data_P3J
#
_chem_comp.id P3J
_chem_comp.name 3-(PYRIDIN-3-YL)-1H-PYRAZOL-5-AMINE
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C8 H8 N4"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2012-10-05
_chem_comp.pdbx_modified_date 2014-09-05
_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 160.176
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code P3J
_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 4BDG
_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
P3J C0 C0 C 0 1 Y N N N N N -36.403 35.095 7.175 2.748 0.262 0.012 C0 P3J 1
P3J C1 C1 C 0 1 Y N N N N N -37.016 33.973 7.760 1.508 0.819 0.039 C1 P3J 2
P3J N1 N1 N 0 1 N N N N N N -35.733 36.043 7.818 3.958 0.950 0.045 N1 P3J 3
P3J N2 N2 N 0 1 Y N N N N N -36.619 35.064 5.816 2.594 -1.087 -0.046 N2 P3J 4
P3J C3 C3 C 0 1 Y N N N N N -38.441 31.216 7.938 -1.487 1.198 -0.049 C3 P3J 5
P3J C4 C4 C 0 1 Y N N N N N -38.354 31.979 6.781 -0.909 -0.069 -0.004 C4 P3J 6
P3J C5 C5 C 0 1 Y N N N N N -37.611 33.253 6.748 0.567 -0.226 -0.011 C5 P3J 7
P3J N6 N6 N 0 1 Y N N N N N -39.113 30.058 8.020 -2.796 1.339 -0.042 N6 P3J 8
P3J C7 C7 C 0 1 Y N N N N N -39.731 29.624 6.916 -3.608 0.300 0.007 C7 P3J 9
P3J C8 C8 C 0 1 Y N N N N N -39.706 30.306 5.713 -3.112 -0.990 0.054 C8 P3J 10
P3J C9 C9 C 0 1 Y N N N N N -39.004 31.497 5.650 -1.742 -1.189 0.049 C9 P3J 11
P3J N N N 0 1 Y N N N N N -37.358 33.935 5.610 1.222 -1.366 -0.056 N P3J 12
P3J H1 H1 H 0 1 N N N N N N -37.020 33.722 8.810 1.286 1.875 0.090 H1 P3J 13
P3J H11N H11N H 0 0 N N N N N N -35.403 36.722 7.162 3.965 1.919 0.091 H11N P3J 14
P3J H12N H12N H 0 0 N N N N N N -36.336 36.486 8.481 4.795 0.460 0.021 H12N P3J 15
P3J H2 H2 H 0 1 N N N N N N -36.305 35.722 5.132 3.309 -1.741 -0.076 H2 P3J 16
P3J H3 H3 H 0 1 N N N N N N -37.938 31.576 8.823 -0.855 2.073 -0.085 H3 P3J 17
P3J H9 H9 H 0 1 N N N N N N -38.961 32.051 4.724 -1.327 -2.186 0.084 H9 P3J 18
P3J H7 H7 H 0 1 N N N N N N -40.277 28.694 6.967 -4.676 0.459 0.010 H7 P3J 19
P3J H8 H8 H 0 1 N N N N N N -40.221 29.919 4.846 -3.786 -1.833 0.094 H8 P3J 20
#
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
P3J C0 C1 DOUB Y N 1
P3J C0 N1 SING N N 2
P3J C0 N2 SING Y N 3
P3J C1 C5 SING Y N 4
P3J N2 N SING Y N 5
P3J C3 C4 SING Y N 6
P3J C3 N6 DOUB Y N 7
P3J C4 C5 SING N N 8
P3J C4 C9 DOUB Y N 9
P3J C5 N DOUB Y N 10
P3J N6 C7 SING Y N 11
P3J C7 C8 DOUB Y N 12
P3J C8 C9 SING Y N 13
P3J C1 H1 SING N N 14
P3J N1 H11N SING N N 15
P3J N1 H12N SING N N 16
P3J N2 H2 SING N N 17
P3J C3 H3 SING N N 18
P3J C9 H9 SING N N 19
P3J C7 H7 SING N N 20
P3J C8 H8 SING N N 21
#
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
P3J SMILES ACDLabs 12.01 n1cccc(c1)c2nnc(c2)N
P3J InChI InChI 1.03 InChI=1S/C8H8N4/c9-8-4-7(11-12-8)6-2-1-3-10-5-6/h1-5H,(H3,9,11,12)
P3J InChIKey InChI 1.03 USKHSGIEOVXVFW-UHFFFAOYSA-N
P3J SMILES_CANONICAL CACTVS 3.385 Nc1[nH]nc(c1)c2cccnc2
P3J SMILES CACTVS 3.385 Nc1[nH]nc(c1)c2cccnc2
P3J SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 c1cc(cnc1)c2cc([nH]n2)N
P3J SMILES "OpenEye OEToolkits" 1.9.2 c1cc(cnc1)c2cc([nH]n2)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
P3J "SYSTEMATIC NAME" ACDLabs 12.01 3-(pyridin-3-yl)-1H-pyrazol-5-amine
P3J "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 3-pyridin-3-yl-1H-pyrazol-5-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
P3J 'Create component' 2012-10-05 EBI
P3J 'Initial release' 2013-06-26 RCSB
P3J 'Modify descriptor' 2014-09-05 RCSB
#
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
P3J C0 C 5.848 2.373 1
P3J C1 C 6.312 0.946 2
P3J N1 N 6.730 3.586 3
P3J N2 N 4.348 2.373 4
P3J C3 C 3.799 -2.186 5
P3J C4 C 5.098 -1.436 6
P3J C5 C 5.098 0.064 7
P3J N6 N 3.799 -3.686 8
