data_7M5
#
_chem_comp.id 7M5
_chem_comp.name 4-pyridin-3-ylpyrrolo[1,2-a]quinoxaline
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C16 H11 N3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2016-11-18
_chem_comp.pdbx_modified_date 2016-12-22
_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 245.279
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 7M5
_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 5MFP
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
#
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
7M5 C11 C1 C 0 1 Y N N N N N 114.716 27.991 -23.121 1.573 1.130 0.069 C11 7M5 1
7M5 C12 C2 C 0 1 Y N N N N N 114.436 28.856 -24.200 2.377 2.276 0.137 C12 7M5 2
7M5 C14 C3 C 0 1 Y N N N N N 114.082 30.176 -23.928 3.747 2.155 0.134 C14 7M5 3
7M5 C16 C4 C 0 1 Y N N N N N 113.720 30.548 -22.643 4.342 0.904 0.063 C16 7M5 4
7M5 C18 C5 C 0 1 Y N N N N N 114.097 29.760 -21.556 3.567 -0.235 -0.005 C18 7M5 5
7M5 C20 C6 C 0 1 Y N N N N N 114.532 28.452 -21.795 2.182 -0.134 -0.002 C20 7M5 6
7M5 C21 C7 C 0 1 Y N N N N N 115.871 24.554 -22.781 -2.032 0.363 0.027 C21 7M5 7
7M5 C22 C8 C 0 1 Y N N N N N 115.111 23.479 -22.341 -2.858 -0.623 0.578 C22 7M5 8
7M5 N28 N1 N 0 1 Y N N N N N 117.245 23.057 -24.074 -3.926 1.659 -0.505 N28 7M5 9
7M5 C29 C9 C 0 1 Y N N N N N 116.921 24.300 -23.655 -2.618 1.509 -0.511 C29 7M5 10
7M5 C26 C10 C 0 1 Y N N N N N 116.499 22.051 -23.602 -4.730 0.744 0.003 C26 7M5 11
7M5 C24 C11 C 0 1 Y N N N N N 115.443 22.227 -22.722 -4.227 -0.418 0.560 C24 7M5 12
7M5 C09 C12 C 0 1 Y N N N N N 115.485 25.913 -22.401 -0.561 0.196 0.020 C09 7M5 13
7M5 C06 C13 C 0 1 Y N N N N N 115.302 26.248 -21.017 0.023 -1.144 -0.065 C06 7M5 14
7M5 C07 C14 C 0 1 Y N N N N N 115.529 25.624 -19.865 -0.522 -2.406 -0.148 C07 7M5 15
7M5 C02 C15 C 0 1 Y N N N N N 115.176 26.438 -18.671 0.544 -3.311 -0.204 C02 7M5 16
7M5 C03 C16 C 0 1 Y N N N N N 114.766 27.762 -19.292 1.697 -2.601 -0.145 C03 7M5 17
7M5 N05 N2 N 0 1 Y N N N N N 114.852 27.559 -20.747 1.397 -1.280 -0.070 N05 7M5 18
7M5 N10 N3 N 0 1 Y N N N N N 115.175 26.708 -23.391 0.222 1.251 0.079 N10 7M5 19
7M5 H1 H1 H 0 1 N N N N N N 114.495 28.501 -25.218 1.921 3.253 0.192 H1 7M5 20
7M5 H2 H2 H 0 1 N N N N N N 114.090 30.910 -24.720 4.364 3.040 0.186 H2 7M5 21
7M5 H3 H3 H 0 1 N N N N N N 113.146 31.449 -22.483 5.419 0.821 0.060 H3 7M5 22
7M5 H4 H4 H 0 1 N N N N N N 114.054 30.151 -20.550 4.037 -1.206 -0.060 H4 7M5 23
7M5 H5 H5 H 0 1 N N N N N N 114.259 23.643 -21.698 -2.438 -1.520 1.007 H5 7M5 24
