data_5AV
#
_chem_comp.id 5AV
_chem_comp.name 5-chloro-N-[(2,4-dimethyl-1,3-thiazol-5-yl)methyl]pyrazolo[1,5-a]pyrimidin-7-amine
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C12 H12 Cl N5 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2015-08-31
_chem_comp.pdbx_modified_date 2016-01-22
_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 293.775
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 5AV
_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 5DH4
_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
5AV C2 C1 C 0 1 Y N N N N N -9.372 -2.118 18.207 1.196 0.188 0.009 C2 5AV 1
5AV C3 C2 C 0 1 Y N N N N N -7.745 -3.583 16.976 3.343 1.192 0.033 C3 5AV 2
5AV N4 N1 N 0 1 Y N N N N N -6.979 -3.740 18.065 3.920 -0.017 0.090 N4 5AV 3
5AV C7 C3 C 0 1 Y N N N N N -7.593 -4.065 15.650 3.862 2.479 0.003 C7 5AV 4
5AV C9 C4 C 0 1 N N N N N N -10.910 -0.580 19.222 -1.004 -0.919 -0.001 C9 5AV 5
5AV C10 C5 C 0 1 Y N N N N N -10.075 0.593 19.564 -2.460 -0.534 -0.049 C10 5AV 6
5AV C11 C6 C 0 1 Y N N N N N -8.467 2.397 19.710 -4.813 0.098 0.300 C11 5AV 7
5AV C13 C7 C 0 1 Y N N N N N -10.163 1.373 20.695 -3.195 -0.373 -1.153 C13 5AV 8
5AV C15 C8 C 0 1 N N N N N N -7.382 3.374 19.463 -6.199 0.478 0.754 C15 5AV 9
5AV C C9 C 0 1 Y N N N N N -7.452 -3.113 19.142 3.193 -1.114 0.108 C 5AV 10
5AV N N2 N 0 1 Y N N N N N -8.871 -2.815 17.028 1.978 1.312 -0.008 N 5AV 11
5AV S S1 S 0 1 Y N N N N N -8.799 1.164 18.565 -3.497 -0.225 1.342 S 5AV 12
5AV CL CL1 CL 0 0 N N N N N N -6.481 -3.357 20.518 3.972 -2.664 0.183 CL 5AV 13
5AV C1 C10 C 0 1 Y N N N N N -8.571 -2.330 19.300 1.799 -1.038 0.068 C1 5AV 14
5AV N5 N3 N 0 1 Y N N N N N -9.470 -2.809 15.722 1.673 2.677 -0.063 N5 5AV 15
5AV C6 C11 C 0 1 Y N N N N N -8.662 -3.563 14.913 2.793 3.362 -0.056 C6 5AV 16
5AV N8 N4 N 0 1 N N N N N N -10.549 -1.366 18.068 -0.178 0.291 -0.026 N8 5AV 17
5AV N12 N5 N 0 1 Y N N N N N -9.247 2.391 20.768 -4.449 -0.034 -0.930 N12 5AV 18
5AV C14 C12 C 0 1 N N N N N N -11.133 1.186 21.788 -2.636 -0.563 -2.539 C14 5AV 19
5AV H1 H1 H 0 1 N N N N N N -6.800 -4.700 15.283 4.909 2.745 0.023 H1 5AV 20
5AV H2 H2 H 0 1 N N N N N N -11.934 -0.213 19.058 -0.805 -1.476 0.915 H2 5AV 21
5AV H3 H3 H 0 1 N N N N N N -10.896 -1.254 20.092 -0.764 -1.541 -0.864 H3 5AV 22
5AV H4 H4 H 0 1 N N N N N N -6.901 3.153 18.499 -6.797 -0.423 0.891 H4 5AV 23
5AV H5 H5 H 0 1 N N N N N N -7.802 4.390 19.438 -6.137 1.020 1.698 H5 5AV 24
5AV H6 H6 H 0 1 N N N N N N -6.636 3.305 20.269 -6.666 1.113 0.001 H6 5AV 25
5AV H7 H7 H 0 1 N N N N N N -8.813 -1.894 20.258 1.204 -1.939 0.083 H7 5AV 26
5AV H8 H8 H 0 1 N N N N N N -8.829 -3.741 13.861 2.870 4.439 -0.090 H8 5AV 27
5AV H9 H9 H 0 1 N N N N N N -10.430 -0.744 17.294 -0.598 1.164 -0.068 H9 5AV 28
5AV H10 H10 H 0 1 N N N N N N -10.966 1.950 22.562 -2.764 -1.602 -2.844 H10 5AV 29
5AV H11 H11 H 0 1 N N N N N N -12.155 1.282 21.392 -3.164 0.088 -3.237 H11 5AV 30
5AV H12 H12 H 0 1 N N N N N N -11.003 0.186 22.227 -1.575 -0.312 -2.541 H12 5AV 31
#
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
5AV C6 C7 SING Y N 1
5AV C6 N5 DOUB Y N 2
5AV C7 C3 DOUB Y N 3
5AV N5 N SING Y N 4
5AV C3 N SING Y N 5
5AV C3 N4 SING Y N 6
5AV N C2 SING Y N 7
5AV N4 C DOUB Y N 8
5AV N8 C2 SING N N 9
5AV N8 C9 SING N N 10