P3J C7 C 5.098 -4.436 9
P3J C8 C 6.397 -3.686 10
P3J C9 C 6.397 -2.186 11
P3J N N 3.884 0.946 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
P3J C0 C1 DOUBLE NONE 1
P3J C0 N1 SINGLE NONE 2
P3J C0 N2 SINGLE NONE 3
P3J C1 C5 SINGLE NONE 4
P3J N2 N SINGLE NONE 5
P3J C3 C4 DOUBLE NONE 6
P3J C3 N6 SINGLE NONE 7
P3J C4 C5 SINGLE NONE 8
P3J C4 C9 SINGLE NONE 9
P3J C5 N DOUBLE NONE 10
P3J N6 C7 DOUBLE NONE 11
P3J C7 C8 SINGLE NONE 12
P3J C8 C9 DOUBLE 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
P3J MurckoScaffold S1 scaffold 'c1cncc(-c2cc[nH]n2)c1' InChI=1S/C8H7N3/c1-2-7(6-9-4-1)8-3-5-10-11-8/h1-6H,(H,10,11) JJLMOUMOJSUSSX-UHFFFAOYSA-N
P3J pyrazole F1 fragment 'c1cn[nH]c1' InChI=1S/C3H4N2/c1-2-4-5-3-1/h1-3H,(H,4,5) WTKZEGDFNFYCGP-UHFFFAOYSA-N
P3J pyridine F2 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-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
P3J C0 S1 1
P3J C1 S1 1
P3J N2 S1 1
P3J C3 S1 1
P3J C4 S1 1
P3J C5 S1 1
P3J N6 S1 1
P3J C7 S1 1
P3J C8 S1 1
P3J C9 S1 1
P3J N S1 1
P3J C0 F1 1
P3J C1 F1 1
P3J C5 F1 1
P3J N F1 1
P3J N2 F1 1
P3J C3 F2 1
P3J C4 F2 1
P3J C9 F2 1
P3J C8 F2 1
P3J C7 F2 1
P3J N6 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id P3J
_pdbe_chem_comp_rdkit_properties.exactmw 160.075
_pdbe_chem_comp_rdkit_properties.amw 160.180
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 2
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 12
_pdbe_chem_comp_rdkit_properties.NumAtoms 20
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0
_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 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 80.859
_pdbe_chem_comp_rdkit_properties.tpsa 67.590
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.293
_pdbe_chem_comp_rdkit_properties.CrippenMR 44.085
_pdbe_chem_comp_rdkit_properties.chi0v 5.789
_pdbe_chem_comp_rdkit_properties.chi1v 3.068
_pdbe_chem_comp_rdkit_properties.chi2v 1.179
_pdbe_chem_comp_rdkit_properties.chi3v 1.179
_pdbe_chem_comp_rdkit_properties.chi4v 0.708
_pdbe_chem_comp_rdkit_properties.chi0n 13.789
_pdbe_chem_comp_rdkit_properties.chi1n 6.910
_pdbe_chem_comp_rdkit_properties.chi2n 1.179
_pdbe_chem_comp_rdkit_properties.chi3n 1.179
_pdbe_chem_comp_rdkit_properties.chi4n 0.708
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.840
_pdbe_chem_comp_rdkit_properties.kappa1 2.322
_pdbe_chem_comp_rdkit_properties.kappa2 2.654
_pdbe_chem_comp_rdkit_properties.kappa3 1.140
_pdbe_chem_comp_rdkit_properties.Phi 0.514
#
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
P3J UniChem PDBe P3J
P3J UniChem ZINC ZINC000004992729
P3J UniChem Nikkaji J1.341.967A
P3J UniChem ChemicalBook CB8434872
P3J UniChem 'EPA CompTox Dashboard' DTXSID30428657
P3J UniChem eMolecules 11489357
P3J UniChem eMolecules 36815775
P3J UniChem SureChEMBL SCHEMBL1364633
P3J UniChem SureChEMBL SCHEMBL20575392
P3J UniChem PubChem 7446899
P3J UniChem Mcule MCULE-3532658805
#
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
P3J C0 -2.636 -0.388 -0.034 ETKDGv3 1
P3J C1 -1.437 -0.850 -0.341 ETKDGv3 2
P3J N1 -3.875 -1.016 -0.356 ETKDGv3 3
P3J N2 -2.521 0.836 0.669 ETKDGv3 4
P3J C3 1.630 -0.902 -0.474 ETKDGv3 5
P3J C4 0.978 0.109 0.132 ETKDGv3 6
P3J C5 -0.501 0.148 0.204 ETKDGv3 7
P3J N6 3.068 -0.912 -0.527 ETKDGv3 8
P3J C7 3.780 0.041 -0.001 ETKDGv3 9
P3J C8 3.116 1.170 0.674 ETKDGv3 10
P3J C9 1.781 1.202 0.737 ETKDGv3 11
P3J N -1.155 1.108 0.781 ETKDGv3 12
P3J H1 -1.221 -1.765 -0.877 ETKDGv3 13
P3J H11N -3.894 -1.921 -0.878 ETKDGv3 14
P3J H12N -4.776 -0.574 -0.070 ETKDGv3 15
P3J H2 -3.289 1.436 1.041 ETKDGv3 16
P3J H3 1.094 -1.723 -0.930 ETKDGv3 17
P3J H9 1.294 2.032 1.233 ETKDGv3 18
P3J H7 4.859 0.003 -0.059 ETKDGv3 19
P3J H8 3.705 1.965 1.113 ETKDGv3 20
#