7M5 H6 H6 H 0 1 N N N N N N 117.505 25.134 -24.016 -1.993 2.280 -0.937 H6 7M5 25
7M5 H7 H7 H 0 1 N N N N N N 116.733 21.047 -23.925 -5.797 0.907 -0.012 H7 7M5 26
7M5 H8 H8 H 0 1 N N N N N N 114.894 21.376 -22.347 -4.895 -1.159 0.973 H8 7M5 27
7M5 H9 H9 H 0 1 N N N N N N 115.931 24.623 -19.802 -1.573 -2.652 -0.167 H9 7M5 28
7M5 H10 H10 H 0 1 N N N N N N 115.204 26.159 -17.628 0.462 -4.386 -0.273 H10 7M5 29
7M5 H11 H11 H 0 1 N N N N N N 114.473 28.663 -18.774 2.693 -3.018 -0.167 H11 7M5 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
7M5 C12 C14 DOUB Y N 1
7M5 C12 C11 SING Y N 2
7M5 N28 C29 DOUB Y N 3
7M5 N28 C26 SING Y N 4
7M5 C14 C16 SING Y N 5
7M5 C29 C21 SING Y N 6
7M5 C26 C24 DOUB Y N 7
7M5 N10 C11 SING Y N 8
7M5 N10 C09 DOUB Y N 9
7M5 C11 C20 DOUB Y N 10
7M5 C21 C09 SING N N 11
7M5 C21 C22 DOUB Y N 12
7M5 C24 C22 SING Y N 13
7M5 C16 C18 DOUB Y N 14
7M5 C09 C06 SING Y N 15
7M5 C20 C18 SING Y N 16
7M5 C20 N05 SING Y N 17
7M5 C06 N05 SING Y N 18
7M5 C06 C07 DOUB Y N 19
7M5 N05 C03 SING Y N 20
7M5 C07 C02 SING Y N 21
7M5 C03 C02 DOUB Y N 22
7M5 C12 H1 SING N N 23
7M5 C14 H2 SING N N 24
7M5 C16 H3 SING N N 25
7M5 C18 H4 SING N N 26
7M5 C22 H5 SING N N 27
7M5 C29 H6 SING N N 28
7M5 C26 H7 SING N N 29
7M5 C24 H8 SING N N 30
7M5 C07 H9 SING N N 31
7M5 C02 H10 SING N N 32
7M5 C03 H11 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
7M5 InChI InChI 1.03 InChI=1S/C16H11N3/c1-2-7-14-13(6-1)18-16(12-5-3-9-17-11-12)15-8-4-10-19(14)15/h1-11H
7M5 InChIKey InChI 1.03 YYLFSLFSCWVKLI-UHFFFAOYSA-N
7M5 SMILES_CANONICAL CACTVS 3.385 c1ccc2n3cccc3c(nc2c1)c4cccnc4
7M5 SMILES CACTVS 3.385 c1ccc2n3cccc3c(nc2c1)c4cccnc4
7M5 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 c1ccc2c(c1)nc(c3n2ccc3)c4cccnc4
7M5 SMILES "OpenEye OEToolkits" 2.0.6 c1ccc2c(c1)nc(c3n2ccc3)c4cccnc4
#
_pdbx_chem_comp_identifier.comp_id 7M5
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.6
_pdbx_chem_comp_identifier.identifier 4-pyridin-3-ylpyrrolo[1,2-a]quinoxaline
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
7M5 'Create component' 2016-11-18 EBI
7M5 'Initial release' 2016-12-28 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
7M5 C11 C 7.893 1.823 1
7M5 C12 C 9.258 2.583 2
7M5 C14 C 9.270 4.146 3
7M5 C16 C 7.917 4.927 4
7M5 C18 C 6.570 4.135 5
7M5 C20 C 6.594 2.573 6
7M5 C21 C 6.594 -1.927 7
7M5 C22 C 7.893 -2.677 8
7M5 N28 N 5.295 -4.177 9
7M5 C29 C 5.295 -2.677 10
7M5 C26 C 6.594 -4.927 11
7M5 C24 C 7.893 -4.177 12
7M5 C09 C 6.594 -0.427 13
7M5 C06 C 5.295 0.323 14
