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FARSB phenylalanyl-tRNA synthetase subunit beta [ Homo sapiens (human) ]

Gene ID: 10056, updated on 10-Dec-2024

Summary

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Official Symbol
FARSBprovided by HGNC
Official Full Name
phenylalanyl-tRNA synthetase subunit betaprovided by HGNC
Primary source
HGNC:HGNC:17800
See related
Ensembl:ENSG00000116120 MIM:609690; AllianceGenome:HGNC:17800
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
FRSB; RJBS; PheHB; PheRS; FARSLB; RILDBC; HSPC173; NEDBLLA; RILDBC1
Summary
This gene encodes a highly conserved enzyme that belongs to the aminoacyl-tRNA synthetase class IIc subfamily. This enzyme comprises the regulatory beta subunits that form a tetramer with two catalytic alpha subunits. In the presence of ATP, this tetramer is responsible for attaching L-phenylalanine to the terminal adenosine of the appropriate tRNA. A pseudogene located on chromosome 10 has been identified. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2015]
Expression
Ubiquitous expression in brain (RPKM 8.3), testis (RPKM 8.2) and 25 other tissues See more
Orthologs
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Genomic context

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See FARSB in Genome Data Viewer
Location:
2q36.1
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (222566899..222656092, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (223052236..223141156, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (223431618..223520811, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene sphingosine-1-phosphate phosphatase 2 Neighboring gene RNA, U6 small nuclear 619, pseudogene Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr2:223383170-223383762 Neighboring gene glyceraldehyde 3 phosphate dehydrogenase pseudogene 49 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:223400343-223400843 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12372 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:223502966-223503113 Neighboring gene uncharacterized LOC105373902 Neighboring gene tripartite motif containing 60 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17167 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:223521038-223521234 Neighboring gene uncharacterized LOC124907985 Neighboring gene monoacylglycerol O-acyltransferase 1 Neighboring gene RRAS2 pseudogene 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Phenylalanyl-tRNA synthetase of the human placenta. Evidence for different enzymatic forms in equilibrium. Archambault de Vencay J, et al. FEBS Lett, 1978 May 1. PMID 658405
  2. Crystal structure of human mitochondrial PheRS complexed with tRNA(Phe) in the active "open" state. Klipcan L, et al. J Mol Biol, 2012 Jan 20. PMID 22137894
  3. Use of germline polymorphisms in predicting concurrent chemoradiotherapy response in esophageal cancer. Chen PC, et al. Int J Radiat Oncol Biol Phys, 2012 Apr 1. PMID 21596488
  4. Role of low-molecular-weight substrates in functional binding of the tRNAPhe acceptor end by phenylalanyl-tRNA synthetase. Vasil'eva IA, et al. Biochemistry (Mosc), 2004 Feb. PMID 15000680
  5. A series of spirocyclic analogues as potent inhibitors of bacterial phenylalanyl-tRNA synthetases. Yu XY, et al. Bioorg Med Chem Lett, 2004 Mar 8. PMID 14980694

See all (132) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. FARSB Facilitates Hepatocellular Carcinoma Progression by Activating the mTORC1 Signaling Pathway.
    Title: FARSB Facilitates Hepatocellular Carcinoma Progression by Activating the mTORC1 Signaling Pathway.
  2. Contribution of upregulated aminoacyl-tRNA biosynthesis to metabolic dysregulation in gastric cancer.
    Title: Contribution of upregulated aminoacyl-tRNA biosynthesis to metabolic dysregulation in gastric cancer.
  3. FARSA mutations mimic phenylalanyl-tRNA synthetase deficiency caused by FARSB defects.
    Title: FARSA mutations mimic phenylalanyl-tRNA synthetase deficiency caused by FARSB defects.
  4. This study further implicates FARSB mutations in a multisystem, recessive, neurodevelopmental phenotype that share clinical features with the previously known aminoacyl-tRNA synthetase-related diseases.
    Title: Homozygosity for FARSB mutation leads to Phe-tRNA synthetase-related disease of growth restriction, brain calcification, and interstitial lung disease.
  5. Expression studies using fibroblasts isolated from the proband revealed a severe depletion of both FARSB and FARSA protein levels. These data indicate that the FARSB variants destabilize total phenylalanyl-tRNA synthetase levels, thus causing a loss-of-function effect.
    Title: Compound heterozygosity for loss-of-function FARSB variants in a patient with classic features of recessive aminoacyl-tRNA synthetase-related disease.
  6. Human PheRS recognizes C74, the G1-C72 base pair, and the "discriminator" base A73, proposed to contribute to tRNA(Phe) identity in the yeast mitochondrial enzyme.
    Title: Crystal structure of human mitochondrial PheRS complexed with tRNA(Phe) in the active "open" state.
  7. Structure of human cytosolic phenylalanyl-tRNA synthetase: evidence for kingdom-specific design of the active sites and tRNA binding patterns
    Title: Structure of human cytosolic phenylalanyl-tRNA synthetase: evidence for kingdom-specific design of the active sites and tRNA binding patterns.
  8. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Associated conditions

