data_AP
#
_chem_comp.id AP
_chem_comp.name N-1-AMINOPYRENE
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C16 H11 N"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-08
_chem_comp.pdbx_modified_date 2011-06-04
_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 217.265
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code AP
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1AXU
_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
AP N1 N1 N 0 1 N N N N N N -5.515 3.082 -15.899 1.404 -0.000 3.598 N1 AP 1
AP C1 C1 C 0 1 Y N N N N N -5.141 4.264 -15.076 0.433 -0.000 2.653 C1 AP 2
AP C2 C2 C 0 1 Y N N N N N -3.785 4.756 -15.054 -0.972 -0.000 3.078 C2 AP 3
AP C3 C3 C 0 1 Y N N N N N -3.440 5.942 -14.186 -1.974 -0.000 2.225 C3 AP 4
AP C3A C3A C 0 1 Y N N N N N -4.502 6.568 -13.393 -1.692 -0.000 0.779 C3A AP 5
AP C4 C4 C 0 1 Y N N N N N -4.238 7.720 -12.552 -2.641 0.000 -0.127 C4 AP 6
AP C5 C5 C 0 1 Y N N N N N -5.319 8.321 -11.739 -2.291 0.000 -1.563 C5 AP 7
AP C5A C5A C 0 1 Y N N N N N -6.661 7.772 -11.799 -1.032 -0.000 -1.932 C5A AP 8
AP C6 C6 C 0 1 Y N N N N N -7.768 8.318 -11.020 -0.619 -0.000 -3.346 C6 AP 9
AP C7 C7 C 0 1 Y N N N N N -9.069 7.760 -11.102 0.662 0.000 -3.643 C7 AP 10
AP C8 C8 C 0 1 Y N N N N N -9.314 6.655 -11.947 1.716 0.000 -2.620 C8 AP 11
AP C8A C8A C 0 1 Y N N N N N -8.253 6.082 -12.713 1.440 0.000 -1.337 C8A AP 12
AP C9 C9 C 0 1 Y N N N N N -8.535 4.967 -13.551 2.500 -0.000 -0.315 C9 AP 13
AP C10 C10 C 0 1 Y N N N N N -7.513 4.363 -14.302 2.188 -0.001 0.966 C10 AP 14
AP C1A C1A C 0 1 Y N N N N N -6.167 4.896 -14.288 0.777 0.004 1.387 C1A AP 15
AP C11 C11 C 0 1 Y N N N N N -5.856 6.038 -13.450 -0.278 0.000 0.358 C11 AP 16
AP C12 C12 C 0 1 Y N N N N N -6.920 6.640 -12.660 0.029 0.000 -0.909 C12 AP 17
AP HN1 1HN H 0 1 N N N N N N -6.390 3.109 -16.383 2.337 -0.004 3.334 HN1 AP 18
AP HN2 2HN H 0 1 N N N N N N -4.902 2.309 -15.639 1.166 -0.000 4.538 HN2 AP 19
AP H2 H2 H 0 1 N N N N N N -3.174 4.230 -15.646 -1.193 -0.000 4.135 H2 AP 20
AP H3 H3 H 0 1 N N N N N N -2.535 6.361 -14.108 -2.994 -0.001 2.581 H3 AP 21
AP H4 H4 H 0 1 N N N N N N -3.301 8.068 -12.534 -3.677 -0.000 0.176 H4 AP 22
AP H5 H5 H 0 1 N N N N N N -5.167 9.117 -11.154 -3.072 -0.000 -2.309 H5 AP 23
AP H6 H6 H 0 1 N N N N N N -7.679 9.103 -10.408 -1.360 -0.000 -4.131 H6 AP 24
AP H7 H7 H 0 1 N N N N N N -9.811 8.155 -10.561 0.952 0.000 -4.684 H7 AP 25
AP H8 H8 H 0 1 N N N N N N -10.230 6.255 -11.957 2.750 -0.000 -2.933 H8 AP 26
AP H9 H9 H 0 1 N N N N N N -9.452 4.576 -13.625 3.537 -0.000 -0.616 H9 AP 27