7M5 C07 C 3.875 -0.134 15
7M5 C02 C 3.000 1.073 16
7M5 C03 C 3.875 2.280 17
7M5 N05 N 5.295 1.823 18
7M5 N10 N 7.893 0.323 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
7M5 C12 C14 DOUBLE NONE 1
7M5 C12 C11 SINGLE NONE 2
7M5 N28 C29 DOUBLE NONE 3
7M5 N28 C26 SINGLE NONE 4
7M5 C14 C16 SINGLE NONE 5
7M5 C29 C21 SINGLE NONE 6
7M5 C26 C24 DOUBLE NONE 7
7M5 N10 C11 SINGLE NONE 8
7M5 N10 C09 DOUBLE NONE 9
7M5 C11 C20 DOUBLE NONE 10
7M5 C21 C09 SINGLE NONE 11
7M5 C21 C22 DOUBLE NONE 12
7M5 C24 C22 SINGLE NONE 13
7M5 C16 C18 DOUBLE NONE 14
7M5 C09 C06 SINGLE NONE 15
7M5 C20 C18 SINGLE NONE 16
7M5 C20 N05 SINGLE NONE 17
7M5 C06 N05 SINGLE NONE 18
7M5 C06 C07 DOUBLE NONE 19
7M5 N05 C03 SINGLE NONE 20
7M5 C07 C02 SINGLE NONE 21
7M5 C03 C02 DOUBLE NONE 22
#
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
7M5 MurckoScaffold S1 scaffold c1cncc(-c2nc3ccccc3n3cccc23)c1 InChI=1S/C16H11N3/c1-2-7-14-13(6-1)18-16(12-5-3-9-17-11-12)15-8-4-10-19(14)15/h1-11H YYLFSLFSCWVKLI-UHFFFAOYSA-N
7M5 phenyl F1 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
7M5 pyrazine F2 fragment c1cnccn1 InChI=1S/C4H4N2/c1-2-6-4-3-5-1/h1-4H KYQCOXFCLRTKLS-UHFFFAOYSA-N
7M5 pyridine F3 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
7M5 pyrrole F4 fragment 'c1cc[nH]c1' InChI=1S/C4H5N/c1-2-4-5-3-1/h1-5H KAESVJOAVNADME-UHFFFAOYSA-N
7M5 quinoxaline F5 fragment c1ccc2nccnc2c1 InChI=1S/C8H6N2/c1-2-4-8-7(3-1)9-5-6-10-8/h1-6H XSCHRSMBECNVNS-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
7M5 C11 S1 1
7M5 C12 S1 1
7M5 C14 S1 1
7M5 C16 S1 1
7M5 C18 S1 1
7M5 C20 S1 1
7M5 C21 S1 1
7M5 C22 S1 1
7M5 N28 S1 1
7M5 C29 S1 1
7M5 C26 S1 1
7M5 C24 S1 1
7M5 C09 S1 1
7M5 C06 S1 1
7M5 C07 S1 1
7M5 C02 S1 1
7M5 C03 S1 1
7M5 N05 S1 1
7M5 N10 S1 1
7M5 C11 F1 1
7M5 C12 F1 1
7M5 C14 F1 1
7M5 C16 F1 1
7M5 C18 F1 1
7M5 C20 F1 1
7M5 C11 F2 1
7M5 C20 F2 1
7M5 N05 F2 1
7M5 C06 F2 1
7M5 C09 F2 1
7M5 N10 F2 1
7M5 C29 F3 1
7M5 C21 F3 1
7M5 C22 F3 1
7M5 C24 F3 1
7M5 C26 F3 1
7M5 N28 F3 1
7M5 C06 F4 1
7M5 C07 F4 1
7M5 C02 F4 1
7M5 C03 F4 1
7M5 N05 F4 1
7M5 C14 F5 1
7M5 C16 F5 1
7M5 C18 F5 1
7M5 C20 F5 1
7M5 C11 F5 1
7M5 C12 F5 1
7M5 N10 F5 1
7M5 C09 F5 1
7M5 C06 F5 1
7M5 N05 F5 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 7M5
_pdbe_chem_comp_rdkit_properties.exactmw 245.095
_pdbe_chem_comp_rdkit_properties.amw 245.285
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 0
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 1
_pdbe_chem_comp_rdkit_properties.NumHBD 0
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 19