5AV C2 C1 DOUB Y N 11
5AV S C10 SING Y N 12
5AV S C11 SING Y N 13
5AV C C1 SING Y N 14
5AV C CL SING N N 15
5AV C9 C10 SING N N 16
5AV C15 C11 SING N N 17
5AV C10 C13 DOUB Y N 18
5AV C11 N12 DOUB Y N 19
5AV C13 N12 SING Y N 20
5AV C13 C14 SING N N 21
5AV C7 H1 SING N N 22
5AV C9 H2 SING N N 23
5AV C9 H3 SING N N 24
5AV C15 H4 SING N N 25
5AV C15 H5 SING N N 26
5AV C15 H6 SING N N 27
5AV C1 H7 SING N N 28
5AV C6 H8 SING N N 29
5AV N8 H9 SING N N 30
5AV C14 H10 SING N N 31
5AV C14 H11 SING N N 32
5AV C14 H12 SING N N 33
#
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
5AV SMILES ACDLabs 12.01 c1(cc(nc2n1ncc2)Cl)NCc3c(nc(C)s3)C
5AV InChI InChI 1.03 InChI=1S/C12H12ClN5S/c1-7-9(19-8(2)16-7)6-14-12-5-10(13)17-11-3-4-15-18(11)12/h3-5,14H,6H2,1-2H3
5AV InChIKey InChI 1.03 FTTQXQQDHKGVJR-UHFFFAOYSA-N
5AV SMILES_CANONICAL CACTVS 3.385 Cc1sc(CNc2cc(Cl)nc3ccnn23)c(C)n1
5AV SMILES CACTVS 3.385 Cc1sc(CNc2cc(Cl)nc3ccnn23)c(C)n1
5AV SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 Cc1c(sc(n1)C)CNc2cc(nc3n2ncc3)Cl
5AV SMILES "OpenEye OEToolkits" 1.9.2 Cc1c(sc(n1)C)CNc2cc(nc3n2ncc3)Cl
#
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
5AV "SYSTEMATIC NAME" ACDLabs 12.01 5-chloro-N-[(2,4-dimethyl-1,3-thiazol-5-yl)methyl]pyrazolo[1,5-a]pyrimidin-7-amine
5AV "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 5-chloranyl-N-[(2,4-dimethyl-1,3-thiazol-5-yl)methyl]pyrazolo[1,5-a]pyrimidin-7-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
5AV 'Create component' 2015-08-31 RCSB
5AV 'Initial release' 2016-01-27 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 '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
5AV C2 C 6.939 2.136 1
5AV C3 C 8.238 4.386 2
5AV N4 N 6.939 5.136 3
5AV C7 C 9.658 4.843 4
5AV C9 C 5.640 -0.114 5
5AV C10 C 5.640 -1.614 6
5AV C11 C 6.390 -3.922 7
5AV C13 C 4.427 -2.496 8
5AV C15 C 7.272 -5.136 9
5AV C C 5.640 4.386 10
5AV N N 8.238 2.886 11
5AV S S 6.854 -2.496 12
5AV CL Cl 4.341 5.136 13
5AV C1 C 5.640 2.886 14
5AV N5 N 9.658 2.429 15
5AV C6 C 10.533 3.636 16
5AV N8 N 6.939 0.636 17
5AV N12 N 4.890 -3.922 18
5AV C14 C 3.000 -2.032 19
#
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
5AV C6 C7 SINGLE NONE 1
5AV C6 N5 DOUBLE NONE 2
5AV C7 C3 DOUBLE NONE 3
5AV N5 N SINGLE NONE 4
5AV C3 N SINGLE NONE 5
5AV C3 N4 SINGLE NONE 6
5AV N C2 SINGLE NONE 7
5AV N4 C DOUBLE NONE 8
5AV N8 C2 SINGLE NONE 9
5AV N8 C9 SINGLE NONE 10
5AV C2 C1 DOUBLE NONE 11
5AV S C10 SINGLE NONE 12
5AV S C11 SINGLE NONE 13
5AV C C1 SINGLE NONE 14
5AV C CL SINGLE NONE 15
5AV C9 C10 SINGLE NONE 16
5AV C15 C11 SINGLE NONE 17
5AV C10 C13 DOUBLE NONE 18
5AV C11 N12 DOUBLE NONE 19
5AV C13 N12 SINGLE NONE 20
5AV C13 C14 SINGLE NONE 21
#
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
5AV MurckoScaffold S1 scaffold c1cc(NCc2cncs2)n2nccc2n1 InChI=1S/C10H9N5S/c1-3-12-9-2-4-14-15(9)10(1)13-6-8-5-11-7-16-8/h1-5,7,13H,6H2 BEXYCGMIGZHVDS-UHFFFAOYSA-N
5AV pyrazole F1 fragment 'c1cn[nH]c1' InChI=1S/C3H4N2/c1-2-4-5-3-1/h1-3H,(H,4,5) WTKZEGDFNFYCGP-UHFFFAOYSA-N
5AV pyrimidine F2 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
5AV thiazole F3 fragment c1cscn1 InChI=1S/C3H3NS/c1-2-5-3-4-1/h1-3H FZWLAAWBMGSTSO-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
