data_M50
#
_chem_comp.id M50
_chem_comp.name 2-(3-chlorophenyl)-N-(5-methylpyridazin-4-yl)acetamide
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C13 H12 Cl N3 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 261.707
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code M50
_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 7GDJ
_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
M50 N1 N1 N 0 1 Y N N N N N 7.086 0.582 17.284 -3.861 0.422 -1.918 N1 M50 1
M50 C4 C1 C 0 1 Y N N N N N 7.417 0.087 19.604 -2.874 0.148 0.191 C4 M50 2
M50 C5 C2 C 0 1 N N N N N N 9.368 -0.265 21.088 -0.559 0.472 0.616 C5 M50 3
M50 C6 C3 C 0 1 N N N N N N 9.878 -1.160 22.202 0.587 0.634 1.581 C6 M50 4
M50 C7 C4 C 0 1 Y N N N N N 11.353 -0.923 22.439 1.883 0.709 0.815 C7 M50 5
M50 C8 C5 C 0 1 Y N N N N N 11.783 -0.057 23.437 2.368 1.933 0.395 C8 M50 6
M50 C10 C6 C 0 1 Y N N N N N 14.054 -0.223 22.659 4.260 0.847 -0.591 C10 M50 7
M50 CL CL1 CL 0 0 N N N N N N 14.811 -1.903 20.684 4.663 -1.830 -0.520 CL M50 8
M50 C11 C7 C 0 1 Y N N N N N 13.630 -1.125 21.707 3.779 -0.378 -0.165 C11 M50 9
M50 C9 C8 C 0 1 Y N N N N N 13.119 0.295 23.544 3.556 2.002 -0.308 C9 M50 10
M50 C12 C9 C 0 1 Y N N N N N 12.299 -1.478 21.580 2.589 -0.447 0.538 C12 M50 11
M50 O O1 O 0 1 N N N N N N 10.047 0.655 20.638 -0.344 0.423 -0.577 O M50 12
M50 N2 N2 N 0 1 N N N N N N 8.127 -0.565 20.644 -1.822 0.383 1.078 N2 M50 13
M50 C1 C10 C 0 1 Y N N N N N 6.279 0.861 19.904 -3.983 -0.610 0.574 C1 M50 14
M50 C C11 C 0 1 N N N N N N 5.818 1.084 21.322 -4.082 -1.199 1.957 C M50 15
M50 C3 C12 C 0 1 Y N N N N N 7.765 -0.001 18.259 -2.852 0.661 -1.104 C3 M50 16
M50 N N3 N 0 1 Y N N N N N 5.977 1.321 17.581 -4.878 -0.274 -1.563 N M50 17
M50 C2 C13 C 0 1 Y N N N N N 5.593 1.450 18.846 -4.988 -0.801 -0.357 C2 M50 18
M50 H1 H1 H 0 1 N N N N N N 9.323 -0.940 23.126 0.452 1.550 2.156 H1 M50 19
M50 H2 H2 H 0 1 N N N N N N 9.721 -2.212 21.922 0.614 -0.219 2.259 H2 M50 20
M50 H3 H3 H 0 1 N N N N N N 11.067 0.347 24.138 1.817 2.836 0.615 H3 M50 21
M50 H4 H4 H 0 1 N N N N N N 15.091 0.074 22.715 5.189 0.901 -1.140 H4 M50 22
M50 H5 H5 H 0 1 N N N N N N 13.434 0.976 24.320 3.934 2.959 -0.637 H5 M50 23
M50 H6 H6 H 0 1 N N N N N N 11.994 -2.181 20.818 2.213 -1.403 0.870 H6 M50 24
M50 H7 H7 H 0 1 N N N N N N 7.661 -1.326 21.096 -1.999 0.483 2.026 H7 M50 25
M50 H8 H8 H 0 1 N N N N N N 5.103 0.297 21.604 -4.575 -0.488 2.621 H8 M50 26
M50 H9 H9 H 0 1 N N N N N N 6.685 1.051 21.999 -4.662 -2.121 1.919 H9 M50 27
M50 H10 H10 H 0 1 N N N N N N 5.330 2.067 21.399 -3.082 -1.414 2.334 H10 M50 28
M50 H11 H11 H 0 1 N N N N N N 8.639 -0.578 17.996 -2.013 1.251 -1.439 H11 M50 29
M50 H12 H12 H 0 1 N N N N N N 4.712 2.036 19.062 -5.861 -1.382 -0.098 H12 M50 30
#
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
M50 N1 N DOUB Y N 1
M50 N1 C3 SING Y N 2
M50 N C2 SING Y N 3
M50 C3 C4 DOUB Y N 4
M50 C2 C1 DOUB Y N 5
M50 C4 C1 SING Y N 6
M50 C4 N2 SING N N 7
M50 C1 C SING N N 8
M50 O C5 DOUB N N 9
