data_TE5
#
_chem_comp.id TE5
_chem_comp.name 4-methoxy-6-phenyl-pyrimidin-2-amine
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C11 H11 N3 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "4-methoxy-6-phenylpyrimidin-2-ylamine; 4-methoxy-6-phenylpyrimidin-2-amine"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-12-21
_chem_comp.pdbx_modified_date 2022-01-07
_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 201.225
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code TE5
_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 7BD3
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBE
#
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
TE5 C10 C1 C 0 1 Y N N N N N 0.706 -5.541 5.724 1.662 0.055 0.004 C10 TE5 1
TE5 C13 C2 C 0 1 Y N N N N N -1.822 -6.586 5.937 4.409 0.396 -0.004 C13 TE5 2
TE5 C15 C3 C 0 1 Y N N N N N -0.125 -5.614 4.616 2.207 1.337 0.000 C15 TE5 3
TE5 C01 C4 C 0 1 N N N N N N 6.554 -3.780 5.830 -4.292 1.489 -0.002 C01 TE5 4
TE5 C03 C5 C 0 1 Y N N N N N 4.271 -4.231 5.834 -2.034 0.756 0.000 C03 TE5 5
TE5 C04 C6 C 0 1 Y N N N N N 3.056 -4.787 6.389 -0.659 0.977 0.002 C04 TE5 6
TE5 C05 C7 C 0 1 Y N N N N N 1.979 -5.005 5.476 0.190 -0.128 0.002 C05 TE5 7
TE5 C07 C8 C 0 1 Y N N N N N 3.261 -4.188 3.713 -1.652 -1.520 -0.002 C07 TE5 8
TE5 C11 C9 C 0 1 Y N N N N N 0.284 -6.001 6.949 2.504 -1.055 0.004 C11 TE5 9
TE5 C12 C10 C 0 1 Y N N N N N -0.992 -6.516 7.041 3.873 -0.879 0.000 C12 TE5 10
TE5 C14 C11 C 0 1 Y N N N N N -1.386 -6.131 4.705 3.578 1.502 -0.004 C14 TE5 11
TE5 N06 N1 N 0 1 Y N N N N N 2.122 -4.706 4.197 -0.340 -1.351 0.000 N06 TE5 12
TE5 N08 N2 N 0 1 Y N N N N N 4.328 -3.965 4.522 -2.488 -0.492 0.004 N08 TE5 13
TE5 N09 N3 N 0 1 N N N N N N 3.283 -3.925 2.266 -2.165 -2.806 -0.004 N09 TE5 14
TE5 O02 O1 O 0 1 N N N N N N 5.416 -3.957 6.586 -2.897 1.800 -0.000 O02 TE5 15
TE5 H1 H1 H 0 1 N N N N N N -2.815 -6.998 6.037 5.481 0.529 -0.006 H1 TE5 16
TE5 H2 H2 H 0 1 N N N N N N 0.233 -5.254 3.663 1.559 2.201 -0.000 H2 TE5 17
TE5 H3 H3 H 0 1 N N N N N N 7.406 -3.570 6.493 -4.870 2.413 -0.002 H3 TE5 18
TE5 H4 H4 H 0 1 N N N N N N 6.756 -4.694 5.252 -4.533 0.909 -0.893 H4 TE5 19
TE5 H5 H5 H 0 1 N N N N N N 6.408 -2.935 5.141 -4.536 0.908 0.887 H5 TE5 20
TE5 H6 H6 H 0 1 N N N N N N 2.968 -5.025 7.439 -0.261 1.981 0.004 H6 TE5 21
TE5 H7 H7 H 0 1 N N N N N N 0.932 -5.960 7.812 2.087 -2.051 0.008 H7 TE5 22
TE5 H8 H8 H 0 1 N N N N N N -1.351 -6.872 7.995 4.527 -1.739 0.001 H8 TE5 23
TE5 H9 H9 H 0 1 N N N N N N -2.026 -6.183 3.837 4.002 2.495 -0.007 H9 TE5 24
TE5 H10 H10 H 0 1 N N N N N N 2.405 -4.188 1.866 -1.565 -3.568 -0.005 H10 TE5 25
TE5 H11 H11 H 0 1 N N N N N N 3.443 -2.951 2.107 -3.125 -2.945 -0.006 H11 TE5 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
TE5 N09 C07 SING N N 1
TE5 C07 N06 DOUB Y N 2
TE5 C07 N08 SING Y N 3
TE5 N06 C05 SING Y N 4
TE5 N08 C03 DOUB Y N 5
TE5 C15 C14 DOUB Y N 6
