data_PIC
#
_chem_comp.id PIC
_chem_comp.name "6-(DIFLUORO-PHOSPHONO-METHYL)-NAPHTHALENE-2-CARBOXYLIC ACID"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C12 H9 F2 O5 P"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-08-25
_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 302.167
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code PIC
_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 1BZJ
_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
PIC C1 C1 C 0 1 N N N N N N 46.448 15.855 4.227 -0.112 0.832 -2.585 C1 PIC 1
PIC C2 C2 C 0 1 Y N N N N N 45.855 14.918 3.284 -0.326 0.585 -1.114 C2 PIC 2
PIC C3 C3 C 0 1 Y N N N N N 44.747 15.297 2.498 -1.608 0.308 -0.644 C3 PIC 3
PIC C7 C7 C 0 1 Y N N N N N 44.667 10.980 0.354 0.121 -0.054 3.818 C7 PIC 4
PIC C8 C8 C 0 1 Y N N N N N 45.782 10.611 1.130 1.411 0.226 3.331 C8 PIC 5
PIC C9 C9 C 0 1 Y N N N N N 46.365 11.467 2.057 1.621 0.451 2.009 C9 PIC 6
PIC C10 C10 C 0 1 Y N N N N N 45.845 12.741 2.212 0.543 0.406 1.107 C10 PIC 7
PIC C11 C11 C 0 1 Y N N N N N 46.410 13.632 3.130 0.736 0.635 -0.264 C11 PIC 8
PIC C12 C12 C 0 1 N N N N N N 44.062 10.009 -0.660 -0.080 -0.295 5.261 C12 PIC 9
PIC C4 C4 C 0 1 Y N N N N N 44.166 14.432 1.582 -1.835 0.081 0.678 C4 PIC 10
PIC C5 C5 C 0 1 Y N N N N N 44.707 13.144 1.422 -0.761 0.124 1.585 C5 PIC 11
PIC C6 C6 C 0 1 Y N N N N N 44.132 12.243 0.507 -0.960 -0.111 2.954 C6 PIC 12
PIC O1 O1 O 0 1 N N N N N N 43.055 10.337 -1.353 0.968 -0.246 6.105 O1 PIC 13
PIC O2 O2 O 0 1 N N N N N N 44.579 8.870 -0.761 -1.192 -0.537 5.687 O2 PIC 14
PIC F1 F1 F 0 1 N N N N N N 46.580 17.087 3.658 -1.265 1.403 -3.135 F1 PIC 15
PIC F2 F2 F 0 1 N N N N N N 47.697 15.434 4.535 0.968 1.703 -2.760 F2 PIC 16
PIC P P P 0 1 N N N N N N 45.423 16.066 5.700 0.240 -0.748 -3.422 P PIC 17
PIC OP1 OP1 O 0 1 N N N N N N 46.064 17.035 6.625 1.504 -1.457 -2.719 OP1 PIC 18
PIC OP2 OP2 O 0 1 N N N N N N 45.368 14.854 6.569 -1.044 -1.712 -3.313 OP2 PIC 19
PIC OP3 OP3 O 0 1 N N N N N N 43.847 16.539 5.475 0.547 -0.494 -4.847 OP3 PIC 20
PIC HC3 HC3 H 0 1 N N N N N N 44.318 16.308 2.603 -2.434 0.274 -1.339 HC3 PIC 21
PIC HC8 HC8 H 0 1 N N N N N N 46.218 9.605 1.006 2.244 0.262 4.017 HC8 PIC 22
PIC HC9 HC9 H 0 1 N N N N N N 47.228 11.139 2.661 2.617 0.666 1.650 HC9 PIC 23
PIC HC11 HC11 H 0 0 N N N N N N 47.284 13.323 3.726 1.724 0.852 -0.644 HC11 PIC 24
PIC HC4 HC4 H 0 1 N N N N N N 43.292 14.761 0.993 -2.834 -0.131 1.028 HC4 PIC 25
PIC HC6 HC6 H 0 1 N N N N N N 43.253 12.529 -0.095 -1.947 -0.330 3.331 HC6 PIC 26
PIC HO1 HO1 H 0 1 N N N N N N 42.679 9.733 -1.983 0.836 -0.404 7.050 HO1 PIC 27
PIC HOP1 HOP1 H 0 0 N N N N N N 45.525 17.145 7.399 1.657 -2.287 -3.191 HOP1 PIC 28
PIC HOP2 HOP2 H 0 0 N N N N N N 44.829 14.964 7.343 -1.208 -1.853 -2.370 HOP2 PIC 29
