data_M7X
#
_chem_comp.id M7X
_chem_comp.name 2-(3-chlorophenyl)-N-(5-methylpyridin-3-yl)acetamide
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C14 H13 Cl N2 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2023-08-15
_chem_comp.pdbx_modified_date 2023-11-03
_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 260.719
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code M7X
_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 7GDE
_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
M7X N1 N1 N 0 1 N N N N N N 8.157 -0.856 20.408 1.706 -1.221 0.944 N1 M7X 1
M7X C4 C1 C 0 1 Y N N N N N 7.395 -0.183 19.430 2.857 -0.572 0.485 C4 M7X 2
M7X C5 C2 C 0 1 N N N N N N 9.283 -0.396 20.982 0.503 -0.909 0.424 C5 M7X 3
M7X C6 C3 C 0 1 N N N N N N 9.780 -1.213 22.157 -0.721 -1.685 0.836 C6 M7X 4
M7X C7 C4 C 0 1 Y N N N N N 11.250 -0.940 22.376 -1.928 -1.141 0.115 C7 M7X 5
M7X C8 C5 C 0 1 Y N N N N N 11.678 -0.063 23.363 -2.293 -1.664 -1.111 C8 M7X 6
M7X C10 C6 C 0 1 Y N N N N N 13.956 -0.283 22.621 -4.141 -0.145 -1.209 C10 M7X 7
M7X C13 C7 C 0 1 Y N N N N N 6.323 0.612 19.820 2.810 0.769 0.109 C13 M7X 8
M7X CL CL1 CL 0 0 N N N N N N 14.687 -1.928 20.611 -4.709 1.658 0.730 CL M7X 9
M7X C11 C8 C 0 1 Y N N N N N 13.525 -1.177 21.666 -3.779 0.375 0.021 C11 M7X 10
M7X C9 C9 C 0 1 Y N N N N N 13.022 0.259 23.490 -3.400 -1.166 -1.773 C9 M7X 11
M7X C12 C10 C 0 1 Y N N N N N 12.194 -1.515 21.535 -2.671 -0.124 0.683 C12 M7X 12
M7X O O1 O 0 1 N N N N N N 9.856 0.625 20.620 0.405 -0.004 -0.377 O M7X 13
M7X C3 C11 C 0 1 Y N N N N N 7.724 -0.209 18.080 4.065 -1.252 0.403 C3 M7X 14
M7X N N2 N 0 1 Y N N N N N 7.059 0.481 17.151 5.153 -0.641 -0.023 N M7X 15
M7X C2 C12 C 0 1 Y N N N N N 6.030 1.237 17.558 5.141 0.626 -0.387 C2 M7X 16
M7X C1 C13 C 0 1 Y N N N N N 5.622 1.352 18.881 3.975 1.368 -0.340 C1 M7X 17
M7X C C14 C 0 1 N N N N N N 4.475 2.248 19.285 3.976 2.816 -0.758 C M7X 18
M7X H1 H1 H 0 1 N N N N N N 7.831 -1.755 20.700 1.775 -1.899 1.635 H1 M7X 19
M7X H2 H2 H 0 1 N N N N N N 9.217 -0.936 23.060 -0.588 -2.736 0.581 H2 M7X 20
M7X H3 H3 H 0 1 N N N N N N 9.633 -2.283 21.948 -0.867 -1.589 1.912 H3 M7X 21
M7X H4 H4 H 0 1 N N N N N N 10.958 0.373 24.039 -1.714 -2.462 -1.552 H4 M7X 22
M7X H5 H5 H 0 1 N N N N N N 14.999 -0.010 22.691 -5.006 0.244 -1.726 H5 M7X 23
M7X H6 H6 H 0 1 N N N N N N 6.035 0.653 20.860 1.887 1.327 0.164 H6 M7X 24
M7X H7 H7 H 0 1 N N N N N N 13.342 0.935 24.269 -3.685 -1.574 -2.731 H7 M7X 25
M7X H8 H8 H 0 1 N N N N N N 11.887 -2.225 20.781 -2.388 0.281 1.643 H8 M7X 26
M7X H9 H9 H 0 1 N N N N N N 8.559 -0.818 17.767 4.114 -2.291 0.692 H9 M7X 27
M7X H10 H10 H 0 1 N N N N N N 5.483 1.792 16.810 6.054 1.090 -0.731 H10 M7X 28
M7X H11 H11 H 0 1 N N N N N N 3.535 1.678 19.251 3.759 2.886 -1.824 H11 M7X 29
M7X H12 H12 H 0 1 N N N N N N 4.642 2.619 20.307 3.214 3.356 -0.196 H12 M7X 30
M7X H13 H13 H 0 1 N N N N N N 4.413 3.099 18.591 4.954 3.252 -0.557 H13 M7X 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
M7X N C2 DOUB Y N 1
M7X N C3 SING Y N 2
M7X C2 C1 SING Y N 3
M7X C3 C4 DOUB Y N 4