AP H10 H10 H 0 1 N N N N N N -7.791 3.587 -14.868 2.971 -0.002 1.710 H10 AP 28
#
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
AP N1 C1 SING N N 1
AP N1 HN1 SING N N 2
AP N1 HN2 SING N N 3
AP C1 C2 DOUB Y N 4
AP C1 C1A SING Y N 5
AP C2 C3 SING Y N 6
AP C2 H2 SING N N 7
AP C3 C3A DOUB Y N 8
AP C3 H3 SING N N 9
AP C3A C4 SING Y N 10
AP C3A C11 SING Y N 11
AP C4 C5 DOUB Y N 12
AP C4 H4 SING N N 13
AP C5 C5A SING Y N 14
AP C5 H5 SING N N 15
AP C5A C6 DOUB Y N 16
AP C5A C12 SING Y N 17
AP C6 C7 SING Y N 18
AP C6 H6 SING N N 19
AP C7 C8 DOUB Y N 20
AP C7 H7 SING N N 21
AP C8 C8A SING Y N 22
AP C8 H8 SING N N 23
AP C8A C9 DOUB Y N 24
AP C8A C12 SING Y N 25
AP C9 C10 SING Y N 26
AP C9 H9 SING N N 27
AP C10 C1A DOUB Y N 28
AP C10 H10 SING N N 29
AP C1A C11 SING Y N 30
AP C11 C12 DOUB Y 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
AP SMILES ACDLabs 10.04 c4cc2ccc1ccc(N)c3c1c2c(cc3)c4
AP SMILES_CANONICAL CACTVS 3.341 Nc1ccc2ccc3cccc4ccc1c2c34
AP SMILES CACTVS 3.341 Nc1ccc2ccc3cccc4ccc1c2c34
AP SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 c1cc2ccc3ccc(c4c3c2c(c1)cc4)N
AP SMILES "OpenEye OEToolkits" 1.5.0 c1cc2ccc3ccc(c4c3c2c(c1)cc4)N
AP InChI InChI 1.03 InChI=1S/C16H11N/c17-14-9-7-12-5-4-10-2-1-3-11-6-8-13(14)16(12)15(10)11/h1-9H,17H2
AP InChIKey InChI 1.03 YZVWKHVRBDQPMQ-UHFFFAOYSA-N
#
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
AP "SYSTEMATIC NAME" ACDLabs 10.04 pyren-1-amine
AP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 pyren-1-amine
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
AP 'Create component' 1999-07-08 RCSB
AP 'Modify descriptor' 2011-06-04 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
AP N1 N 3.802 3.273 1
AP C1 C 5.106 2.533 2
AP C2 C 6.385 3.294 3
AP C3 C 7.691 2.584 4
AP C3A C 7.748 1.097 5
AP C4 C 9.107 0.327 6
AP C5 C 9.107 -1.236 7
AP C5A C 7.748 -2.006 8
AP C6 C 7.691 -3.493 9
AP C7 C 6.385 -4.203 10
AP C8 C 5.106 -3.442 11
AP C8A C 5.108 -1.955 12
AP C9 C 3.809 -1.205 13
AP C10 C 3.809 0.295 14
AP C1A C 5.108 1.045 15
AP C11 C 6.407 0.295 16
AP C12 C 6.407 -1.205 17
#
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
AP N1 C1 SINGLE NONE 1
AP C1 C2 DOUBLE NONE 2
AP C1 C1A SINGLE NONE 3
AP C2 C3 SINGLE NONE 4
AP C3 C3A DOUBLE NONE 5
AP C3A C4 SINGLE NONE 6
AP C3A C11 SINGLE NONE 7
AP C4 C5 DOUBLE NONE 8
AP C5 C5A SINGLE NONE 9
AP C5A C6 DOUBLE NONE 10
AP C5A C12 SINGLE NONE 11
AP C6 C7 SINGLE NONE 12
AP C7 C8 DOUBLE NONE 13
AP C8 C8A SINGLE NONE 14
AP C8A C9 DOUBLE NONE 15
AP C8A C12 SINGLE NONE 16
AP C9 C10 SINGLE NONE 17
AP C10 C1A DOUBLE NONE 18