_pdbe_chem_comp_rdkit_properties.NumAtoms 30
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 3
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 4
_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 125.182
_pdbe_chem_comp_rdkit_properties.tpsa 30.190
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.527
_pdbe_chem_comp_rdkit_properties.CrippenMR 71.298
_pdbe_chem_comp_rdkit_properties.chi0v 9.342
_pdbe_chem_comp_rdkit_properties.chi1v 5.315
_pdbe_chem_comp_rdkit_properties.chi2v 2.596
_pdbe_chem_comp_rdkit_properties.chi3v 2.596
_pdbe_chem_comp_rdkit_properties.chi4v 1.811
_pdbe_chem_comp_rdkit_properties.chi0n 20.342
_pdbe_chem_comp_rdkit_properties.chi1n 10.815
_pdbe_chem_comp_rdkit_properties.chi2n 2.596
_pdbe_chem_comp_rdkit_properties.chi3n 2.596
_pdbe_chem_comp_rdkit_properties.chi4n 1.811
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.680
_pdbe_chem_comp_rdkit_properties.kappa1 4.167
_pdbe_chem_comp_rdkit_properties.kappa2 3.917
_pdbe_chem_comp_rdkit_properties.kappa3 1.518
_pdbe_chem_comp_rdkit_properties.Phi 0.859
#
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
7M5 UniChem ChEMBL CHEMBL3823966
7M5 UniChem PDBe 7M5
7M5 UniChem ZINC ZINC000203385475
7M5 UniChem PubChem 60148051
7M5 UniChem BindingDb 50184333
7M5 UniChem BRENDA 245976
#
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
7M5 C11 -1.544 0.989 -0.442 ETKDGv3 1
7M5 C12 -2.367 2.142 -0.868 ETKDGv3 2
7M5 C14 -3.701 2.093 -0.755 ETKDGv3 3
7M5 C16 -4.358 0.887 -0.205 ETKDGv3 4
7M5 C18 -3.623 -0.163 0.182 ETKDGv3 5
7M5 C20 -2.147 -0.114 0.059 ETKDGv3 6
7M5 C21 2.162 0.241 -0.359 ETKDGv3 7
7M5 C22 2.758 1.433 -0.180 ETKDGv3 8
7M5 N28 4.281 -0.761 -0.956 ETKDGv3 9
7M5 C29 2.999 -0.909 -0.787 ETKDGv3 10
7M5 C26 4.931 0.502 -0.739 ETKDGv3 11
7M5 C24 4.215 1.569 -0.371 ETKDGv3 12
7M5 C09 0.700 0.092 -0.181 ETKDGv3 13
7M5 C06 0.087 -1.113 0.412 ETKDGv3 14
7M5 C07 0.646 -2.096 1.107 ETKDGv3 15
7M5 C02 -0.457 -2.908 1.641 ETKDGv3 16
7M5 C03 -1.600 -2.351 1.255 ETKDGv3 17
7M5 N05 -1.319 -1.211 0.456 ETKDGv3 18
7M5 N10 -0.102 1.054 -0.562 ETKDGv3 19
7M5 H1 -1.890 3.026 -1.270 ETKDGv3 20
7M5 H2 -4.303 2.937 -1.066 ETKDGv3 21
7M5 H3 -5.436 0.855 -0.119 ETKDGv3 22
7M5 H4 -4.111 -1.043 0.579 ETKDGv3 23
7M5 H5 2.186 2.302 0.121 ETKDGv3 24
7M5 H6 2.548 -1.872 -0.987 ETKDGv3 25
7M5 H7 6.000 0.587 -0.882 ETKDGv3 26
7M5 H8 4.698 2.524 -0.211 ETKDGv3 27
7M5 H9 1.699 -2.220 1.323 ETKDGv3 28
7M5 H10 -0.365 -3.778 2.278 ETKDGv3 29
7M5 H11 -2.589 -2.693 1.529 ETKDGv3 30
#