data_JJ4
#
_chem_comp.id JJ4
_chem_comp.name 3-cyclopentyl-N-(5-methyl-1,3-thiazol-2-yl)propanamide
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C12 H18 N2 O S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2018-09-10
_chem_comp.pdbx_modified_date 2018-10-05
_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 238.349
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code JJ4
_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 5QEE
_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
JJ4 C10 C1 C 0 1 N N N N N N -40.792 32.467 11.040 1.417 -0.565 -0.432 C10 JJ4 1
JJ4 C13 C2 C 0 1 N N N N N N -41.150 36.058 11.751 4.920 1.095 -0.445 C13 JJ4 2
JJ4 C15 C3 C 0 1 N N N N N N -41.756 36.972 9.690 5.754 -0.736 0.935 C15 JJ4 3
JJ4 C01 C4 C 0 1 N N N N N N -34.334 28.419 11.760 -6.195 0.359 0.315 C01 JJ4 4
JJ4 C02 C5 C 0 1 Y N N N N N -35.498 29.227 11.771 -4.696 0.277 0.190 C02 JJ4 5
JJ4 C03 C6 C 0 1 Y N N N N N -35.533 30.428 12.313 -3.839 1.287 0.352 C03 JJ4 6
JJ4 N04 N1 N 0 1 Y N N N N N -36.739 31.065 12.217 -2.570 0.962 0.190 N04 JJ4 7
JJ4 C05 C7 C 0 1 Y N N N N N -37.589 30.317 11.634 -2.314 -0.275 -0.102 C05 JJ4 8
JJ4 S06 S1 S 0 1 Y N N N N N -36.913 28.819 11.177 -3.767 -1.172 -0.189 S06 JJ4 9
JJ4 N07 N2 N 0 1 N N N N N N -38.868 30.698 11.350 -1.042 -0.797 -0.308 N07 JJ4 10
JJ4 C08 C8 C 0 1 N N N N N N -39.298 32.048 11.330 0.039 0.001 -0.208 C08 JJ4 11
JJ4 O09 O1 O 0 1 N N N N N N -38.508 32.829 11.597 -0.098 1.176 0.062 O09 JJ4 12
JJ4 C11 C9 C 0 1 N N N N N N -41.013 33.904 10.327 2.458 0.544 -0.261 C11 JJ4 13
JJ4 C12 C10 C 0 1 N N N N N N -41.931 34.920 11.089 3.858 -0.031 -0.488 C12 JJ4 14
JJ4 C14 C11 C 0 1 N N N N N N -40.632 36.867 10.614 6.217 0.333 -0.077 C14 JJ4 15
JJ4 C16 C12 C 0 1 N N N N N N -42.794 35.892 10.204 4.251 -0.968 0.672 C16 JJ4 16
JJ4 H102 H1 H 0 0 N N N N N N -41.327 32.485 12.001 1.607 -1.356 0.293 H102 JJ4 17
JJ4 H101 H2 H 0 0 N N N N N N -41.234 31.699 10.388 1.483 -0.973 -1.441 H101 JJ4 18
JJ4 H131 H3 H 0 0 N N N N N N -40.321 35.660 12.355 5.016 1.573 -1.419 H131 JJ4 19
JJ4 H132 H4 H 0 0 N N N N N N -41.811 36.663 12.389 4.673 1.830 0.322 H132 JJ4 20
JJ4 H152 H5 H 0 0 N N N N N N -41.437 36.746 8.662 6.308 -1.662 0.779 H152 JJ4 21
JJ4 H151 H6 H 0 0 N N N N N N -42.195 37.980 9.724 5.905 -0.377 1.953 H151 JJ4 22
JJ4 H011 H7 H 0 0 N N N N N N -34.559 27.458 11.274 -6.628 0.600 -0.655 H011 JJ4 23
JJ4 H012 H8 H 0 0 N N N N N N -33.536 28.933 11.204 -6.584 -0.600 0.659 H012 JJ4 24
JJ4 H013 H9 H 0 0 N N N N N N -34.003 28.239 12.793 -6.458 1.136 1.034 H013 JJ4 25
