data_4KA
#
_chem_comp.id 4KA
_chem_comp.name 3-methyl-1,5-dihydropyrazolo[4,3-c]pyrazole
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C5 H6 N4"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2013-04-29
_chem_comp.pdbx_modified_date 2013-09-06
_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 122.128
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 4KA
_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 4KAB
_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
4KA C1 C1 C 0 1 Y N N N N N -8.381 26.107 -41.918 0.033 -0.483 0.001 C1 4KA 1
4KA C2 C2 C 0 1 Y N N N N N -9.501 26.351 -42.717 0.649 0.795 -0.000 C2 4KA 2
4KA N3 N3 N 0 1 Y N N N N N -9.754 27.344 -40.728 -1.602 1.048 -0.000 N3 4KA 3
4KA N4 N4 N 0 1 Y N N N N N -10.363 27.121 -41.980 -0.378 1.723 -0.001 N4 4KA 4
4KA C5 C5 C 0 1 Y N N N N N -8.598 26.743 -40.697 -1.410 -0.238 0.001 C5 4KA 5
4KA N6 N6 N 0 1 Y N N N N N -8.111 25.125 -43.888 2.225 -0.726 0.002 N6 4KA 6
4KA N7 N7 N 0 1 Y N N N N N -7.509 25.344 -42.642 0.992 -1.391 -0.003 N7 4KA 7
4KA C8 C8 C 0 1 Y N N N N N -9.279 25.709 -43.938 1.995 0.601 0.000 C8 4KA 8
4KA C9 C9 C 0 1 N N N N N N -7.645 26.695 -39.544 -2.487 -1.293 0.001 C9 4KA 9
4KA H1 H1 H 0 1 N N N N N N -11.256 27.461 -42.275 -0.266 2.686 -0.001 H1 4KA 10
4KA H2 H2 H 0 1 N N N N N N -7.705 24.597 -44.633 3.098 -1.150 0.001 H2 4KA 11
4KA H3 H3 H 0 1 N N N N N N -9.957 25.697 -44.779 2.747 1.376 0.003 H3 4KA 12
4KA H4 H4 H 0 1 N N N N N N -8.066 27.255 -38.696 -2.746 -1.547 1.028 H4 4KA 13
4KA H5 H5 H 0 1 N N N N N N -7.481 25.649 -39.247 -3.369 -0.911 -0.513 H5 4KA 14
4KA H6 H6 H 0 1 N N N N N N -6.687 27.146 -39.841 -2.123 -2.183 -0.513 H6 4KA 15
#
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
4KA C8 N6 SING Y N 1
4KA C8 C2 DOUB Y N 2
4KA N6 N7 SING Y N 3
4KA C2 N4 SING Y N 4
4KA C2 C1 SING Y N 5
4KA N7 C1 DOUB Y N 6
4KA N4 N3 SING Y N 7
4KA C1 C5 SING Y N 8
4KA N3 C5 DOUB Y N 9
4KA C5 C9 SING N N 10
4KA N4 H1 SING N N 11
4KA N6 H2 SING N N 12
4KA C8 H3 SING N N 13
4KA C9 H4 SING N N 14
4KA C9 H5 SING N N 15
4KA C9 H6 SING N N 16
#
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
4KA SMILES ACDLabs 12.01 n1ncc2c1c(nn2)C
4KA InChI InChI 1.03 InChI=1S/C5H6N4/c1-3-5-4(8-7-3)2-6-9-5/h2H,1H3,(H,6,9)(H,7,8)
4KA InChIKey InChI 1.03 KRAKREBEXWCQMF-UHFFFAOYSA-N
4KA SMILES_CANONICAL CACTVS 3.370 Cc1n[nH]c2c[nH]nc12
4KA SMILES CACTVS 3.370 Cc1n[nH]c2c[nH]nc12
4KA SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 Cc1c2c(c[nH]n2)[nH]n1
4KA SMILES "OpenEye OEToolkits" 1.7.6 Cc1c2c(c[nH]n2)[nH]n1
#
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
4KA "SYSTEMATIC NAME" ACDLabs 12.01 3-methyl-1,5-dihydropyrazolo[4,3-c]pyrazole
4KA "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 6-methyl-2,4-dihydropyrazolo[4,3-c]pyrazole
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
4KA 'Create component' 2013-04-29 RCSB
4KA 'Initial release' 2013-09-11 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
4KA C1 C 6.238 0.037 1
4KA C2 C 6.238 -1.463 2
4KA N3 N 3.930 -0.713 3
4KA N4 N 4.812 -1.927 4
4KA C5 C 4.812 0.500 5
