data_PHE
#
_chem_comp.id PHE
_chem_comp.name PHENYLALANINE
_chem_comp.type "L-PEPTIDE LINKING"
_chem_comp.pdbx_type ATOMP
_chem_comp.formula "C9 H11 N O2"
_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 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 165.189
_chem_comp.one_letter_code F
_chem_comp.three_letter_code PHE
_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 ?
_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
PHE N N N 0 1 N N N Y Y N 3.260 22.302 6.000 1.317 0.962 1.014 N PHE 1
PHE CA CA C 0 1 N N S Y N N 4.252 21.272 5.710 -0.020 0.426 1.300 CA PHE 2
PHE C C C 0 1 N N N Y N Y 5.559 21.899 5.229 -0.109 0.047 2.756 C PHE 3
PHE O O O 0 1 N N N Y N Y 5.836 21.838 4.012 0.879 -0.317 3.346 O PHE 4
PHE CB CB C 0 1 N N N N N N 3.708 20.298 4.656 -0.270 -0.809 0.434 CB PHE 5
PHE CG CG C 0 1 Y N N N N N 4.596 19.106 4.406 -0.181 -0.430 -1.020 CG PHE 6
PHE CD1 CD1 C 0 1 Y N N N N N 5.077 18.339 5.467 1.031 -0.498 -1.680 CD1 PHE 7
PHE CD2 CD2 C 0 1 Y N N N N N 4.927 18.732 3.109 -1.314 -0.018 -1.698 CD2 PHE 8
PHE CE1 CE1 C 0 1 Y N N N N N 5.874 17.219 5.237 1.112 -0.150 -3.015 CE1 PHE 9
PHE CE2 CE2 C 0 1 Y N N N N N 5.718 17.618 2.867 -1.231 0.333 -3.032 CE2 PHE 10
PHE CZ CZ C 0 1 Y N N N N N 6.193 16.860 3.932 -0.018 0.265 -3.691 CZ PHE 11
PHE OXT OXT O 0 1 N Y N Y N Y 6.283 22.460 6.079 -1.286 0.113 3.396 OXT PHE 12
PHE H H H 0 1 N N N Y Y N 2.387 21.883 6.321 1.975 0.230 1.235 H PHE 13
PHE H2 HN2 H 0 1 N Y N Y Y N 3.111 22.918 5.201 1.365 1.104 0.017 H2 PHE 14
PHE HA HA H 0 1 N N N Y N N 4.460 20.708 6.649 -0.770 1.184 1.076 HA PHE 15
PHE HB2 1HB H 0 1 N N N N N N 2.676 19.968 4.922 0.480 -1.568 0.659 HB2 PHE 16
PHE HB3 2HB H 0 1 N N N N N N 3.493 20.833 3.701 -1.262 -1.207 0.646 HB3 PHE 17
PHE HD1 HD1 H 0 1 N N N N N N 4.823 18.622 6.502 1.915 -0.824 -1.152 HD1 PHE 18
PHE HD2 HD2 H 0 1 N N N N N N 4.556 19.328 2.258 -2.262 0.034 -1.183 HD2 PHE 19
PHE HE1 HE1 H 0 1 N N N N N N 6.250 16.619 6.083 2.060 -0.203 -3.530 HE1 PHE 20
PHE HE2 HE2 H 0 1 N N N N N N 5.968 17.335 1.830 -2.116 0.659 -3.560 HE2 PHE 21
PHE HZ HZ H 0 1 N N N N N N 6.822 15.974 3.741 0.045 0.538 -4.734 HZ PHE 22
PHE HXT HXT H 0 1 N Y N Y N Y 7.096 22.850 5.779 -1.343 -0.130 4.330 HXT PHE 23
#
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
PHE N CA SING N N 1
PHE N H SING N N 2
PHE N H2 SING N N 3
PHE CA C SING N N 4
PHE CA CB SING N N 5
PHE CA HA SING N N 6
PHE C O DOUB N N 7
PHE C OXT SING N N 8
PHE CB CG SING N N 9
PHE CB HB2 SING N N 10
PHE CB HB3 SING N N 11
PHE CG CD1 DOUB Y N 12
PHE CG CD2 SING Y N 13
PHE CD1 CE1 SING Y N 14
PHE CD1 HD1 SING N N 15
PHE CD2 CE2 DOUB Y N 16
PHE CD2 HD2 SING N N 17
PHE CE1 CZ DOUB Y N 18
PHE CE1 HE1 SING N N 19
PHE CE2 CZ SING Y N 20
PHE CE2 HE2 SING N N 21
PHE CZ HZ SING N N 22
PHE OXT HXT SING N N 23