JJ4 H031 H10 H 0 0 N N N N N N -34.676 30.874 12.795 -4.158 2.289 0.596 H031 JJ4 26
JJ4 H071 H11 H 0 0 N N N N N N -39.539 29.985 11.145 -0.933 -1.737 -0.524 H071 JJ4 27
JJ4 H111 H12 H 0 0 N N N N N N -40.025 34.372 10.202 2.268 1.335 -0.986 H111 JJ4 28
JJ4 H112 H13 H 0 0 N N N N N N -41.461 33.723 9.339 2.392 0.951 0.748 H112 JJ4 29
JJ4 H121 H14 H 0 0 N N N N N N -42.566 34.397 11.819 3.902 -0.561 -1.440 H121 JJ4 30
JJ4 H142 H15 H 0 0 N N N N N N -39.781 36.361 10.134 6.645 -0.139 -0.961 H142 JJ4 31
JJ4 H141 H16 H 0 0 N N N N N N -40.319 37.864 10.958 6.939 1.007 0.384 H141 JJ4 32
JJ4 H162 H17 H 0 0 N N N N N N -43.586 36.366 10.803 4.078 -2.006 0.390 H162 JJ4 33
JJ4 H161 H18 H 0 0 N N N N N N -43.246 35.352 9.359 3.674 -0.722 1.564 H161 JJ4 34
#
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
JJ4 C15 C16 SING N N 1
JJ4 C15 C14 SING N N 2
JJ4 C16 C12 SING N N 3
JJ4 C11 C10 SING N N 4
JJ4 C11 C12 SING N N 5
JJ4 C14 C13 SING N N 6
JJ4 C10 C08 SING N N 7
JJ4 C12 C13 SING N N 8
JJ4 S06 C05 SING Y N 9
JJ4 S06 C02 SING Y N 10
JJ4 C08 N07 SING N N 11
JJ4 C08 O09 DOUB N N 12
JJ4 N07 C05 SING N N 13
JJ4 C05 N04 DOUB Y N 14
JJ4 C01 C02 SING N N 15
JJ4 C02 C03 DOUB Y N 16
JJ4 N04 C03 SING Y N 17
JJ4 C10 H102 SING N N 18
JJ4 C10 H101 SING N N 19
JJ4 C13 H131 SING N N 20
JJ4 C13 H132 SING N N 21
JJ4 C15 H152 SING N N 22
JJ4 C15 H151 SING N N 23
JJ4 C01 H011 SING N N 24
JJ4 C01 H012 SING N N 25
JJ4 C01 H013 SING N N 26
JJ4 C03 H031 SING N N 27
JJ4 N07 H071 SING N N 28
JJ4 C11 H111 SING N N 29
JJ4 C11 H112 SING N N 30
JJ4 C12 H121 SING N N 31
JJ4 C14 H142 SING N N 32
JJ4 C14 H141 SING N N 33
JJ4 C16 H162 SING N N 34
JJ4 C16 H161 SING N N 35
#
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
JJ4 SMILES ACDLabs 12.01 C(C(Nc1ncc(C)s1)=O)CC2CCCC2
JJ4 InChI InChI 1.03 InChI=1S/C12H18N2OS/c1-9-8-13-12(16-9)14-11(15)7-6-10-4-2-3-5-10/h8,10H,2-7H2,1H3,(H,13,14,15)
JJ4 InChIKey InChI 1.03 OCHVUIYGDNVFCO-UHFFFAOYSA-N
JJ4 SMILES_CANONICAL CACTVS 3.385 Cc1sc(NC(=O)CCC2CCCC2)nc1
JJ4 SMILES CACTVS 3.385 Cc1sc(NC(=O)CCC2CCCC2)nc1
JJ4 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 Cc1cnc(s1)NC(=O)CCC2CCCC2
JJ4 SMILES "OpenEye OEToolkits" 2.0.6 Cc1cnc(s1)NC(=O)CCC2CCCC2
#
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
JJ4 "SYSTEMATIC NAME" ACDLabs 12.01 3-cyclopentyl-N-(5-methyl-1,3-thiazol-2-yl)propanamide
JJ4 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 3-cyclopentyl-~{N}-(5-methyl-1,3-thiazol-2-yl)propanamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
JJ4 'Create component' 2018-09-10 RCSB
JJ4 'Initial release' 2018-10-10 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