#
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
PIC C1 C2 SING N N 1
PIC C1 F1 SING N N 2
PIC C1 F2 SING N N 3
PIC C1 P SING N N 4
PIC C2 C3 SING Y N 5
PIC C2 C11 DOUB Y N 6
PIC C3 C4 DOUB Y N 7
PIC C3 HC3 SING N N 8
PIC C7 C8 SING Y N 9
PIC C7 C12 SING N N 10
PIC C7 C6 DOUB Y N 11
PIC C8 C9 DOUB Y N 12
PIC C8 HC8 SING N N 13
PIC C9 C10 SING Y N 14
PIC C9 HC9 SING N N 15
PIC C10 C11 SING Y N 16
PIC C10 C5 DOUB Y N 17
PIC C11 HC11 SING N N 18
PIC C12 O1 SING N N 19
PIC C12 O2 DOUB N N 20
PIC C4 C5 SING Y N 21
PIC C4 HC4 SING N N 22
PIC C5 C6 SING Y N 23
PIC C6 HC6 SING N N 24
PIC O1 HO1 SING N N 25
PIC P OP1 SING N N 26
PIC P OP2 SING N N 27
PIC P OP3 DOUB N N 28
PIC OP1 HOP1 SING N N 29
PIC OP2 HOP2 SING N N 30
#
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
PIC SMILES ACDLabs 10.04 FC(F)(c2ccc1c(ccc(c1)C(=O)O)c2)P(=O)(O)O
PIC SMILES_CANONICAL CACTVS 3.341 OC(=O)c1ccc2cc(ccc2c1)C(F)(F)[P](O)(O)=O
PIC SMILES CACTVS 3.341 OC(=O)c1ccc2cc(ccc2c1)C(F)(F)[P](O)(O)=O
PIC SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 c1cc(cc2c1cc(cc2)C(F)(F)P(=O)(O)O)C(=O)O
PIC SMILES "OpenEye OEToolkits" 1.5.0 c1cc(cc2c1cc(cc2)C(F)(F)P(=O)(O)O)C(=O)O
PIC InChI InChI 1.03 InChI=1S/C12H9F2O5P/c13-12(14,20(17,18)19)10-4-3-7-5-9(11(15)16)2-1-8(7)6-10/h1-6H,(H,15,16)(H2,17,18,19)
PIC InChIKey InChI 1.03 NKGNOWNPXBURRW-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
PIC "SYSTEMATIC NAME" ACDLabs 10.04 "6-[difluoro(phosphono)methyl]naphthalene-2-carboxylic acid"
PIC "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "6-(difluoro-phosphono-methyl)naphthalene-2-carboxylic acid"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
PIC 'Create component' 1999-08-25 EBI
PIC 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id PIC
_pdbe_chem_comp_drugbank_details.drugbank_id DB08397
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name '6-(DIFLUORO-PHOSPHONO-METHYL)-NAPHTHALENE-2-CARBOXYLIC ACID'
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id PIC
_pdbe_chem_comp_synonyms.name '6-(DIFLUORO-PHOSPHONO-METHYL)-NAPHTHALENE-2-CARBOXYLIC ACID'
_pdbe_chem_comp_synonyms.provenance DrugBank
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id PIC
_pdbe_chem_comp_drugbank_classification.drugbank_id DB08397
_pdbe_chem_comp_drugbank_classification.parent 'Naphthalenecarboxylic acids'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class Naphthalenes
_pdbe_chem_comp_drugbank_classification.superclass Benzenoids
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as naphthalenecarboxylic acids. These are compounds containing a naphthalene moiety, which bears a carboxylic acid group one or more positions. Naphthalene is a bicyclic compound that is made up of two fused benzene ring.'