TE5 C15 C10 SING Y N 7
TE5 C14 C13 SING Y N 8
TE5 C05 C10 SING N N 9
TE5 C05 C04 DOUB Y N 10
TE5 C10 C11 DOUB Y N 11
TE5 C01 O02 SING N N 12
TE5 C03 C04 SING Y N 13
TE5 C03 O02 SING N N 14
TE5 C13 C12 DOUB Y N 15
TE5 C11 C12 SING Y N 16
TE5 C13 H1 SING N N 17
TE5 C15 H2 SING N N 18
TE5 C01 H3 SING N N 19
TE5 C01 H4 SING N N 20
TE5 C01 H5 SING N N 21
TE5 C04 H6 SING N N 22
TE5 C11 H7 SING N N 23
TE5 C12 H8 SING N N 24
TE5 C14 H9 SING N N 25
TE5 N09 H10 SING N N 26
TE5 N09 H11 SING N N 27
#
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
TE5 InChI InChI 1.03 InChI=1S/C11H11N3O/c1-15-10-7-9(13-11(12)14-10)8-5-3-2-4-6-8/h2-7H,1H3,(H2,12,13,14)
TE5 InChIKey InChI 1.03 NVXGRADJIFIBIO-UHFFFAOYSA-N
TE5 SMILES_CANONICAL CACTVS 3.385 COc1cc(nc(N)n1)c2ccccc2
TE5 SMILES CACTVS 3.385 COc1cc(nc(N)n1)c2ccccc2
TE5 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 COc1cc(nc(n1)N)c2ccccc2
TE5 SMILES "OpenEye OEToolkits" 2.0.7 COc1cc(nc(n1)N)c2ccccc2
#
_pdbx_chem_comp_identifier.comp_id TE5
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier 4-methoxy-6-phenyl-pyrimidin-2-amine
#
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 TE5 4-methoxy-6-phenylpyrimidin-2-ylamine PUBCHEM ?
2 TE5 4-methoxy-6-phenylpyrimidin-2-amine PUBCHEM ?
3 TE5 676910 PUBCHEM ?
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
TE5 'Create component' 2020-12-21 PDBE
TE5 'Initial release' 2022-01-12 RCSB
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
TE5 4-methoxy-6-phenylpyrimidin-2-ylamine wwPDB ?
TE5 4-methoxy-6-phenylpyrimidin-2-amine wwPDB ?
TE5 676910 wwPDB ?
#
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
TE5 C10 C 5.598 -1.500 1
TE5 C13 C 3.000 -3.000 2
TE5 C15 C 4.299 -0.750 3
TE5 C01 C 9.495 3.750 4
TE5 C03 C 8.196 1.500 5
TE5 C04 C 6.897 0.750 6
TE5 C05 C 6.897 -0.750 7
TE5 C07 C 9.495 -0.750 8
TE5 C11 C 5.598 -3.000 9
TE5 C12 C 4.299 -3.750 10
TE5 C14 C 3.000 -1.500 11
TE5 N06 N 8.196 -1.500 12
TE5 N08 N 9.495 0.750 13
TE5 N09 N 10.794 -1.500 14
TE5 O02 O 8.196 3.000 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
TE5 N09 C07 SINGLE NONE 1
TE5 C07 N06 DOUBLE NONE 2
TE5 C07 N08 SINGLE NONE 3
TE5 N06 C05 SINGLE NONE 4
TE5 N08 C03 DOUBLE NONE 5
TE5 C15 C14 SINGLE NONE 6
TE5 C15 C10 DOUBLE NONE 7
TE5 C14 C13 DOUBLE NONE 8
TE5 C05 C10 SINGLE NONE 9
TE5 C05 C04 DOUBLE NONE 10
TE5 C10 C11 SINGLE NONE 11
TE5 C01 O02 SINGLE NONE 12
TE5 C03 C04 SINGLE NONE 13
TE5 C03 O02 SINGLE NONE 14
TE5 C13 C12 SINGLE NONE 15
TE5 C11 C12 DOUBLE 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
TE5 MurckoScaffold S1 scaffold c1ccc(-c2ccncn2)cc1 InChI=1S/C10H8N2/c1-2-4-9(5-3-1)10-6-7-11-8-12-10/h1-8H MKLQPIYLZMLAER-UHFFFAOYSA-N
TE5 phenyl F1 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
TE5 pyrimidine F2 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
TE5 C10 S1 1
TE5 C13 S1 1
TE5 C15 S1 1
TE5 C03 S1 1
TE5 C04 S1 1
TE5 C05 S1 1
TE5 C07 S1 1