M50 N2 C5 SING N N 10
M50 CL C11 SING N N 11
M50 C5 C6 SING N N 12
M50 C12 C11 DOUB Y N 13
M50 C12 C7 SING Y N 14
M50 C11 C10 SING Y N 15
M50 C6 C7 SING N N 16
M50 C7 C8 DOUB Y N 17
M50 C10 C9 DOUB Y N 18
M50 C8 C9 SING Y N 19
M50 C6 H1 SING N N 20
M50 C6 H2 SING N N 21
M50 C8 H3 SING N N 22
M50 C10 H4 SING N N 23
M50 C9 H5 SING N N 24
M50 C12 H6 SING N N 25
M50 N2 H7 SING N N 26
M50 C H8 SING N N 27
M50 C H9 SING N N 28
M50 C H10 SING N N 29
M50 C3 H11 SING N N 30
M50 C2 H12 SING N N 31
#
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
M50 SMILES ACDLabs 12.01 Cc1cnncc1NC(=O)Cc1cccc(Cl)c1
M50 InChI InChI 1.06 InChI=1S/C13H12ClN3O/c1-9-7-15-16-8-12(9)17-13(18)6-10-3-2-4-11(14)5-10/h2-5,7-8H,6H2,1H3,(H,15,17,18)
M50 InChIKey InChI 1.06 VUGOQWLHGHMVIW-UHFFFAOYSA-N
M50 SMILES_CANONICAL CACTVS 3.385 Cc1cnncc1NC(=O)Cc2cccc(Cl)c2
M50 SMILES CACTVS 3.385 Cc1cnncc1NC(=O)Cc2cccc(Cl)c2
M50 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 Cc1cnncc1NC(=O)Cc2cccc(c2)Cl
M50 SMILES "OpenEye OEToolkits" 2.0.7 Cc1cnncc1NC(=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
M50 "SYSTEMATIC NAME" ACDLabs 12.01 2-(3-chlorophenyl)-N-(5-methylpyridazin-4-yl)acetamide
M50 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 2-(3-chlorophenyl)-~{N}-(5-methylpyridazin-4-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
M50 'Create component' 2023-08-15 RCSB
M50 'Initial release' 2023-11-08 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
M50 N1 N 6.897 -4.125 1
M50 C4 C 5.598 -1.875 2
M50 C5 C 6.897 0.375 3
M50 C6 C 6.897 1.875 4
M50 C7 C 8.196 2.625 5
M50 C8 C 8.196 4.125 6
M50 C10 C 10.794 4.125 7
M50 CL Cl 12.093 1.875 8
M50 C11 C 10.794 2.625 9
M50 C9 C 9.495 4.875 10
M50 C12 C 9.495 1.875 11
M50 O O 8.196 -0.375 12
M50 N2 N 5.598 -0.375 13
M50 C1 C 4.299 -2.625 14
M50 C C 3.000 -1.875 15
M50 C3 C 6.897 -2.625 16
M50 N N 5.598 -4.875 17
M50 C2 C 4.299 -4.125 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
M50 N1 N DOUBLE NONE 1
M50 N1 C3 SINGLE NONE 2
M50 N C2 SINGLE NONE 3
M50 C3 C4 DOUBLE NONE 4
M50 C2 C1 DOUBLE NONE 5
M50 C4 C1 SINGLE NONE 6
M50 C4 N2 SINGLE NONE 7
M50 C1 C SINGLE NONE 8
M50 O C5 DOUBLE NONE 9
M50 N2 C5 SINGLE NONE 10
M50 CL C11 SINGLE NONE 11
M50 C5 C6 SINGLE NONE 12
M50 C12 C11 DOUBLE NONE 13
M50 C12 C7 SINGLE NONE 14
M50 C11 C10 SINGLE NONE 15
M50 C6 C7 SINGLE NONE 16
M50 C7 C8 DOUBLE NONE 17
M50 C10 C9 DOUBLE NONE 18
M50 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
M50 MurckoScaffold S1 scaffold O=C(Cc1ccccc1)Nc1ccnnc1 InChI=1S/C12H11N3O/c16-12(8-10-4-2-1-3-5-10)15-11-6-7-13-14-9-11/h1-7,9H,8H2,(H,13,15,16) BKNOHSLTSRGECN-UHFFFAOYSA-N
M50 amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
M50 phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
M50 pyridazine F3 fragment c1ccnnc1 InChI=1S/C4H4N2/c1-2-4-6-5-3-1/h1-4H PBMFSQRYOILNGV-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
M50 N1 S1 1
M50 C4 S1 1
M50 C5 S1 1
M50 C6 S1 1
M50 C7 S1 1
M50 C8 S1 1
M50 C10 S1 1