#
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
PHE SMILES ACDLabs 10.04 O=C(O)C(N)Cc1ccccc1
PHE SMILES_CANONICAL CACTVS 3.341 N[C@@H](Cc1ccccc1)C(O)=O
PHE SMILES CACTVS 3.341 N[CH](Cc1ccccc1)C(O)=O
PHE SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 c1ccc(cc1)C[C@@H](C(=O)O)N
PHE SMILES "OpenEye OEToolkits" 1.5.0 c1ccc(cc1)CC(C(=O)O)N
PHE InChI InChI 1.03 InChI=1S/C9H11NO2/c10-8(9(11)12)6-7-4-2-1-3-5-7/h1-5,8H,6,10H2,(H,11,12)/t8-/m0/s1
PHE InChIKey InChI 1.03 COLNVLDHVKWLRT-QMMMGPOBSA-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
PHE "SYSTEMATIC NAME" ACDLabs 10.04 L-phenylalanine
PHE "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2S)-2-amino-3-phenyl-propanoic 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
PHE 'Create component' 1999-07-08 EBI
PHE 'Modify descriptor' 2011-06-04 RCSB
PHE 'Modify backbone' 2023-11-03 PDBE
#
_pdbe_chem_comp_drugbank_details.comp_id PHE
_pdbe_chem_comp_drugbank_details.drugbank_id DB00120
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Phenylalanine
_pdbe_chem_comp_drugbank_details.description
'Phenylalanine is an essential aromatic amino acid that is a precursor of melanin, [dopamine], [noradrenalin] (norepinephrine), and [thyroxine].'
_pdbe_chem_comp_drugbank_details.cas_number 63-91-2
_pdbe_chem_comp_drugbank_details.mechanism_of_action
"The supposed antidepressant effects of L-phenylalanine may be due to its role as a precursor in the synthesis of the neurotransmitters norepinephrine and dopamine. Elevated brain norepinephrine and dopamine levels are thought to be associated with antidepressant effects. The mechanism of L-phenylalanine's possible antivitiligo activity is not well understood. It is thought that L-phenylalanine may stimulate the production of melanin in the affected skin"
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
PHE '(S)-2-Amino-3-phenylpropionic acid' DrugBank ?
PHE '(S)-alpha-Amino-beta-phenylpropionic acid' DrugBank ?
PHE 3-phenyl-L-alanine DrugBank ?
PHE beta-Phenyl-L-alanine DrugBank ?
PHE F DrugBank ?
PHE L-Phenylalanine DrugBank ?
PHE Phe DrugBank ?
PHE Phenylalanine DrugBank ?
PHE Phenylalaninum DrugBank ?
PHE 'β-phenyl-L-alanine' DrugBank ?
#
_pdbe_chem_comp_drugbank_classification.comp_id PHE
_pdbe_chem_comp_drugbank_classification.drugbank_id DB00120
_pdbe_chem_comp_drugbank_classification.parent 'Phenylalanine and derivatives'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Carboxylic acids and derivatives'
_pdbe_chem_comp_drugbank_classification.superclass 'Organic acids and derivatives'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as phenylalanine and derivatives. These are compounds containing phenylalanine or a derivative thereof resulting from reaction of phenylalanine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom.'