4KA N6 N 8.533 -0.713 6
4KA N7 N 7.658 0.494 7
4KA C8 C 7.658 -1.920 8
4KA C9 C 4.348 1.927 9
#
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
4KA C8 N6 SINGLE NONE 1
4KA C8 C2 DOUBLE NONE 2
4KA N6 N7 SINGLE NONE 3
4KA C2 N4 SINGLE NONE 4
4KA C2 C1 SINGLE NONE 5
4KA N7 C1 DOUBLE NONE 6
4KA N4 N3 SINGLE NONE 7
4KA C1 C5 SINGLE NONE 8
4KA N3 C5 DOUBLE NONE 9
4KA C5 C9 SINGLE NONE 10
#
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
4KA MurckoScaffold S1 scaffold 'c1n[nH]c2c[nH]nc12' InChI=1S/C4H4N4/c1-3-4(8-5-1)2-6-7-3/h1-2H,(H,5,8)(H,6,7) ZRBGOGHMPLKJFG-UHFFFAOYSA-N
4KA pyrazole F1 fragment 'c1cn[nH]c1' InChI=1S/C3H4N2/c1-2-4-5-3-1/h1-3H,(H,4,5) WTKZEGDFNFYCGP-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
4KA C1 S1 1
4KA C2 S1 1
4KA N3 S1 1
4KA N4 S1 1
4KA C5 S1 1
4KA N6 S1 1
4KA N7 S1 1
4KA C8 S1 1
4KA C1 F1 1
4KA C2 F1 1
4KA C8 F1 1
4KA N6 F1 1
4KA N7 F1 1
4KA C2 F1 2
4KA C1 F1 2
4KA C5 F1 2
4KA N3 F1 2
4KA N4 F1 2
#
_pdbe_chem_comp_rdkit_properties.comp_id 4KA
_pdbe_chem_comp_rdkit_properties.exactmw 122.059
_pdbe_chem_comp_rdkit_properties.amw 122.131
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 1
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 9
_pdbe_chem_comp_rdkit_properties.NumAtoms 15
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.200
_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 59.818
_pdbe_chem_comp_rdkit_properties.tpsa 57.360
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.111
_pdbe_chem_comp_rdkit_properties.CrippenMR 30.504
_pdbe_chem_comp_rdkit_properties.chi0v 4.289
_pdbe_chem_comp_rdkit_properties.chi1v 2.294
_pdbe_chem_comp_rdkit_properties.chi2v 1.005
_pdbe_chem_comp_rdkit_properties.chi3v 1.005
_pdbe_chem_comp_rdkit_properties.chi4v 0.599
_pdbe_chem_comp_rdkit_properties.chi0n 10.289
_pdbe_chem_comp_rdkit_properties.chi1n 5.189
_pdbe_chem_comp_rdkit_properties.chi2n 1.005
_pdbe_chem_comp_rdkit_properties.chi3n 1.005
_pdbe_chem_comp_rdkit_properties.chi4n 0.599
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.320
_pdbe_chem_comp_rdkit_properties.kappa1 1.590
_pdbe_chem_comp_rdkit_properties.kappa2 1.340
_pdbe_chem_comp_rdkit_properties.kappa3 0.468
_pdbe_chem_comp_rdkit_properties.Phi 0.237
#
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
4KA UniChem ChEMBL CHEMBL1599242
4KA UniChem PDBe 4KA
4KA UniChem ZINC ZINC000013119669
4KA UniChem eMolecules 2760527
4KA UniChem PubChem 6400924
4KA UniChem BindingDb 50440376
4KA UniChem Mcule MCULE-9235014005
#
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
4KA C1 -0.089 -0.561 0.507 ETKDGv3 1
4KA C2 -1.000 0.497 0.796 ETKDGv3 2
4KA N3 0.997 1.415 0.234 ETKDGv3 3
4KA N4 -0.319 1.727 0.622 ETKDGv3 4
4KA C5 1.161 0.124 0.185 ETKDGv3 5
4KA N6 -2.015 -1.154 -0.264 ETKDGv3 6
4KA N7 -0.654 -1.485 -0.196 ETKDGv3 7
4KA C8 -2.169 0.156 0.281 ETKDGv3 8
4KA C9 2.394 -0.524 -0.349 ETKDGv3 9
4KA H1 -0.756 2.668 0.507 ETKDGv3 10
4KA H2 -2.703 -1.642 -0.879 ETKDGv3 11
4KA H3 -2.960 0.842 0.008 ETKDGv3 12
4KA H4 2.318 -0.610 -1.453 ETKDGv3 13
4KA H5 3.286 0.084 -0.089 ETKDGv3 14
4KA H6 2.509 -1.537 0.090 ETKDGv3 15
#