data_L30
#
_chem_comp.id L30
_chem_comp.name N-(naphthalen-1-yl)pyridine-3-carboxamide
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C16 H12 N2 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2021-10-08
_chem_comp.pdbx_modified_date 2021-10-15
_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 248.279
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code L30
_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 7SGW
_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
L30 O18 O1 O 0 1 N N N N N N -1.397 68.116 39.270 1.179 -1.858 -0.507 O18 L30 1
L30 C6 C1 C 0 1 N N N N N N -0.999 69.208 38.851 1.348 -0.741 -0.059 C6 L30 2
L30 C7 C2 C 0 1 Y N N N N N -2.031 70.276 38.562 2.703 -0.151 -0.038 C7 L30 3
L30 C8 C3 C 0 1 Y N N N N N -3.415 69.967 38.530 3.800 -0.868 -0.531 C8 L30 4
L30 C10 C4 C 0 1 Y N N N N N -4.324 70.973 38.202 5.047 -0.269 -0.489 C10 L30 5
L30 C12 C5 C 0 1 Y N N N N N -3.866 72.244 37.905 5.169 1.005 0.034 C12 L30 6
L30 N13 N1 N 0 1 Y N N N N N -2.526 72.497 37.905 4.117 1.657 0.492 N13 L30 7
L30 C15 C6 C 0 1 Y N N N N N -1.613 71.560 38.232 2.909 1.133 0.469 C15 L30 8
L30 N5 N2 N 0 1 N N N N N N 0.287 69.564 38.518 0.299 -0.039 0.414 N5 L30 9
L30 C4 C7 C 0 1 Y N N N N N 1.407 68.754 38.623 -0.992 -0.554 0.302 C4 L30 10
L30 C3 C8 C 0 1 Y N N N N N 2.440 69.093 39.488 -1.212 -1.911 0.409 C3 L30 11
L30 C2 C9 C 0 1 Y N N N N N 3.504 68.219 39.753 -2.496 -2.435 0.300 C2 L30 12
L30 C1 C10 C 0 1 Y N N N N N 3.552 66.953 39.181 -3.570 -1.625 0.085 C1 L30 13
L30 C22 C11 C 0 1 Y N N N N N 2.553 66.516 38.337 -3.390 -0.236 -0.030 C22 L30 14
L30 C24 C12 C 0 1 Y N N N N N 2.568 65.245 37.782 -4.479 0.623 -0.252 C24 L30 15
L30 C26 C13 C 0 1 Y N N N N N 1.554 64.858 36.894 -4.268 1.964 -0.359 C26 L30 16
L30 C28 C14 C 0 1 Y N N N N N 0.457 65.719 36.592 -2.987 2.499 -0.251 C28 L30 17
L30 C20 C15 C 0 1 Y N N N N N 0.400 66.975 37.172 -1.908 1.696 -0.036 C20 L30 18
L30 C21 C16 C 0 1 Y N N N N N 1.409 67.409 38.025 -2.087 0.310 0.085 C21 L30 19
L30 H1 H1 H 0 1 N N N N N N -3.760 68.969 38.756 3.676 -1.862 -0.934 H1 L30 20
L30 H2 H2 H 0 1 N N N N N N -5.383 70.760 38.180 5.916 -0.792 -0.860 H2 L30 21
L30 H3 H3 H 0 1 N N N N N N -4.567 73.033 37.674 6.142 1.473 0.073 H3 L30 22
L30 H4 H4 H 0 1 N N N N N N -0.561 71.806 38.237 2.073 1.698 0.853 H4 L30 23
L30 H5 H5 H 0 1 N N N N N N 0.427 70.491 38.169 0.443 0.825 0.831 H5 L30 24
L30 H6 H6 H 0 1 N N N N N N 2.423 70.059 39.971 -0.377 -2.574 0.579 H6 L30 25
L30 H7 H7 H 0 1 N N N N N N 4.299 68.535 40.412 -2.644 -3.501 0.387 H7 L30 26
L30 H8 H8 H 0 1 N N N N N N 4.385 66.301 39.401 -4.559 -2.051 0.002 H8 L30 27
L30 H9 H9 H 0 1 N N N N N N 3.359 64.554 38.033 -5.478 0.222 -0.338 H9 L30 28
L30 H10 H10 H 0 1 N N N N N N 1.605 63.885 36.428 -5.107 2.622 -0.529 H10 L30 29
L30 H11 H11 H 0 1 N N N N N N -0.321 65.394 35.917 -2.847 3.566 -0.340 H11 L30 30
L30 H12 H12 H 0 1 N N N N N N -0.437 67.624 36.960 -0.920 2.125 0.045 H12 L30 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
L30 C28 C26 DOUB Y N 1
L30 C28 C20 SING Y N 2
L30 C26 C24 SING Y N 3
L30 C20 C21 DOUB Y N 4
L30 C24 C22 DOUB Y N 5
L30 C12 N13 DOUB Y N 6
L30 C12 C10 SING Y N 7
L30 N13 C15 SING Y N 8
L30 C21 C22 SING Y N 9
L30 C21 C4 SING Y N 10
L30 C10 C8 DOUB Y N 11