#
loop_
_pdbe_chem_comp_drugbank_targets.comp_id
_pdbe_chem_comp_drugbank_targets.drugbank_id
_pdbe_chem_comp_drugbank_targets.name
_pdbe_chem_comp_drugbank_targets.organism
_pdbe_chem_comp_drugbank_targets.uniprot_id
_pdbe_chem_comp_drugbank_targets.pharmacologically_active
_pdbe_chem_comp_drugbank_targets.ordinal
PHE DB00120 'Tyrosine aminotransferase' Humans P17735 unknown 1
PHE DB00120 'Large neutral amino acids transporter small subunit 2' Humans Q9UHI5 unknown 2
PHE DB00120 'Phenylalanine--tRNA ligase alpha subunit' Humans Q9Y285 unknown 3
PHE DB00120 Phenylalanine-4-hydroxylase Humans P00439 unknown 4
PHE DB00120 'Phenylalanine--tRNA ligase, mitochondrial' Humans O95363 unknown 5
PHE DB00120 'Phenylalanine--tRNA ligase beta subunit' Humans Q9NSD9 unknown 6
PHE DB00120 'Tyrosine 3-monooxygenase' Humans P07101 unknown 7
#
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
PHE N N 5.598 2.910 1
PHE CA C 5.598 1.410 2
PHE C C 6.897 0.660 3
PHE O O 8.196 1.410 4
PHE CB C 4.299 0.660 5
PHE CG C 4.299 -0.840 6
PHE CD1 C 3.000 -1.590 7
PHE CD2 C 5.598 -1.590 8
PHE CE1 C 3.000 -3.090 9
PHE CE2 C 5.598 -3.090 10
PHE CZ C 4.299 -3.840 11
PHE OXT O 6.897 -0.840 12
#
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
PHE CA N SINGLE BEGINDASH 1
PHE CA C SINGLE NONE 2
PHE CA CB SINGLE NONE 3
PHE C O DOUBLE NONE 4
PHE C OXT SINGLE NONE 5
PHE CB CG SINGLE NONE 6
PHE CG CD1 DOUBLE NONE 7
PHE CG CD2 SINGLE NONE 8
PHE CD1 CE1 SINGLE NONE 9
PHE CD2 CE2 DOUBLE NONE 10
PHE CE1 CZ DOUBLE NONE 11
PHE CE2 CZ SINGLE NONE 12
#
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
PHE MurckoScaffold S1 scaffold c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
PHE peptide F1 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
PHE 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
PHE CG S1 1
PHE CD1 S1 1
PHE CD2 S1 1
PHE CE1 S1 1
PHE CE2 S1 1
PHE CZ S1 1
PHE O F1 1
PHE C F1 1
PHE CA F1 1
PHE N F1 1
PHE CG F2 1
PHE CD1 F2 1
PHE CE1 F2 1
PHE CZ F2 1
PHE CE2 F2 1
PHE CD2 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id PHE
_pdbe_chem_comp_rdkit_properties.exactmw 165.079
_pdbe_chem_comp_rdkit_properties.amw 165.192
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 4
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 12
_pdbe_chem_comp_rdkit_properties.NumAtoms 23
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 3
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.222
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_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 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 86.479
_pdbe_chem_comp_rdkit_properties.tpsa 63.320
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.586
_pdbe_chem_comp_rdkit_properties.CrippenMR 45.491
_pdbe_chem_comp_rdkit_properties.chi0v 5.764
_pdbe_chem_comp_rdkit_properties.chi1v 2.882
_pdbe_chem_comp_rdkit_properties.chi2v 0.937
_pdbe_chem_comp_rdkit_properties.chi3v 0.937
_pdbe_chem_comp_rdkit_properties.chi4v 0.482
