data_R97
#
_chem_comp.id R97
_chem_comp.name 2-[(4-methyl-1,3-thiazol-2-yl)methyl]pyridine
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H10 N2 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-02-10
_chem_comp.pdbx_modified_date 2020-05-29
_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 190.265
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code R97
_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 5RBU
_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
R97 C4 C1 C 0 1 N N N N N N 20.339 -2.919 57.714 -0.366 -0.727 1.370 C4 R97 1
R97 C5 C2 C 0 1 Y N N N N N 20.481 -2.231 59.054 -1.548 -0.191 0.603 C5 R97 2
R97 C6 C3 C 0 1 Y N N N N N 20.459 -0.847 59.175 -2.599 -1.033 0.294 C6 R97 3
R97 N1 N1 N 0 1 Y N N N N N 20.655 -3.038 60.109 -1.570 1.076 0.240 N1 R97 4
R97 C7 C4 C 0 1 Y N N N N N 20.650 -0.290 60.427 -3.682 -0.531 -0.411 C7 R97 5
R97 C8 C5 C 0 1 Y N N N N N 20.856 -1.106 61.512 -3.667 0.805 -0.781 C8 R97 6
R97 C9 C6 C 0 1 Y N N N N N 20.844 -2.467 61.309 -2.582 1.588 -0.431 C9 R97 7
R97 C C7 C 0 1 N N N N N N 18.872 0.232 54.218 3.628 1.877 -0.005 C R97 8
R97 C1 C8 C 0 1 Y N N N N N 19.857 -0.572 55.007 2.698 0.692 -0.038 C1 R97 9
R97 N N2 N 0 1 Y N N N N N 19.402 -1.383 56.022 1.619 0.612 0.714 N R97 10
R97 C3 C9 C 0 1 Y N N N N N 20.434 -1.950 56.571 0.899 -0.452 0.598 C3 R97 11
R97 S S1 S 0 1 Y N N N N N 21.898 -1.531 55.902 1.587 -1.507 -0.559 S R97 12
R97 C2 C10 C 0 1 Y N N N N N 21.199 -0.574 54.849 2.897 -0.360 -0.837 C2 R97 13
R97 H1 H1 H 0 1 N N N N N N 19.361 -3.420 57.674 -0.312 -0.237 2.342 H1 R97 14
R97 H2 H2 H 0 1 N N N N N N 21.139 -3.667 57.613 -0.480 -1.802 1.510 H2 R97 15
R97 H3 H3 H 0 1 N N N N N N 20.296 -0.220 58.311 -2.578 -2.069 0.598 H3 R97 16
R97 H4 H4 H 0 1 N N N N N N 20.637 0.783 60.550 -4.518 -1.166 -0.667 H4 R97 17
R97 H5 H5 H 0 1 N N N N N N 21.022 -0.692 62.495 -4.493 1.230 -1.331 H5 R97 18
R97 H6 H6 H 0 1 N N N N N N 20.995 -3.111 62.162 -2.565 2.631 -0.711 H6 R97 19
R97 H7 H7 H 0 1 N N N N N N 17.856 0.041 54.595 4.403 1.710 0.743 H7 R97 20
R97 H8 H8 H 0 1 N N N N N N 19.106 1.302 54.321 4.090 2.004 -0.984 H8 R97 21
R97 H9 H9 H 0 1 N N N N N N 18.930 -0.055 53.158 3.065 2.775 0.250 H9 R97 22
R97 H10 H10 H 0 1 N N N N N N 21.727 0.001 54.103 3.716 -0.487 -1.530 H10 R97 23
#
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
R97 C C1 SING N N 1
R97 C2 C1 DOUB Y N 2
R97 C2 S SING Y N 3
R97 C1 N SING Y N 4
R97 S C3 SING Y N 5
R97 N C3 DOUB Y N 6
R97 C3 C4 SING N N 7
R97 C4 C5 SING N N 8
R97 C5 C6 DOUB Y N 9
R97 C5 N1 SING Y N 10
R97 C6 C7 SING Y N 11
R97 N1 C9 DOUB Y N 12
R97 C7 C8 DOUB Y N 13
R97 C9 C8 SING Y N 14
R97 C4 H1 SING N N 15
R97 C4 H2 SING N N 16
R97 C6 H3 SING N N 17
R97 C7 H4 SING N N 18
R97 C8 H5 SING N N 19
R97 C9 H6 SING N N 20
R97 C H7 SING N N 21
R97 C H8 SING N N 22
R97 C H9 SING N N 23
R97 C2 H10 SING N N 24
#
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
R97 SMILES ACDLabs 12.01 C(c1ccccn1)c2nc(C)cs2
R97 InChI InChI 1.03 InChI=1S/C10H10N2S/c1-8-7-13-10(12-8)6-9-4-2-3-5-11-9/h2-5,7H,6H2,1H3
R97 InChIKey InChI 1.03 YKMZZWADKYKWAT-UHFFFAOYSA-N
R97 SMILES_CANONICAL CACTVS 3.385 Cc1csc(Cc2ccccn2)n1
R97 SMILES CACTVS 3.385 Cc1csc(Cc2ccccn2)n1
R97 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 Cc1csc(n1)Cc2ccccn2
R97 SMILES "OpenEye OEToolkits" 2.0.6 Cc1csc(n1)Cc2ccccn2
#
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
R97 "SYSTEMATIC NAME" ACDLabs 12.01 2-[(4-methyl-1,3-thiazol-2-yl)methyl]pyridine
R97 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 4-methyl-2-(pyridin-2-ylmethyl)-1,3-thiazole
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
R97 'Create component' 2020-02-10 RCSB
R97 'Modify model coordinates code' 2020-03-19 RCSB
R97 'Initial release' 2020-06-03 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
R97 C4 C 8.165 -1.500 1