L30 C15 C7 DOUB Y N 12
L30 C22 C1 SING Y N 13
L30 N5 C4 SING N N 14
L30 N5 C6 SING N N 15
L30 C8 C7 SING Y N 16
L30 C7 C6 SING N N 17
L30 C4 C3 DOUB Y N 18
L30 C6 O18 DOUB N N 19
L30 C1 C2 DOUB Y N 20
L30 C3 C2 SING Y N 21
L30 C8 H1 SING N N 22
L30 C10 H2 SING N N 23
L30 C12 H3 SING N N 24
L30 C15 H4 SING N N 25
L30 N5 H5 SING N N 26
L30 C3 H6 SING N N 27
L30 C2 H7 SING N N 28
L30 C1 H8 SING N N 29
L30 C24 H9 SING N N 30
L30 C26 H10 SING N N 31
L30 C28 H11 SING N N 32
L30 C20 H12 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
L30 SMILES ACDLabs 12.01 O=C(Nc1cccc2ccccc21)c1cccnc1
L30 InChI InChI 1.03 InChI=1S/C16H12N2O/c19-16(13-7-4-10-17-11-13)18-15-9-3-6-12-5-1-2-8-14(12)15/h1-11H,(H,18,19)
L30 InChIKey InChI 1.03 OZOFJVFWGZHBHV-UHFFFAOYSA-N
L30 SMILES_CANONICAL CACTVS 3.385 O=C(Nc1cccc2ccccc12)c3cccnc3
L30 SMILES CACTVS 3.385 O=C(Nc1cccc2ccccc12)c3cccnc3
L30 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 c1ccc2c(c1)cccc2NC(=O)c3cccnc3
L30 SMILES "OpenEye OEToolkits" 2.0.7 c1ccc2c(c1)cccc2NC(=O)c3cccnc3
#
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
L30 "SYSTEMATIC NAME" ACDLabs 12.01 N-(naphthalen-1-yl)pyridine-3-carboxamide
L30 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 ~{N}-naphthalen-1-ylpyridine-3-carboxamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
L30 'Create component' 2021-10-08 RCSB
L30 'Initial release' 2021-10-20 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
L30 O18 O 3.000 0.349 1
L30 C6 C 4.299 -0.401 2
L30 C7 C 4.299 -1.901 3
L30 C8 C 5.598 -2.651 4
L30 C10 C 5.598 -4.151 5
L30 C12 C 4.299 -4.901 6
L30 N13 N 3.000 -4.151 7
L30 C15 C 3.000 -2.651 8
L30 N5 N 5.598 0.349 9
L30 C4 C 5.598 1.849 10
L30 C3 C 4.299 2.599 11
L30 C2 C 4.299 4.099 12
L30 C1 C 5.598 4.849 13
L30 C22 C 6.897 4.099 14
L30 C24 C 8.238 4.901 15
L30 C26 C 9.597 4.130 16
L30 C28 C 9.597 2.568 17
L30 C20 C 8.238 1.797 18
L30 C21 C 6.897 2.599 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
L30 C28 C26 DOUBLE NONE 1
L30 C28 C20 SINGLE NONE 2
L30 C26 C24 SINGLE NONE 3
L30 C20 C21 DOUBLE NONE 4
L30 C24 C22 DOUBLE NONE 5
L30 C12 N13 DOUBLE NONE 6
L30 C12 C10 SINGLE NONE 7
L30 N13 C15 SINGLE NONE 8
L30 C21 C22 SINGLE NONE 9
L30 C21 C4 SINGLE NONE 10
L30 C10 C8 DOUBLE NONE 11
L30 C15 C7 DOUBLE NONE 12
L30 C22 C1 SINGLE NONE 13
L30 N5 C4 SINGLE NONE 14
L30 N5 C6 SINGLE NONE 15
L30 C8 C7 SINGLE NONE 16
L30 C7 C6 SINGLE NONE 17
L30 C4 C3 DOUBLE NONE 18
L30 C6 O18 DOUBLE NONE 19
L30 C1 C2 DOUBLE NONE 20
L30 C3 C2 SINGLE NONE 21
#
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
L30 MurckoScaffold S1 scaffold O=C(Nc1cccc2ccccc12)c1cccnc1 InChI=1S/C16H12N2O/c19-16(13-7-4-10-17-11-13)18-15-9-3-6-12-5-1-2-8-14(12)15/h1-11H,(H,18,19) OZOFJVFWGZHBHV-UHFFFAOYSA-N
L30 amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
L30 napthalene F2 fragment c1ccc2ccccc2c1 InChI=1S/C10H8/c1-2-6-10-8-4-3-7-9(10)5-1/h1-8H UFWIBTONFRDIAS-UHFFFAOYSA-N
L30 phenyl F3 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
L30 pyridine F4 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
L30 O18 S1 1
L30 C6 S1 1
L30 C7 S1 1
L30 C8 S1 1
L30 C10 S1 1
L30 C12 S1 1
L30 N13 S1 1
L30 C15 S1 1
L30 N5 S1 1
L30 C4 S1 1
L30 C3 S1 1
L30 C2 S1 1
L30 C1 S1 1
L30 C22 S1 1
L30 C24 S1 1