JJ4 C10 C 10.822 -0.240 1
JJ4 C13 C 14.576 1.181 2
JJ4 C15 C 15.326 -1.127 3
JJ4 C01 C 3.000 -0.781 4
JJ4 C02 C 4.427 -0.317 5
JJ4 C03 C 4.890 1.110 6
JJ4 N04 N 6.390 1.110 7
JJ4 C05 C 6.854 -0.317 8
JJ4 S06 S 5.640 -1.199 9
JJ4 N07 N 8.280 -0.781 10
JJ4 C08 C 9.395 0.223 11
JJ4 O09 O 9.083 1.690 12
JJ4 C11 C 11.936 0.763 13
JJ4 C12 C 13.363 0.300 14
JJ4 C14 C 15.790 0.300 15
JJ4 C16 C 13.826 -1.127 16
#
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
JJ4 C15 C16 SINGLE NONE 1
JJ4 C15 C14 SINGLE NONE 2
JJ4 C16 C12 SINGLE NONE 3
JJ4 C11 C10 SINGLE NONE 4
JJ4 C11 C12 SINGLE NONE 5
JJ4 C14 C13 SINGLE NONE 6
JJ4 C10 C08 SINGLE NONE 7
JJ4 C12 C13 SINGLE NONE 8
JJ4 S06 C05 SINGLE NONE 9
JJ4 S06 C02 SINGLE NONE 10
JJ4 C08 N07 SINGLE NONE 11
JJ4 C08 O09 DOUBLE NONE 12
JJ4 N07 C05 SINGLE NONE 13
JJ4 C05 N04 DOUBLE NONE 14
JJ4 C01 C02 SINGLE NONE 15
JJ4 C02 C03 DOUBLE NONE 16
JJ4 N04 C03 SINGLE NONE 17
#
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
JJ4 MurckoScaffold S1 scaffold O=C(CCC1CCCC1)Nc1nccs1 InChI=1S/C11H16N2OS/c14-10(13-11-12-7-8-15-11)6-5-9-3-1-2-4-9/h7-9H,1-6H2,(H,12,13,14) KPKVJUGCRPBUSL-UHFFFAOYSA-N
JJ4 amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
JJ4 cyclopentane F2 fragment C1CCCC1 InChI=1S/C5H10/c1-2-4-5-3-1/h1-5H2 RGSFGYAAUTVSQA-UHFFFAOYSA-N
JJ4 thiazole F3 fragment c1cscn1 InChI=1S/C3H3NS/c1-2-5-3-4-1/h1-3H FZWLAAWBMGSTSO-UHFFFAOYSA-N
JJ4 Z29325421 F4 fragment Cc1cnc(NC(=O)CCC2CCCC2)s1 InChI=1S/C12H18N2OS/c1-9-8-13-12(16-9)14-11(15)7-6-10-4-2-3-5-10/h8,10H,2-7H2,1H3,(H,13,14,15) OCHVUIYGDNVFCO-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
JJ4 C10 S1 1
JJ4 C13 S1 1
JJ4 C15 S1 1
JJ4 C02 S1 1
JJ4 C03 S1 1
JJ4 N04 S1 1
JJ4 C05 S1 1
JJ4 S06 S1 1
JJ4 N07 S1 1
JJ4 C08 S1 1
JJ4 O09 S1 1
JJ4 C11 S1 1
JJ4 C12 S1 1
JJ4 C14 S1 1
JJ4 C16 S1 1
JJ4 N07 F1 1
JJ4 C08 F1 1
JJ4 O09 F1 1
JJ4 C10 F1 1
JJ4 C13 F2 1
JJ4 C14 F2 1
JJ4 C15 F2 1
JJ4 C16 F2 1
JJ4 C12 F2 1
JJ4 C02 F3 1
JJ4 C03 F3 1
JJ4 N04 F3 1
JJ4 C05 F3 1
JJ4 S06 F3 1
JJ4 C01 F4 1
JJ4 C02 F4 1
JJ4 C03 F4 1
JJ4 N04 F4 1
JJ4 C05 F4 1
JJ4 N07 F4 1
JJ4 C08 F4 1
JJ4 O09 F4 1
JJ4 C10 F4 1
JJ4 C11 F4 1
JJ4 C12 F4 1
JJ4 C16 F4 1
JJ4 C15 F4 1
JJ4 C14 F4 1
JJ4 C13 F4 1
JJ4 S06 F4 1
#
_pdbe_chem_comp_rdkit_properties.comp_id JJ4
_pdbe_chem_comp_rdkit_properties.exactmw 238.114
_pdbe_chem_comp_rdkit_properties.amw 238.356
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_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 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 16
_pdbe_chem_comp_rdkit_properties.NumAtoms 34