M7X C1 C SING N N 5
M7X C1 C13 DOUB Y N 6
M7X C4 C13 SING Y N 7
M7X C4 N1 SING N N 8
M7X N1 C5 SING N N 9
M7X CL C11 SING N N 10
M7X O C5 DOUB N N 11
M7X C5 C6 SING N N 12
M7X C12 C11 DOUB Y N 13
M7X C12 C7 SING Y N 14
M7X C11 C10 SING Y N 15
M7X C6 C7 SING N N 16
M7X C7 C8 DOUB Y N 17
M7X C10 C9 DOUB Y N 18
M7X C8 C9 SING Y N 19
M7X N1 H1 SING N N 20
M7X C6 H2 SING N N 21
M7X C6 H3 SING N N 22
M7X C8 H4 SING N N 23
M7X C10 H5 SING N N 24
M7X C13 H6 SING N N 25
M7X C9 H7 SING N N 26
M7X C12 H8 SING N N 27
M7X C3 H9 SING N N 28
M7X C2 H10 SING N N 29
M7X C H11 SING N N 30
M7X C H12 SING N N 31
M7X C H13 SING N N 32
#
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
M7X SMILES ACDLabs 12.01 O=C(Nc1cc(C)cnc1)Cc1cccc(Cl)c1
M7X InChI InChI 1.06 InChI=1S/C14H13ClN2O/c1-10-5-13(9-16-8-10)17-14(18)7-11-3-2-4-12(15)6-11/h2-6,8-9H,7H2,1H3,(H,17,18)
M7X InChIKey InChI 1.06 BMYRQBMWNFDONV-UHFFFAOYSA-N
M7X SMILES_CANONICAL CACTVS 3.385 Cc1cncc(NC(=O)Cc2cccc(Cl)c2)c1
M7X SMILES CACTVS 3.385 Cc1cncc(NC(=O)Cc2cccc(Cl)c2)c1
M7X SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 Cc1cc(cnc1)NC(=O)Cc2cccc(c2)Cl
M7X SMILES "OpenEye OEToolkits" 2.0.7 Cc1cc(cnc1)NC(=O)Cc2cccc(c2)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
M7X "SYSTEMATIC NAME" ACDLabs 12.01 2-(3-chlorophenyl)-N-(5-methylpyridin-3-yl)acetamide
M7X "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 2-(3-chlorophenyl)-~{N}-(5-methylpyridin-3-yl)ethanamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
M7X 'Create component' 2023-08-15 RCSB
M7X 'Initial release' 2023-11-08 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
M7X N1 N 5.598 -0.375 1
M7X C4 C 5.598 -1.875 2
M7X C5 C 6.897 0.375 3
M7X C6 C 6.897 1.875 4
M7X C7 C 8.196 2.625 5
M7X C8 C 8.196 4.125 6
M7X C10 C 10.794 4.125 7
M7X C13 C 4.299 -2.625 8
M7X CL Cl 12.093 1.875 9
M7X C11 C 10.794 2.625 10
M7X C9 C 9.495 4.875 11
M7X C12 C 9.495 1.875 12
M7X O O 8.196 -0.375 13
M7X C3 C 6.897 -2.625 14
M7X N N 6.897 -4.125 15
M7X C2 C 5.598 -4.875 16
M7X C1 C 4.299 -4.125 17
M7X C C 3.000 -4.875 18
#
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
M7X N C2 DOUBLE NONE 1
M7X N C3 SINGLE NONE 2
M7X C2 C1 SINGLE NONE 3
M7X C3 C4 DOUBLE NONE 4
M7X C1 C SINGLE NONE 5
M7X C1 C13 DOUBLE NONE 6
M7X C4 C13 SINGLE NONE 7
M7X C4 N1 SINGLE NONE 8
M7X N1 C5 SINGLE NONE 9
M7X CL C11 SINGLE NONE 10
M7X O C5 DOUBLE NONE 11
M7X C5 C6 SINGLE NONE 12
M7X C12 C11 DOUBLE NONE 13
M7X C12 C7 SINGLE NONE 14
M7X C11 C10 SINGLE NONE 15
M7X C6 C7 SINGLE NONE 16
M7X C7 C8 DOUBLE NONE 17
M7X C10 C9 DOUBLE NONE 18
M7X C8 C9 SINGLE NONE 19
#
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
M7X MurckoScaffold S1 scaffold O=C(Cc1ccccc1)Nc1cccnc1 InChI=1S/C13H12N2O/c16-13(9-11-5-2-1-3-6-11)15-12-7-4-8-14-10-12/h1-8,10H,9H2,(H,15,16) NYGIAKBYRXFSEN-UHFFFAOYSA-N
M7X amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
M7X phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
M7X pyridine F3 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
M7X N1 S1 1
M7X C4 S1 1
M7X C5 S1 1
M7X C6 S1 1
