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Entry version 187 (10 Feb 2021)
Sequence version 3 (05 Sep 2006)
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Protein

Phenylalanine--tRNA ligase, mitochondrial

Gene

MSF1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Is responsible for the charging of tRNA(Phe) with phenylalanine in mitochondrial translation.

Miscellaneous

Present with 1800 molecules/cell in log phase SD medium.1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei155SubstrateBy similarity1
Binding sitei302Substrate; via carbonyl oxygenBy similarity1
Binding sitei329Substrate; via carbonyl oxygenBy similarity1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionAminoacyl-tRNA synthetase, Ligase
Biological processProtein biosynthesis
LigandATP-binding, Nucleotide-binding

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Phenylalanine--tRNA ligase, mitochondrial (EC:6.1.1.20)
Alternative name(s):
Phenylalanyl-tRNA synthetase
Short name:
PheRS
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:MSF1
Ordered Locus Names:YPR047W
ORF Names:YP9499.05
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri559292 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000002311 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome XVI

Organism-specific databases

Saccharomyces Genome Database

More...
SGDi
S000006251, MSF1

Eukaryotic Pathogen, Vector and Host Database Resources

More...
VEuPathDBi
FungiDB:YPR047W

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Mitochondrion

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a transit peptide.<p><a href='/help/transit' target='_top'>More...</a></p>Transit peptidei1 – 17MitochondrionAdd BLAST17
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_000003581718 – 469Phenylalanine--tRNA ligase, mitochondrialAdd BLAST452

Proteomic databases

MaxQB - The MaxQuant DataBase

More...
MaxQBi
P08425

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
P08425

PRoteomics IDEntifications database

More...
PRIDEi
P08425

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Monomer.

1 Publication

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
36223, 88 interactors

Database of interacting proteins

More...
DIPi
DIP-3901N

Protein interaction database and analysis system

More...
IntActi
P08425, 1 interactor

Molecular INTeraction database

More...
MINTi
P08425

STRING: functional protein association networks

More...
STRINGi
4932.YPR047W

Miscellaneous databases

RNAct, Protein-RNA interaction predictions for model organisms.

More...
RNActi
P08425, protein

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P08425

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini372 – 469FDX-ACBPROSITE-ProRule annotationAdd BLAST98

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni126 – 129Substrate bindingBy similarity4
Regioni162 – 164Substrate bindingBy similarity3
Regioni169 – 171Substrate bindingBy similarity3

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG2783, Eukaryota

Ensembl GeneTree

More...
GeneTreei
ENSGT00940000158071

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_022696_0_1_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P08425

Identification of Orthologs from Complete Genome Data

More...
OMAi
QPSWELE

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.30.70.380, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR006195, aa-tRNA-synth_II
IPR005121, Fdx_antiC-bd
IPR036690, Fdx_antiC-bd_sf
IPR004530, Phe-tRNA-synth_IIc_mito
IPR002319, Phenylalanyl-tRNA_Synthase

The PANTHER Classification System

More...
PANTHERi
PTHR11538:SF41, PTHR11538:SF41, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF03147, FDX-ACB, 1 hit
PF01409, tRNA-synt_2d, 2 hits

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00896, FDX-ACB, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF54991, SSF54991, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00469, pheS_mito, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50862, AA_TRNA_LIGASE_II, 1 hit
PS51447, FDX_ACB, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

P08425-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MFLNRMMKTR TGLYRLYSTL KVPHVEINGI KYKTDPQTTN VTDSIIKLTD
60 70 80 90 100
RSLHLKESHP VGILRDLIEK KLNSVDNTFK IFNNFKPVVT TMENFDSLGF
110 120 130 140 150
PKDHPGRSKS DTYYINETHL LRTHTSAHEL ECFQKIRNDS DNIKSGFLIS
160 170 180 190 200
ADVYRRDEID KTHYPVFHQM EGATIWKRTK ADVGVKEPMY IEKIREDIRQ
210 220 230 240 250
VENLLNKENV KITVDDDTIP LKENNPKQEY MSDLEVDLCS QHLKRSIELI
260 270 280 290 300
VSEVFNKKIS SMIKNKANNT PKELKVRWIN AYFPWTAPSW EIEVWWQGEW
310 320 330 340 350
LELCGCGLIR QDVLLRAGYK PSETIGWAFG LGLDRIAMLL FEIPDIRLLW
360 370 380 390 400
SRDERFSRQF SKGLITSFKP YSKHPGSFRD VAFWLPEDKP DIHQVHENDL
410 420 430 440 450
MEIIRNIAGD LVESVKLVDS FTHPKTGRKS MCYRINYQSM DRNLTNAEVN
460
TLQDMVCSKL VKEYSVELR
Length:469
Mass (Da):54,829
Last modified:September 5, 2006 - v3
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iE728783D76C74C18
GO

