comp_rdkit_properties.chi2v 1.781
_pdbe_chem_comp_rdkit_properties.chi3v 1.781
_pdbe_chem_comp_rdkit_properties.chi4v 1.281
_pdbe_chem_comp_rdkit_properties.chi0n 16.750
_pdbe_chem_comp_rdkit_properties.chi1n 8.421
_pdbe_chem_comp_rdkit_properties.chi2n 1.271
_pdbe_chem_comp_rdkit_properties.chi3n 1.271
_pdbe_chem_comp_rdkit_properties.chi4n 0.786
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.770
_pdbe_chem_comp_rdkit_properties.kappa1 2.178
_pdbe_chem_comp_rdkit_properties.kappa2 2.936
_pdbe_chem_comp_rdkit_properties.kappa3 1.265
_pdbe_chem_comp_rdkit_properties.Phi 0.533
#
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
MO8 UniChem DrugBank DB08194
MO8 UniChem PDBe MO8
MO8 UniChem ZINC ZINC000000077255
MO8 UniChem fdasrs AN8UFC8Y2Y
MO8 UniChem 'Probes And Drugs' PD004656
MO8 UniChem 'EPA CompTox Dashboard' DTXSID00369422
MO8 UniChem PubChem 2726820
#
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
MO8 N11 -2.287 2.924 -0.199 ETKDGv3 1
MO8 C9 -1.503 1.735 -0.149 ETKDGv3 2
MO8 N8 -2.094 0.503 0.289 ETKDGv3 3
MO8 C7 -1.405 -0.600 0.348 ETKDGv3 4
MO8 C12 -2.086 -1.853 0.811 ETKDGv3 5
MO8 C2 0.035 -0.585 -0.040 ETKDGv3 6
MO8 N10 -0.252 1.764 -0.503 ETKDGv3 7
MO8 C3 0.561 0.580 -0.461 ETKDGv3 8
MO8 C4 1.998 0.654 -0.882 ETKDGv3 9
MO8 C5 2.902 0.136 0.237 ETKDGv3 10
MO8 S6 2.489 -1.563 0.816 ETKDGv3 11
MO8 C1 0.892 -1.827 -0.047 ETKDGv3 12
MO8 HN11 -3.292 2.902 0.083 ETKDGv3 13
MO8 HN1A -1.867 3.825 -0.518 ETKDGv3 14
MO8 H12 -3.161 -1.664 1.018 ETKDGv3 15
MO8 H12A -1.609 -2.216 1.746 ETKDGv3 16
MO8 H12B -2.013 -2.633 0.026 ETKDGv3 17
MO8 H4 2.271 1.707 -1.112 ETKDGv3 18
MO8 H4A 2.152 0.053 -1.804 ETKDGv3 19
MO8 H5 2.836 0.823 1.107 ETKDGv3 20
MO8 H5A 3.954 0.139 -0.116 ETKDGv3 21
MO8 H1 1.093 -2.126 -1.097 ETKDGv3 22
MO8 H1A 0.387 -2.678 0.449 ETKDGv3 23
#