M7X C7 S1 1
M7X C8 S1 1
M7X C10 S1 1
M7X C13 S1 1
M7X C11 S1 1
M7X C9 S1 1
M7X C12 S1 1
M7X O S1 1
M7X C3 S1 1
M7X N S1 1
M7X C2 S1 1
M7X C1 S1 1
M7X N1 F1 1
M7X C5 F1 1
M7X O F1 1
M7X C6 F1 1
M7X C7 F2 1
M7X C12 F2 1
M7X C11 F2 1
M7X C10 F2 1
M7X C9 F2 1
M7X C8 F2 1
M7X C3 F3 1
M7X C4 F3 1
M7X C13 F3 1
M7X C1 F3 1
M7X C2 F3 1
M7X N F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id M7X
_pdbe_chem_comp_rdkit_properties.exactmw 260.072
_pdbe_chem_comp_rdkit_properties.amw 260.724
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 4
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 18
_pdbe_chem_comp_rdkit_properties.NumAtoms 31
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.143
_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 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 129.140
_pdbe_chem_comp_rdkit_properties.tpsa 41.990
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.735
_pdbe_chem_comp_rdkit_properties.CrippenMR 71.404
_pdbe_chem_comp_rdkit_properties.chi0v 9.437
_pdbe_chem_comp_rdkit_properties.chi1v 4.915
_pdbe_chem_comp_rdkit_properties.chi2v 1.802
_pdbe_chem_comp_rdkit_properties.chi3v 1.802
_pdbe_chem_comp_rdkit_properties.chi4v 1.126
_pdbe_chem_comp_rdkit_properties.chi0n 21.681
_pdbe_chem_comp_rdkit_properties.chi1n 10.985
_pdbe_chem_comp_rdkit_properties.chi2n 1.613
_pdbe_chem_comp_rdkit_properties.chi3n 1.613
_pdbe_chem_comp_rdkit_properties.chi4n 0.984
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.870
_pdbe_chem_comp_rdkit_properties.kappa1 4.067
_pdbe_chem_comp_rdkit_properties.kappa2 5.646
_pdbe_chem_comp_rdkit_properties.kappa3 3.568
_pdbe_chem_comp_rdkit_properties.Phi 1.276
#
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
M7X UniChem ChEMBL CHEMBL4784276
M7X UniChem PDBe M7X
M7X UniChem PubChem 110727314
M7X UniChem Mcule MCULE-5462790075
#
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
M7X N1 0.655 -0.765 -0.574 ETKDGv3 1
M7X C4 1.622 -0.259 0.362 ETKDGv3 2
M7X C5 -0.241 -1.855 -0.304 ETKDGv3 3
M7X C6 -1.395 -2.119 -1.221 ETKDGv3 4
M7X C7 -2.512 -1.156 -0.928 ETKDGv3 5
M7X C8 -2.605 0.013 -1.587 ETKDGv3 6
M7X C10 -4.564 0.681 -0.294 ETKDGv3 7
M7X C13 2.893 0.307 -0.142 ETKDGv3 8
M7X CL -5.609 -0.956 1.722 ETKDGv3 9
M7X C11 -4.459 -0.593 0.449 ETKDGv3 10
M7X C9 -3.683 0.968 -1.260 ETKDGv3 11
M7X C12 -3.485 -1.463 0.150 ETKDGv3 12
M7X O -0.067 -2.597 0.701 ETKDGv3 13
M7X C3 1.376 -0.216 1.685 ETKDGv3 14
M7X N 2.352 0.336 2.584 ETKDGv3 15
M7X C2 3.485 0.814 2.158 ETKDGv3 16
M7X C1 3.800 0.803 0.713 ETKDGv3 17
M7X C 5.077 1.406 0.210 ETKDGv3 18
M7X H1 0.656 -0.363 -1.539 ETKDGv3 19
M7X H2 -1.061 -2.026 -2.278 ETKDGv3 20
M7X H3 -1.755 -3.162 -1.086 ETKDGv3 21
M7X H4 -1.892 0.270 -2.361 ETKDGv3 22
M7X H5 -5.352 1.384 -0.054 ETKDGv3 23
M7X H6 3.086 0.311 -1.209 ETKDGv3 24
M7X H7 -3.756 1.903 -1.801 ETKDGv3 25
M7X H8 -3.404 -2.394 0.698 ETKDGv3 26
M7X H9 0.434 -0.559 2.089 ETKDGv3 27
M7X H10 4.191 1.223 2.869 ETKDGv3 28
M7X H11 5.488 0.805 -0.629 ETKDGv3 29
M7X H12 5.839 1.438 1.018 ETKDGv3 30
M7X H13 4.884 2.441 -0.143 ETKDGv3 31
#