L30 C26 S1 1
L30 C28 S1 1
L30 C20 S1 1
L30 C21 S1 1
L30 N5 F1 1
L30 C6 F1 1
L30 O18 F1 1
L30 C7 F1 1
L30 C3 F2 1
L30 C2 F2 1
L30 C1 F2 1
L30 C22 F2 1
L30 C21 F2 1
L30 C4 F2 1
L30 C20 F2 1
L30 C28 F2 1
L30 C26 F2 1
L30 C24 F2 1
L30 C4 F3 1
L30 C21 F3 1
L30 C22 F3 1
L30 C1 F3 1
L30 C2 F3 1
L30 C3 F3 1
L30 C22 F3 2
L30 C24 F3 2
L30 C26 F3 2
L30 C28 F3 2
L30 C20 F3 2
L30 C21 F3 2
L30 C12 F4 1
L30 C10 F4 1
L30 C8 F4 1
L30 C7 F4 1
L30 C15 F4 1
L30 N13 F4 1
#
_pdbe_chem_comp_rdkit_properties.comp_id L30
_pdbe_chem_comp_rdkit_properties.exactmw 248.095
_pdbe_chem_comp_rdkit_properties.amw 248.285
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 2
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 19
_pdbe_chem_comp_rdkit_properties.NumAtoms 31
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 3
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0
_pdbe_chem_comp_rdkit_properties.NumRings 3
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 3
_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 127.384
_pdbe_chem_comp_rdkit_properties.tpsa 41.990
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.623
_pdbe_chem_comp_rdkit_properties.CrippenMR 72.842
_pdbe_chem_comp_rdkit_properties.chi0v 9.303
_pdbe_chem_comp_rdkit_properties.chi1v 5.099
_pdbe_chem_comp_rdkit_properties.chi2v 2.187
_pdbe_chem_comp_rdkit_properties.chi3v 2.187
_pdbe_chem_comp_rdkit_properties.chi4v 1.372
_pdbe_chem_comp_rdkit_properties.chi0n 21.303
_pdbe_chem_comp_rdkit_properties.chi1n 11.046
_pdbe_chem_comp_rdkit_properties.chi2n 2.187
_pdbe_chem_comp_rdkit_properties.chi3n 2.187
_pdbe_chem_comp_rdkit_properties.chi4n 1.372
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.680
_pdbe_chem_comp_rdkit_properties.kappa1 4.167
_pdbe_chem_comp_rdkit_properties.kappa2 4.900
_pdbe_chem_comp_rdkit_properties.kappa3 2.308
_pdbe_chem_comp_rdkit_properties.Phi 1.075
#
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
L30 UniChem ZINC ZINC000003157529
L30 UniChem PubChem 532824
L30 UniChem Mcule MCULE-3371119170
#
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
L30 O18 0.867 1.293 0.753 ETKDGv3 1
L30 C6 1.353 0.222 0.295 ETKDGv3 2
L30 C7 2.721 0.233 -0.273 ETKDGv3 3
L30 C8 3.647 1.351 0.045 ETKDGv3 4
L30 C10 4.877 1.373 -0.476 ETKDGv3 5
L30 C12 5.302 0.282 -1.371 ETKDGv3 6
L30 N13 4.481 -0.688 -1.650 ETKDGv3 7
L30 C15 3.151 -0.736 -1.104 ETKDGv3 8
L30 N5 0.581 -0.989 0.355 ETKDGv3 9
L30 C4 -0.810 -0.990 0.713 ETKDGv3 10
L30 C3 -1.211 -1.728 1.762 ETKDGv3 11
L30 C2 -2.615 -1.731 2.229 ETKDGv3 12
L30 C1 -3.557 -1.001 1.623 ETKDGv3 13
L30 C22 -3.220 -0.192 0.438 ETKDGv3 14
L30 C24 -4.160 0.510 -0.215 ETKDGv3 15
L30 C26 -3.806 1.261 -1.435 ETKDGv3 16
L30 C28 -2.553 1.228 -1.903 ETKDGv3 17
L30 C20 -1.513 0.457 -1.191 ETKDGv3 18
L30 C21 -1.815 -0.200 -0.054 ETKDGv3 19
L30 H1 3.335 2.151 0.704 ETKDGv3 20
L30 H2 5.557 2.183 -0.245 ETKDGv3 21
L30 H3 6.296 0.287 -1.798 ETKDGv3 22
L30 H4 2.505 -1.552 -1.397 ETKDGv3 23
L30 H5 1.089 -1.902 0.374 ETKDGv3 24
L30 H6 -0.487 -2.315 2.314 ETKDGv3 25
L30 H7 -2.879 -2.329 3.092 ETKDGv3 26
L30 H8 -4.572 -1.022 2.000 ETKDGv3 27
L30 H9 -5.187 0.518 0.132 ETKDGv3 28
L30 H10 -4.566 1.826 -1.959 ETKDGv3 29
L30 H11 -2.296 1.769 -2.805 ETKDGv3 30
L30 H12 -0.517 0.430 -1.610 ETKDGv3 31
#