M50 C11 S1 1
M50 C9 S1 1
M50 C12 S1 1
M50 O S1 1
M50 N2 S1 1
M50 C1 S1 1
M50 C3 S1 1
M50 N S1 1
M50 C2 S1 1
M50 N2 F1 1
M50 C5 F1 1
M50 O F1 1
M50 C6 F1 1
M50 C7 F2 1
M50 C12 F2 1
M50 C11 F2 1
M50 C10 F2 1
M50 C9 F2 1
M50 C8 F2 1
M50 C4 F3 1
M50 C3 F3 1
M50 N1 F3 1
M50 N F3 1
M50 C2 F3 1
M50 C1 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id M50
_pdbe_chem_comp_rdkit_properties.exactmw 261.067
_pdbe_chem_comp_rdkit_properties.amw 261.712
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_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 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 18
_pdbe_chem_comp_rdkit_properties.NumAtoms 30
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.154
_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 126.923
_pdbe_chem_comp_rdkit_properties.tpsa 54.880
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.130
_pdbe_chem_comp_rdkit_properties.CrippenMR 69.199
_pdbe_chem_comp_rdkit_properties.chi0v 9.384
_pdbe_chem_comp_rdkit_properties.chi1v 4.865
_pdbe_chem_comp_rdkit_properties.chi2v 1.833
_pdbe_chem_comp_rdkit_properties.chi3v 1.833
_pdbe_chem_comp_rdkit_properties.chi4v 1.099
_pdbe_chem_comp_rdkit_properties.chi0n 20.628
_pdbe_chem_comp_rdkit_properties.chi1n 10.435
_pdbe_chem_comp_rdkit_properties.chi2n 1.644
_pdbe_chem_comp_rdkit_properties.chi3n 1.644
_pdbe_chem_comp_rdkit_properties.chi4n 0.957
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.940
_pdbe_chem_comp_rdkit_properties.kappa1 4.313
_pdbe_chem_comp_rdkit_properties.kappa2 5.599
_pdbe_chem_comp_rdkit_properties.kappa3 3.275
_pdbe_chem_comp_rdkit_properties.Phi 1.342
#
_pdbe_chem_comp_external_mappings.comp_id M50
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PubChem
_pdbe_chem_comp_external_mappings.resource_id 154862921
#
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
M50 N1 2.888 1.496 -2.542 ETKDGv3 1
M50 C4 2.021 0.224 -0.693 ETKDGv3 2
M50 C5 0.065 -1.390 -0.678 ETKDGv3 3
M50 C6 -1.156 -1.882 0.036 ETKDGv3 4
M50 C7 -2.228 -0.829 0.003 ETKDGv3 5
M50 C8 -2.345 0.067 1.000 ETKDGv3 6
M50 C10 -4.189 1.203 -0.126 ETKDGv3 7
M50 CL -5.117 0.353 -2.627 ETKDGv3 8
M50 C11 -4.056 0.234 -1.235 ETKDGv3 9
M50 C9 -3.376 1.124 0.934 ETKDGv3 10
M50 C12 -3.125 -0.728 -1.175 ETKDGv3 11
M50 O 0.291 -1.776 -1.857 ETKDGv3 12
M50 N2 0.962 -0.481 -0.021 ETKDGv3 13
M50 C1 3.325 0.451 -0.013 ETKDGv3 14
M50 C 3.580 -0.092 1.365 ETKDGv3 15
M50 C3 1.834 0.751 -1.915 ETKDGv3 16
M50 N 4.006 1.691 -1.957 ETKDGv3 17
M50 C2 4.264 1.173 -0.644 ETKDGv3 18
M50 H1 -0.895 -2.147 1.084 ETKDGv3 19
M50 H2 -1.530 -2.811 -0.448 ETKDGv3 20
M50 H3 -1.686 0.029 1.859 ETKDGv3 21
M50 H4 -4.942 1.979 -0.173 ETKDGv3 22
M50 H5 -3.470 1.835 1.744 ETKDGv3 23
M50 H6 -3.024 -1.434 -1.990 ETKDGv3 24
M50 H7 0.870 -0.368 1.013 ETKDGv3 25
M50 H8 4.660 -0.061 1.625 ETKDGv3 26
M50 H9 3.018 0.510 2.110 ETKDGv3 27
M50 H10 3.247 -1.149 1.423 ETKDGv3 28
M50 H11 0.885 0.655 -2.426 ETKDGv3 29
M50 H12 5.222 1.371 -0.179 ETKDGv3 30
#