_pdbe_chem_comp_rdkit_properties.chi0n 16.764
_pdbe_chem_comp_rdkit_properties.chi1n 8.185
_pdbe_chem_comp_rdkit_properties.chi2n 0.937
_pdbe_chem_comp_rdkit_properties.chi3n 0.937
_pdbe_chem_comp_rdkit_properties.chi4n 0.482
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.350
_pdbe_chem_comp_rdkit_properties.kappa1 2.116
_pdbe_chem_comp_rdkit_properties.kappa2 3.875
_pdbe_chem_comp_rdkit_properties.kappa3 2.359
_pdbe_chem_comp_rdkit_properties.Phi 0.683
#
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
PHE UniChem ChEMBL CHEMBL301523
PHE UniChem DrugBank DB00120
PHE UniChem PDBe PHE
PHE UniChem 'Guide to Pharmacology' 3313
PHE UniChem 'KEGG LIGAND' C00079
PHE UniChem ChEBI 17295
PHE UniChem ChEBI 58095
PHE UniChem ZINC ZINC000000105196
PHE UniChem fdasrs 47E5O17Y3R
PHE UniChem SureChEMBL SCHEMBL23141074
PHE UniChem PharmGKB PA450931
PHE UniChem HMDB HMDB0000159
PHE UniChem NMRShiftDB 60018678
PHE UniChem ACTor 10549-09-4
PHE UniChem Recon 'phe_L'
PHE UniChem BindingDb 18073
PHE UniChem 'EPA CompTox Dashboard' DTXSID4040763
PHE UniChem DrugCentral 2144
PHE UniChem MetaboLights MTBLC17295
PHE UniChem MetaboLights MTBLC58095
PHE UniChem BRENDA 104
PHE UniChem BRENDA 145037
PHE UniChem BRENDA 145949
PHE UniChem BRENDA 171017
PHE UniChem BRENDA 171018
PHE UniChem BRENDA 197770
PHE UniChem BRENDA 203
PHE UniChem BRENDA 229559
PHE UniChem BRENDA 234204
PHE UniChem BRENDA 260103
PHE UniChem BRENDA 379
PHE UniChem BRENDA 429
PHE UniChem BRENDA 46062
PHE UniChem Rhea 58095
PHE UniChem ChemicalBook CB2488691
PHE UniChem ChemicalBook CB51568650
PHE UniChem DailyMed PHENYLALANINE
PHE UniChem ClinicalTrials L-PHENYLALANINE
PHE UniChem ClinicalTrials PHENYLALANINE
PHE UniChem rxnorm PHENYLALANINE
PHE UniChem MedChemExpress HY-N0215
PHE UniChem 'Probes And Drugs' PD010232
PHE UniChem Nikkaji J9.175H
PHE UniChem eMolecules 26757996
PHE UniChem eMolecules 514492
PHE UniChem SureChEMBL SCHEMBL8119
PHE UniChem 'PubChem TPHARMA' 15219430
PHE UniChem PubChem 6140
PHE UniChem PubChem 6925665
PHE UniChem Mcule MCULE-4249753593
PHE UniChem Mcule MCULE-5960921520
#
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
PHE N -3.214 -0.298 0.685 ETKDGv3 1
PHE CA -1.824 0.124 0.501 ETKDGv3 2
PHE C -1.779 1.353 -0.364 ETKDGv3 3
PHE O -2.342 1.360 -1.492 ETKDGv3 4
PHE CB -0.975 -1.016 -0.102 ETKDGv3 5
PHE CG 0.491 -0.665 -0.125 ETKDGv3 6
PHE CD1 1.065 -0.168 -1.236 ETKDGv3 7
PHE CD2 1.304 -0.815 1.108 ETKDGv3 8
PHE CE1 2.495 0.204 -1.233 ETKDGv3 9
PHE CE2 2.598 -0.473 1.108 ETKDGv3 10
PHE CZ 3.224 0.060 -0.119 ETKDGv3 11
PHE OXT -1.087 2.479 0.072 ETKDGv3 12
PHE H -3.239 -1.065 1.395 ETKDGv3 13
PHE H2 -3.581 -0.695 -0.212 ETKDGv3 14
PHE HA -1.409 0.386 1.500 ETKDGv3 15
PHE HB2 -1.335 -1.262 -1.126 ETKDGv3 16
PHE HB3 -1.108 -1.934 0.512 ETKDGv3 17
PHE HD1 0.489 -0.030 -2.143 ETKDGv3 18
PHE HD2 0.851 -1.201 2.013 ETKDGv3 19
PHE HE1 2.951 0.598 -2.132 ETKDGv3 20
PHE HE2 3.189 -0.584 2.009 ETKDGv3 21
PHE HZ 4.271 0.334 -0.115 ETKDGv3 22
PHE HXT -1.034 3.311 -0.504 ETKDGv3 23
#