AP C1A C11 SINGLE NONE 19
AP C11 C12 DOUBLE NONE 20
#
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
AP MurckoScaffold S1 scaffold c1cc2ccc3cccc4ccc(c1)c2c34 InChI=1S/C16H10/c1-3-11-7-9-13-5-2-6-14-10-8-12(4-1)15(11)16(13)14/h1-10H BBEAQIROQSPTKN-UHFFFAOYSA-N
AP napthalene F1 fragment c1ccc2ccccc2c1 InChI=1S/C10H8/c1-2-6-10-8-4-3-7-9(10)5-1/h1-8H UFWIBTONFRDIAS-UHFFFAOYSA-N
AP phenanthrene F2 fragment c1ccc2c(c1)ccc1ccccc12 InChI=1S/C14H10/c1-3-7-13-11(5-1)9-10-12-6-2-4-8-14(12)13/h1-10H YNPNZTXNASCQKK-UHFFFAOYSA-N
AP phenyl F3 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-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
AP C1 S1 1
AP C2 S1 1
AP C3 S1 1
AP C3A S1 1
AP C4 S1 1
AP C5 S1 1
AP C5A S1 1
AP C6 S1 1
AP C7 S1 1
AP C8 S1 1
AP C8A S1 1
AP C9 S1 1
AP C10 S1 1
AP C1A S1 1
AP C11 S1 1
AP C12 S1 1
AP C1 F1 1
AP C2 F1 1
AP C3 F1 1
AP C3A F1 1
AP C11 F1 1
AP C1A F1 1
AP C12 F1 1
AP C5A F1 1
AP C5 F1 1
AP C4 F1 1
AP C2 F1 2
AP C3 F1 2
AP C3A F1 2
AP C11 F1 2
AP C1A F1 2
AP C1 F1 2
AP C10 F1 2
AP C9 F1 2
AP C8A F1 2
AP C12 F1 2
AP C3A F1 3
AP C4 F1 3
AP C5 F1 3
AP C5A F1 3
AP C12 F1 3
AP C11 F1 3
AP C8A F1 3
AP C8 F1 3
AP C7 F1 3
AP C6 F1 3
AP C4 F1 4
AP C5 F1 4
AP C5A F1 4
AP C12 F1 4
AP C11 F1 4
AP C3A F1 4
AP C1A F1 4
AP C10 F1 4
AP C9 F1 4
AP C8A F1 4
AP C6 F1 5
AP C7 F1 5
AP C8 F1 5
AP C8A F1 5
AP C12 F1 5
AP C5A F1 5
AP C11 F1 5
AP C1A F1 5
AP C10 F1 5
AP C9 F1 5
AP C2 F2 1
AP C1 F2 1
AP C1A F2 1
AP C11 F2 1
AP C3A F2 1
AP C3 F2 1
AP C4 F2 1
AP C5 F2 1
AP C5A F2 1
AP C12 F2 1
AP C8A F2 1
AP C8 F2 1
AP C7 F2 1
AP C6 F2 1
AP C2 F2 2
AP C3 F2 2
AP C3A F2 2
AP C11 F2 2
AP C1A F2 2
AP C1 F2 2
AP C10 F2 2
AP C9 F2 2
AP C8A F2 2
AP C12 F2 2
AP C5A F2 2
AP C6 F2 2
AP C7 F2 2
AP C8 F2 2
AP C1 F3 1
AP C2 F3 1
AP C3 F3 1
AP C3A F3 1
AP C11 F3 1
AP C1A F3 1
AP C3A F3 2
AP C4 F3 2
AP C5 F3 2
AP C5A F3 2
AP C12 F3 2
AP C11 F3 2
AP C5A F3 3
AP C6 F3 3
AP C7 F3 3
AP C8 F3 3
AP C8A F3 3
AP C12 F3 3
AP C8A F3 4
AP C9 F3 4
AP C10 F3 4
AP C1A F3 4
AP C11 F3 4
AP C12 F3 4
#
_pdbe_chem_comp_rdkit_properties.comp_id AP
_pdbe_chem_comp_rdkit_properties.exactmw 217.089
_pdbe_chem_comp_rdkit_properties.amw 217.271
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 1
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 1
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 1
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 17
_pdbe_chem_comp_rdkit_properties.NumAtoms 28
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 1
_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 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_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 114.366