#
_pdbe_chem_comp_drugbank_targets.comp_id PIC
_pdbe_chem_comp_drugbank_targets.drugbank_id DB08397
_pdbe_chem_comp_drugbank_targets.name 'Tyrosine-protein phosphatase non-receptor type 1'
_pdbe_chem_comp_drugbank_targets.organism Humans
_pdbe_chem_comp_drugbank_targets.uniprot_id P18031
_pdbe_chem_comp_drugbank_targets.pharmacologically_active unknown
_pdbe_chem_comp_drugbank_targets.ordinal 1
#
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
PIC C1 C 6.404 -1.244 1
PIC C2 C 7.702 -0.494 2
PIC C3 C 7.702 1.006 3
PIC C7 C 13.001 1.038 4
PIC C8 C 13.001 -0.525 5
PIC C9 C 11.642 -1.296 6
PIC C10 C 10.301 -0.494 7
PIC C11 C 9.002 -1.244 8
PIC C12 C 14.297 1.793 9
PIC C4 C 9.002 1.756 10
PIC C5 C 10.301 1.006 11
PIC C6 C 11.642 1.808 12
PIC O1 O 15.599 1.048 13
PIC O2 O 14.291 3.293 14
PIC F1 F 5.654 0.056 15
PIC F2 F 7.154 -2.543 16
PIC P P 5.104 -1.994 17
PIC OP1 O 3.805 -2.744 18
PIC OP2 O 4.354 -0.695 19
PIC OP3 O 5.854 -3.293 20
#
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
PIC C1 C2 SINGLE NONE 1
PIC C1 F1 SINGLE NONE 2
PIC C1 F2 SINGLE NONE 3
PIC C1 P SINGLE NONE 4
PIC C2 C3 DOUBLE NONE 5
PIC C2 C11 SINGLE NONE 6
PIC C3 C4 SINGLE NONE 7
PIC C7 C8 SINGLE NONE 8
PIC C7 C12 SINGLE NONE 9
PIC C7 C6 DOUBLE NONE 10
PIC C8 C9 DOUBLE NONE 11
PIC C9 C10 SINGLE NONE 12
PIC C10 C11 DOUBLE NONE 13
PIC C10 C5 SINGLE NONE 14
PIC C12 O1 SINGLE NONE 15
PIC C12 O2 DOUBLE NONE 16
PIC C4 C5 DOUBLE NONE 17
PIC C5 C6 SINGLE NONE 18
PIC P OP1 SINGLE NONE 19
PIC P OP2 SINGLE NONE 20
PIC P OP3 DOUBLE 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
PIC MurckoScaffold S1 scaffold c1ccc2ccccc2c1 InChI=1S/C10H8/c1-2-6-10-8-4-3-7-9(10)5-1/h1-8H UFWIBTONFRDIAS-UHFFFAOYSA-N
PIC napthalene F1 fragment c1ccc2ccccc2c1 InChI=1S/C10H8/c1-2-6-10-8-4-3-7-9(10)5-1/h1-8H UFWIBTONFRDIAS-UHFFFAOYSA-N
PIC phenyl F2 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
PIC C2 S1 1
PIC C3 S1 1
PIC C7 S1 1
PIC C8 S1 1
PIC C9 S1 1
PIC C10 S1 1
PIC C11 S1 1
PIC C4 S1 1
PIC C5 S1 1
PIC C6 S1 1
PIC C2 F1 1
PIC C3 F1 1
PIC C4 F1 1
PIC C5 F1 1
PIC C10 F1 1
PIC C11 F1 1
PIC C9 F1 1
PIC C8 F1 1
PIC C7 F1 1
PIC C6 F1 1
PIC C2 F2 1
PIC C3 F2 1
PIC C4 F2 1
PIC C5 F2 1
PIC C10 F2 1
PIC C11 F2 1
PIC C7 F2 2
PIC C8 F2 2
PIC C9 F2 2
PIC C10 F2 2
PIC C5 F2 2
PIC C6 F2 2
#
_pdbe_chem_comp_rdkit_properties.comp_id PIC
_pdbe_chem_comp_rdkit_properties.exactmw 302.016
_pdbe_chem_comp_rdkit_properties.amw 302.169
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 5
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 20
_pdbe_chem_comp_rdkit_properties.NumAtoms 29