5AV C2 S1 1
5AV C3 S1 1
5AV N4 S1 1
5AV C7 S1 1
5AV C9 S1 1
5AV C10 S1 1
5AV C11 S1 1
5AV C13 S1 1
5AV C S1 1
5AV N S1 1
5AV S S1 1
5AV C1 S1 1
5AV N5 S1 1
5AV C6 S1 1
5AV N8 S1 1
5AV N12 S1 1
5AV C3 F1 1
5AV C7 F1 1
5AV C6 F1 1
5AV N5 F1 1
5AV N F1 1
5AV C1 F2 1
5AV C2 F2 1
5AV N F2 1
5AV C3 F2 1
5AV N4 F2 1
5AV C F2 1
5AV C10 F3 1
5AV C13 F3 1
5AV N12 F3 1
5AV C11 F3 1
5AV S F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 5AV
_pdbe_chem_comp_rdkit_properties.exactmw 293.050
_pdbe_chem_comp_rdkit_properties.amw 293.783
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 6
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 19
_pdbe_chem_comp_rdkit_properties.NumAtoms 31
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 7
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.250
_pdbe_chem_comp_rdkit_properties.NumRings 3
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 3
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 3
_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 135.740
_pdbe_chem_comp_rdkit_properties.tpsa 55.110
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.309
_pdbe_chem_comp_rdkit_properties.CrippenMR 74.187
_pdbe_chem_comp_rdkit_properties.chi0v 10.595
_pdbe_chem_comp_rdkit_properties.chi1v 6.004
_pdbe_chem_comp_rdkit_properties.chi2v 2.981
_pdbe_chem_comp_rdkit_properties.chi3v 2.981
_pdbe_chem_comp_rdkit_properties.chi4v 2.018
_pdbe_chem_comp_rdkit_properties.chi0n 21.022
_pdbe_chem_comp_rdkit_properties.chi1n 10.757
_pdbe_chem_comp_rdkit_properties.chi2n 2.028
_pdbe_chem_comp_rdkit_properties.chi3n 2.028
_pdbe_chem_comp_rdkit_properties.chi4n 1.289
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.660
_pdbe_chem_comp_rdkit_properties.kappa1 4.714
_pdbe_chem_comp_rdkit_properties.kappa2 4.787
_pdbe_chem_comp_rdkit_properties.kappa3 2.410
_pdbe_chem_comp_rdkit_properties.Phi 1.188
#
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
5AV UniChem ZINC ZINC000263620440
5AV UniChem PubChem 127042560
5AV UniChem BindingDb 50500516
#
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
5AV C2 1.850 0.179 0.742 ETKDGv3 1
5AV C3 4.018 -0.900 0.270 ETKDGv3 2
5AV N4 4.670 -0.054 1.214 ETKDGv3 3
5AV C7 4.574 -1.666 -0.648 ETKDGv3 4
5AV C9 -0.341 -0.564 -0.336 ETKDGv3 5
5AV C10 -1.808 -0.259 -0.231 ETKDGv3 6
5AV C11 -4.243 -0.036 0.341 ETKDGv3 7
5AV C13 -2.460 0.733 -0.854 ETKDGv3 8
5AV C15 -5.626 -0.072 0.895 ETKDGv3 9
5AV C 3.956 0.819 1.872 ETKDGv3 10
5AV N 2.632 -0.816 0.064 ETKDGv3 11
5AV S -2.922 -1.105 0.870 ETKDGv3 12
5AV CL 4.743 1.862 3.039 ETKDGv3 13
5AV C1 2.486 0.966 1.633 ETKDGv3 14
5AV N5 2.331 -1.557 -1.080 ETKDGv3 15
5AV C6 3.443 -2.082 -1.498 ETKDGv3 16
5AV N8 0.435 0.330 0.523 ETKDGv3 17
5AV N12 -3.853 0.852 -0.518 ETKDGv3 18
5AV C14 -1.817 1.675 -1.823 ETKDGv3 19
5AV H1 5.629 -1.852 -0.795 ETKDGv3 20
5AV H2 -0.176 -1.616 -0.020 ETKDGv3 21
5AV H3 -0.012 -0.452 -1.390 ETKDGv3 22
5AV H4 -5.875 -1.104 1.220 ETKDGv3 23
5AV H5 -6.356 0.246 0.121 ETKDGv3 24
5AV H6 -5.693 0.611 1.766 ETKDGv3 25
5AV H7 1.938 1.721 2.183 ETKDGv3 26
5AV H8 3.511 -2.704 -2.380 ETKDGv3 27
5AV H9 -0.063 1.098 1.030 ETKDGv3 28
5AV H10 -0.951 2.181 -1.346 ETKDGv3 29
5AV H11 -2.546 2.449 -2.144 ETKDGv3 30
5AV H12 -1.473 1.118 -2.719 ETKDGv3 31
#