TE5 C11 S1 1
TE5 C12 S1 1
TE5 C14 S1 1
TE5 N06 S1 1
TE5 N08 S1 1
TE5 C10 F1 1
TE5 C15 F1 1
TE5 C14 F1 1
TE5 C13 F1 1
TE5 C12 F1 1
TE5 C11 F1 1
TE5 C04 F2 1
TE5 C05 F2 1
TE5 N06 F2 1
TE5 C07 F2 1
TE5 N08 F2 1
TE5 C03 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id TE5
_pdbe_chem_comp_rdkit_properties.exactmw 201.090
_pdbe_chem_comp_rdkit_properties.amw 201.229
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_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 15
_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 0.091
_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 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_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 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 103.317
_pdbe_chem_comp_rdkit_properties.tpsa 61.030
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.511
_pdbe_chem_comp_rdkit_properties.CrippenMR 55.676
_pdbe_chem_comp_rdkit_properties.chi0v 7.250
_pdbe_chem_comp_rdkit_properties.chi1v 3.776
_pdbe_chem_comp_rdkit_properties.chi2v 1.472
_pdbe_chem_comp_rdkit_properties.chi3v 1.472
_pdbe_chem_comp_rdkit_properties.chi4v 0.908
_pdbe_chem_comp_rdkit_properties.chi0n 18.250
_pdbe_chem_comp_rdkit_properties.chi1n 9.171
_pdbe_chem_comp_rdkit_properties.chi2n 1.472
_pdbe_chem_comp_rdkit_properties.chi3n 1.472
_pdbe_chem_comp_rdkit_properties.chi4n 0.908
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.100
_pdbe_chem_comp_rdkit_properties.kappa1 2.946
_pdbe_chem_comp_rdkit_properties.kappa2 3.958
_pdbe_chem_comp_rdkit_properties.kappa3 2.042
_pdbe_chem_comp_rdkit_properties.Phi 0.777
#
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
TE5 UniChem ChEMBL CHEMBL1415245
TE5 UniChem PDBe TE5
TE5 UniChem ZINC ZINC000000040343
TE5 UniChem eMolecules 1232207
TE5 UniChem PubChem 676910
TE5 UniChem Mcule MCULE-2541074940
#
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
TE5 C10 -1.589 0.291 -0.330 ETKDGv3 1
TE5 C13 -4.275 0.691 -1.145 ETKDGv3 2
TE5 C15 -2.334 1.274 0.215 ETKDGv3 3
TE5 C01 4.441 -1.374 -0.630 ETKDGv3 4
TE5 C03 2.121 -0.614 -0.199 ETKDGv3 5
TE5 C04 0.744 -0.448 -0.699 ETKDGv3 6
TE5 C05 -0.184 0.090 0.112 ETKDGv3 7
TE5 C07 1.423 0.349 1.867 ETKDGv3 8
TE5 C11 -2.212 -0.596 -1.353 ETKDGv3 9
TE5 C12 -3.480 -0.402 -1.737 ETKDGv3 10
TE5 C14 -3.732 1.484 -0.216 ETKDGv3 11
TE5 N06 0.204 0.499 1.438 ETKDGv3 12
TE5 N08 2.418 -0.234 1.011 ETKDGv3 13
TE5 N09 1.773 0.763 3.186 ETKDGv3 14
TE5 O02 3.090 -1.178 -1.034 ETKDGv3 15
TE5 H1 -5.299 0.845 -1.461 ETKDGv3 16
TE5 H2 -1.920 1.939 0.962 ETKDGv3 17
TE5 H3 4.906 -0.398 -0.374 ETKDGv3 18
TE5 H4 5.008 -1.834 -1.465 ETKDGv3 19
TE5 H5 4.481 -2.051 0.249 ETKDGv3 20
TE5 H6 0.516 -0.737 -1.716 ETKDGv3 21
TE5 H7 -1.661 -1.423 -1.779 ETKDGv3 22
TE5 H8 -3.930 -1.053 -2.475 ETKDGv3 23
TE5 H9 -4.314 2.284 0.223 ETKDGv3 24
TE5 H10 1.057 1.188 3.816 ETKDGv3 25
TE5 H11 2.750 0.644 3.532 ETKDGv3 26
#