R97 C5 C 9.464 -0.750 2
R97 C6 C 10.763 -1.500 3
R97 N1 N 9.464 0.750 4
R97 C7 C 12.062 -0.750 5
R97 C8 C 12.062 0.750 6
R97 C9 C 10.763 1.500 7
R97 C C 3.000 -0.402 8
R97 C1 C 4.492 -0.245 9
R97 N N 5.495 -1.360 10
R97 C3 C 6.866 -0.750 11
R97 S S 6.709 0.742 12
R97 C2 C 5.242 1.054 13
#
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
R97 C C1 SINGLE NONE 1
R97 C2 C1 DOUBLE NONE 2
R97 C2 S SINGLE NONE 3
R97 C1 N SINGLE NONE 4
R97 S C3 SINGLE NONE 5
R97 N C3 DOUBLE NONE 6
R97 C3 C4 SINGLE NONE 7
R97 C4 C5 SINGLE NONE 8
R97 C5 C6 DOUBLE NONE 9
R97 C5 N1 SINGLE NONE 10
R97 C6 C7 SINGLE NONE 11
R97 N1 C9 DOUBLE NONE 12
R97 C7 C8 DOUBLE NONE 13
R97 C9 C8 SINGLE NONE 14
#
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
R97 MurckoScaffold S1 scaffold c1ccc(Cc2nccs2)nc1 InChI=1S/C9H8N2S/c1-2-4-10-8(3-1)7-9-11-5-6-12-9/h1-6H,7H2 NKHIWQBJUKEBBH-UHFFFAOYSA-N
R97 pyridine F1 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
R97 thiazole F2 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
R97 C4 S1 1
R97 C5 S1 1
R97 C6 S1 1
R97 N1 S1 1
R97 C7 S1 1
R97 C8 S1 1
R97 C9 S1 1
R97 C1 S1 1
R97 N S1 1
R97 C3 S1 1
R97 S S1 1
R97 C2 S1 1
R97 C5 F1 1
R97 C6 F1 1
R97 C7 F1 1
R97 C8 F1 1
R97 C9 F1 1
R97 N1 F1 1
R97 C2 F2 1
R97 C1 F2 1
R97 N F2 1
R97 C3 F2 1
R97 S F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id R97
_pdbe_chem_comp_rdkit_properties.exactmw 190.056
_pdbe_chem_comp_rdkit_properties.amw 190.271
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 2
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 0
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 3
_pdbe_chem_comp_rdkit_properties.NumHBD 0
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 13
_pdbe_chem_comp_rdkit_properties.NumAtoms 23
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 3
_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 95.348
_pdbe_chem_comp_rdkit_properties.tpsa 25.780
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.273
_pdbe_chem_comp_rdkit_properties.CrippenMR 53.096
_pdbe_chem_comp_rdkit_properties.chi0v 7.119
_pdbe_chem_comp_rdkit_properties.chi1v 4.119
_pdbe_chem_comp_rdkit_properties.chi2v 1.832
_pdbe_chem_comp_rdkit_properties.chi3v 1.832
_pdbe_chem_comp_rdkit_properties.chi4v 1.212
_pdbe_chem_comp_rdkit_properties.chi0n 16.303
_pdbe_chem_comp_rdkit_properties.chi1n 8.303
_pdbe_chem_comp_rdkit_properties.chi2n 1.150
_pdbe_chem_comp_rdkit_properties.chi3n 1.150
_pdbe_chem_comp_rdkit_properties.chi4n 0.688
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.220
_pdbe_chem_comp_rdkit_properties.kappa1 2.638
_pdbe_chem_comp_rdkit_properties.kappa2 3.662
_pdbe_chem_comp_rdkit_properties.kappa3 2.124
_pdbe_chem_comp_rdkit_properties.Phi 0.743
#
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
R97 UniChem ZINC ZINC000039148305
R97 UniChem Nikkaji J902.593F
R97 UniChem 'PubChem TPHARMA' 15687268
R97 UniChem PubChem 10655303
R97 UniChem Mcule MCULE-2878896776
#
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
R97 C4 -0.325 -1.711 0.640 ETKDGv3 1
R97 C5 -1.486 -0.860 0.219 ETKDGv3 2
R97 C6 -1.667 -0.527 -1.071 ETKDGv3 3
R97 N1 -2.382 -0.342 1.221 ETKDGv3 4
R97 C7 -2.798 0.345 -1.442 ETKDGv3 5
R97 C8 -3.621 0.807 -0.495 ETKDGv3 6
R97 C9 -3.382 0.433 0.913 ETKDGv3 7
R97 C 3.844 0.797 -0.523 ETKDGv3 8
R97 C1 2.766 0.321 0.395 ETKDGv3 9
R97 N 1.735 -0.576 -0.053 ETKDGv3 10
R97 C3 0.877 -0.856 0.876 ETKDGv3 11
R97 S 1.221 -0.004 2.400 ETKDGv3 12
R97 C2 2.658 0.740 1.658 ETKDGv3 13
R97 H1 -0.100 -2.478 -0.133 ETKDGv3 14
R97 H2 -0.580 -2.248 1.579 ETKDGv3 15
R97 H3 -0.994 -0.886 -1.840 ETKDGv3 16
R97 H4 -2.957 0.613 -2.479 ETKDGv3 17
R97 H5 -4.452 1.449 -0.755 ETKDGv3 18
R97 H6 -4.036 0.804 1.690 ETKDGv3 19
R97 H7 4.830 0.742 -0.015 ETKDGv3 20
R97 H8 3.876 0.161 -1.432 ETKDGv3 21
R97 H9 3.641 1.846 -0.822 ETKDGv3 22
R97 H10 3.333 1.431 2.144 ETKDGv3 23
#