_pdbe_chem_comp_rdkit_properties.tpsa 26.020
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.500
_pdbe_chem_comp_rdkit_properties.CrippenMR 67.116
_pdbe_chem_comp_rdkit_properties.chi0v 8.447
_pdbe_chem_comp_rdkit_properties.chi1v 4.974
_pdbe_chem_comp_rdkit_properties.chi2v 2.793
_pdbe_chem_comp_rdkit_properties.chi3v 2.793
_pdbe_chem_comp_rdkit_properties.chi4v 2.049
_pdbe_chem_comp_rdkit_properties.chi0n 19.447
_pdbe_chem_comp_rdkit_properties.chi1n 10.368
_pdbe_chem_comp_rdkit_properties.chi2n 2.793
_pdbe_chem_comp_rdkit_properties.chi3n 2.793
_pdbe_chem_comp_rdkit_properties.chi4n 2.049
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.280
_pdbe_chem_comp_rdkit_properties.kappa1 3.359
_pdbe_chem_comp_rdkit_properties.kappa2 2.889
_pdbe_chem_comp_rdkit_properties.kappa3 1.033
_pdbe_chem_comp_rdkit_properties.Phi 0.571
#
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
AP UniChem ChEMBL CHEMBL400756
AP UniChem PDBe AP
AP UniChem ZINC ZINC000001504382
AP UniChem fdasrs LUW9EO1681
AP UniChem SureChEMBL SCHEMBL283221
AP UniChem HMDB HMDB0041793
AP UniChem 'PubChem TPHARMA' 15172058
AP UniChem PubChem 15352
AP UniChem NMRShiftDB 20208699
AP UniChem ACTor 1606-67-3
AP UniChem ACTor 64990-23-4
AP UniChem Nikkaji J3.673K
AP UniChem 'EPA CompTox Dashboard' DTXSID3040932
AP UniChem ChemicalBook CB1107595
AP UniChem eMolecules 477181
AP UniChem Mcule MCULE-3062595893
#
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
AP N1 4.087 -0.064 -0.036 ETKDGv3 1
AP C1 2.767 0.494 0.051 ETKDGv3 2
AP C2 2.638 1.808 0.321 ETKDGv3 3
AP C3 1.321 2.474 0.430 ETKDGv3 4
AP C3A 0.178 1.797 0.265 ETKDGv3 5
AP C4 -1.136 2.473 0.376 ETKDGv3 6
AP C5 -2.272 1.785 0.209 ETKDGv3 7
AP C5A -2.233 0.335 -0.091 ETKDGv3 8
AP C6 -3.361 -0.374 -0.263 ETKDGv3 9
AP C7 -3.322 -1.826 -0.563 ETKDGv3 10
AP C8 -2.164 -2.493 -0.676 ETKDGv3 11
AP C8A -0.881 -1.785 -0.501 ETKDGv3 12
AP C9 0.300 -2.412 -0.605 ETKDGv3 13
AP C10 1.562 -1.658 -0.421 ETKDGv3 14
AP C1A 1.538 -0.335 -0.148 ETKDGv3 15
AP C11 0.223 0.349 -0.034 ETKDGv3 16
AP C12 -0.919 -0.339 -0.202 ETKDGv3 17
AP HN1 4.266 -1.069 -0.240 ETKDGv3 18
AP HN2 4.929 0.538 0.108 ETKDGv3 19
AP H2 3.522 2.416 0.467 ETKDGv3 20
AP H3 1.298 3.535 0.650 ETKDGv3 21
AP H4 -1.186 3.533 0.595 ETKDGv3 22
AP H5 -3.223 2.298 0.294 ETKDGv3 23
AP H6 -4.326 0.111 -0.184 ETKDGv3 24
AP H7 -4.255 -2.359 -0.694 ETKDGv3 25
AP H8 -2.177 -3.553 -0.897 ETKDGv3 26
AP H9 0.344 -3.472 -0.824 ETKDGv3 27
AP H10 2.483 -2.210 -0.516 ETKDGv3 28
#