<p>This subsection of the 'Sequence' section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence AAA34800 differs from that shown. Reason: Erroneous initiation.Curated
The sequence CAA89167 differs from that shown. Reason: Erroneous initiation.Curated
The sequence CAA94994 differs from that shown. Reason: Erroneous initiation.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti86K → E in AAA34800 (PubMed:3029120).Curated1
Sequence conflicti233D → H in AAA34800 (PubMed:3029120).Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
J02691 Genomic DNA Translation: AAA34800.1 Different initiation.
Z71255 Genomic DNA Translation: CAA94994.1 Different initiation.
Z49219 Genomic DNA Translation: CAA89167.1 Different initiation.
BK006949 Genomic DNA Translation: DAA11471.1

Protein sequence database of the Protein Information Resource

More...
PIRi
S54071, YFBYAM

NCBI Reference Sequences

More...
RefSeqi
NP_015372.2, NM_001184144.1

Genome annotation databases

Ensembl fungal genome annotation project

More...
EnsemblFungii
YPR047W_mRNA; YPR047W; YPR047W

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
856160

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
sce:YPR047W

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02691 Genomic DNA Translation: AAA34800.1 Different initiation.
Z71255 Genomic DNA Translation: CAA94994.1 Different initiation.
Z49219 Genomic DNA Translation: CAA89167.1 Different initiation.
BK006949 Genomic DNA Translation: DAA11471.1
PIRiS54071, YFBYAM
RefSeqiNP_015372.2, NM_001184144.1

3D structure databases

SMRiP08425
ModBaseiSearch...

Protein-protein interaction databases

BioGRIDi36223, 88 interactors
DIPiDIP-3901N
IntActiP08425, 1 interactor
MINTiP08425
STRINGi4932.YPR047W

Proteomic databases

MaxQBiP08425
PaxDbiP08425
PRIDEiP08425

Genome annotation databases

EnsemblFungiiYPR047W_mRNA; YPR047W; YPR047W
GeneIDi856160
KEGGisce:YPR047W

Organism-specific databases

SGDiS000006251, MSF1
VEuPathDBiFungiDB:YPR047W

Phylogenomic databases

eggNOGiKOG2783, Eukaryota
GeneTreeiENSGT00940000158071
HOGENOMiCLU_022696_0_1_1
InParanoidiP08425
OMAiQPSWELE

Miscellaneous databases

Protein Ontology

More...
PROi
PR:P08425
RNActiP08425, protein

Family and domain databases

Gene3Di3.30.70.380, 1 hit
InterProiView protein in InterPro
IPR006195, aa-tRNA-synth_II
IPR005121, Fdx_antiC-bd
IPR036690, Fdx_antiC-bd_sf
IPR004530, Phe-tRNA-synth_IIc_mito
IPR002319, Phenylalanyl-tRNA_Synthase
PANTHERiPTHR11538:SF41, PTHR11538:SF41, 1 hit
PfamiView protein in Pfam
PF03147, FDX-ACB, 1 hit
PF01409, tRNA-synt_2d, 2 hits
SMARTiView protein in SMART
SM00896, FDX-ACB, 1 hit
SUPFAMiSSF54991, SSF54991, 1 hit
TIGRFAMsiTIGR00469, pheS_mito, 1 hit
PROSITEiView protein in PROSITE
PS50862, AA_TRNA_LIGASE_II, 1 hit
PS51447, FDX_ACB, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiSYFM_YEAST
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P08425
Secondary accession number(s): D6W455, Q12410
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 1, 1988
Last sequence update: September 5, 2006
Last modified: February 10, 2021
This is version 187 of the entry and version 3 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Reference proteome

Documents

  1. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast chromosome XVI
    Yeast (Saccharomyces cerevisiae) chromosome XVI: entries and gene names
  4. Aminoacyl-tRNA synthetases
    List of aminoacyl-tRNA synthetase entries
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