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 8
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.083
_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 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 124.086
_pdbe_chem_comp_rdkit_properties.tpsa 94.830
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.227
_pdbe_chem_comp_rdkit_properties.CrippenMR 64.107
_pdbe_chem_comp_rdkit_properties.chi0v 10.139
_pdbe_chem_comp_rdkit_properties.chi1v 6.350
_pdbe_chem_comp_rdkit_properties.chi2v 3.135
_pdbe_chem_comp_rdkit_properties.chi3v 3.135
_pdbe_chem_comp_rdkit_properties.chi4v 1.650
_pdbe_chem_comp_rdkit_properties.chi0n 18.244
_pdbe_chem_comp_rdkit_properties.chi1n 9.032
_pdbe_chem_comp_rdkit_properties.chi2n 2.224
_pdbe_chem_comp_rdkit_properties.chi3n 2.224
_pdbe_chem_comp_rdkit_properties.chi4n 1.264
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.820
_pdbe_chem_comp_rdkit_properties.kappa1 6.757
_pdbe_chem_comp_rdkit_properties.kappa2 4.626
_pdbe_chem_comp_rdkit_properties.kappa3 2.429
_pdbe_chem_comp_rdkit_properties.Phi 1.563
#
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
PIC UniChem DrugBank DB08397
PIC UniChem ZINC ZINC000002047327
PIC UniChem SureChEMBL SCHEMBL4593335
PIC UniChem BindingDb 50103227
PIC UniChem 'Probes And Drugs' PD004437
PIC UniChem Nikkaji J1.061.251I
PIC UniChem 'PubChem TPHARMA' 14949508
PIC UniChem PubChem 1854
#
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
PIC C1 -3.138 0.679 -0.758 ETKDGv3 1
PIC C2 -1.637 0.695 -0.596 ETKDGv3 2
PIC C3 -1.021 1.704 0.051 ETKDGv3 3
PIC C7 3.343 -0.456 -0.463 ETKDGv3 4
PIC C8 2.657 -1.588 -1.151 ETKDGv3 5
PIC C9 1.333 -1.599 -1.350 ETKDGv3 6
PIC C10 0.501 -0.474 -0.888 ETKDGv3 7
PIC C11 -0.827 -0.458 -1.074 ETKDGv3 8
PIC C12 4.811 -0.501 -0.273 ETKDGv3 9
PIC C4 0.443 1.688 0.248 ETKDGv3 10
PIC C5 1.169 0.653 -0.199 ETKDGv3 11
PIC C6 2.633 0.599 -0.016 ETKDGv3 12
PIC O1 5.474 0.544 0.367 ETKDGv3 13
PIC O2 5.475 -1.487 -0.691 ETKDGv3 14
PIC F1 -3.632 1.968 -0.875 ETKDGv3 15
PIC F2 -3.488 -0.019 -1.901 ETKDGv3 16
PIC P -3.909 -0.126 0.683 ETKDGv3 17
PIC OP1 -3.291 -1.691 0.861 ETKDGv3 18
PIC OP2 -5.584 -0.210 0.457 ETKDGv3 19
PIC OP3 -3.610 0.672 1.932 ETKDGv3 20
PIC HC3 -1.588 2.539 0.445 ETKDGv3 21
PIC HC8 3.238 -2.431 -1.504 ETKDGv3 22
PIC HC9 0.877 -2.442 -1.855 ETKDGv3 23
PIC HC11 -1.315 -1.290 -1.568 ETKDGv3 24
PIC HC4 0.916 2.517 0.760 ETKDGv3 25
PIC HC6 3.128 1.423 0.486 ETKDGv3 26
PIC HO1 6.478 0.519 0.499 ETKDGv3 27
PIC HOP1 -3.557 -2.163 0.032 ETKDGv3 28
PIC HOP2 -5.879 0.733 0.380 ETKDGv3 29
#