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.667
_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 1
_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 125.629
_pdbe_chem_comp_rdkit_properties.tpsa 41.990
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.925
_pdbe_chem_comp_rdkit_properties.CrippenMR 65.583
_pdbe_chem_comp_rdkit_properties.chi0v 8.527
_pdbe_chem_comp_rdkit_properties.chi1v 4.823
_pdbe_chem_comp_rdkit_properties.chi2v 2.036
_pdbe_chem_comp_rdkit_properties.chi3v 2.036
_pdbe_chem_comp_rdkit_properties.chi4v 1.289
_pdbe_chem_comp_rdkit_properties.chi0n 25.711
_pdbe_chem_comp_rdkit_properties.chi1n 12.954
_pdbe_chem_comp_rdkit_properties.chi2n 1.376
_pdbe_chem_comp_rdkit_properties.chi3n 1.376
_pdbe_chem_comp_rdkit_properties.chi4n 0.795
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.900
_pdbe_chem_comp_rdkit_properties.kappa1 2.582
_pdbe_chem_comp_rdkit_properties.kappa2 5.435
_pdbe_chem_comp_rdkit_properties.kappa3 3.302
_pdbe_chem_comp_rdkit_properties.Phi 0.877
#
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
JJ4 UniChem PDBe JJ4
JJ4 UniChem ZINC ZINC000000475038
JJ4 UniChem eMolecules 2198146
JJ4 UniChem PubChem 897357
JJ4 UniChem Mcule MCULE-3916612590
#
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
JJ4 C10 -0.423 -0.898 -1.065 ETKDGv3 1
JJ4 C13 -3.246 -1.044 0.301 ETKDGv3 2
JJ4 C15 -5.017 0.621 -0.045 ETKDGv3 3
JJ4 C01 6.985 0.732 -0.104 ETKDGv3 4
JJ4 C02 5.558 0.445 0.227 ETKDGv3 5
JJ4 C03 5.087 0.226 1.454 ETKDGv3 6
JJ4 N04 3.692 -0.109 1.523 ETKDGv3 7
JJ4 C05 3.123 -0.154 0.359 ETKDGv3 8
JJ4 S06 4.263 0.208 -0.969 ETKDGv3 9
JJ4 N07 1.734 -0.484 0.211 ETKDGv3 10
JJ4 C08 1.024 -0.508 -1.038 ETKDGv3 11
JJ4 O09 1.587 -0.162 -2.111 ETKDGv3 12
JJ4 C11 -1.308 0.302 -0.706 ETKDGv3 13
JJ4 C12 -2.807 -0.049 -0.772 ETKDGv3 14
JJ4 C14 -4.719 -0.747 0.567 ETKDGv3 15
JJ4 C16 -3.689 1.171 -0.545 ETKDGv3 16
JJ4 H102 -0.687 -1.271 -2.079 ETKDGv3 17
JJ4 H101 -0.588 -1.726 -0.342 ETKDGv3 18
JJ4 H131 -3.105 -2.091 -0.044 ETKDGv3 19
JJ4 H132 -2.667 -0.890 1.239 ETKDGv3 20
JJ4 H152 -5.719 0.505 -0.899 ETKDGv3 21
JJ4 H151 -5.471 1.305 0.704 ETKDGv3 22
JJ4 H011 7.051 1.199 -1.108 ETKDGv3 23
JJ4 H012 7.420 1.429 0.644 ETKDGv3 24
JJ4 H013 7.563 -0.215 -0.104 ETKDGv3 25
JJ4 H031 5.705 0.281 2.340 ETKDGv3 26
JJ4 H071 1.201 -0.718 1.080 ETKDGv3 27
JJ4 H111 -1.047 0.668 0.312 ETKDGv3 28
JJ4 H112 -1.103 1.124 -1.427 ETKDGv3 29
JJ4 H121 -3.045 -0.471 -1.775 ETKDGv3 30
JJ4 H142 -5.358 -1.524 0.092 ETKDGv3 31
JJ4 H141 -4.921 -0.741 1.661 ETKDGv3 32
JJ4 H162 -3.251 1.831 0.238 ETKDGv3 33
JJ4 H161 -3.821 1.755 -1.482 ETKDGv3 34
#