Description Tests
Rajab interstitial lung disease with brain calcifications 1
MedGen: C5436276 OMIM: 613658 GeneReviews: Not available
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Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables magnesium ion binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables phenylalanine-tRNA ligase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in phenylalanyl-tRNA aminoacylation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in phenylalanyl-tRNA aminoacylation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein heterotetramerization IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in translation TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm NAS
Non-traceable Author Statement
more info
 PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in membrane HDA PubMed 
part_of phenylalanine-tRNA ligase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of phenylalanine-tRNA ligase complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of phenylalanine-tRNA ligase complex IPI
Inferred from Physical Interaction
more info
 PubMed 

General protein information

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Preferred Names
phenylalanine--tRNA ligase beta subunit
Names
phenylalanine tRNA ligase 1, beta, cytoplasmic
phenylalanine-tRNA ligase beta chain
phenylalanine-tRNA synthetase-like, beta subunit
phenylalanyl-tRNA synthetase beta chain
phenylalanyl-tRNA synthetase beta subunit
phenylalanyl-tRNA synthetase-like, beta subunit
NP_005678.3
XP_006712232.1
XP_011508768.1
XP_054196057.1
XP_054196058.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_005687.5 → NP_005678.3  phenylalanine--tRNA ligase beta subunit

    See identical proteins and their annotated locations for NP_005678.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the shorter transcript and encodes the functional protein.
    Source sequence(s)
    AC097461, AF042346, BG721840
    Consensus CDS
    CCDS2454.1
    UniProtKB/Swiss-Prot
    B4DFM0, O95708, Q4ZFX1, Q57ZJ5, Q9NSD9, Q9NZZ6
    UniProtKB/TrEMBL
    A8K666
    Related
    ENSP00000281828.6, ENST00000281828.8
    Conserved Domains (4) summary
    smart00873
    Location:118 → 279
    B3_4; B3/4 domain
    PLN02265
    Location:1 → 589
    PLN02265; probable phenylalanyl-tRNA synthetase beta chain
    cd00769
    Location:392 → 588
    PheRS_beta_core; Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an ...
    pfam03484
    Location:310 → 374
    B5; tRNA synthetase B5 domain

RNA

  1. NR_130154.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC097461, BC022273

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    222566899..222656092 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011510466.3 → XP_011508768.1  phenylalanine--tRNA ligase beta subunit isoform X1

    See identical proteins and their annotated locations for XP_011508768.1

    UniProtKB/TrEMBL
    B7ZB32
    Conserved Domains (1) summary
    cl27259
    Location:1 → 490
    B5; tRNA synthetase B5 domain

  2. XM_006712169.3 → XP_006712232.1  phenylalanine--tRNA ligase beta subunit isoform X1

    See identical proteins and their annotated locations for XP_006712232.1

    UniProtKB/TrEMBL
    B7ZB32
    Conserved Domains (1) summary
    cl27259
    Location:1 → 490
    B5; tRNA synthetase B5 domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    223052236..223141156 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054340083.1 → XP_054196058.1  phenylalanine--tRNA ligase beta subunit isoform X1

    UniProtKB/TrEMBL
    B7ZB32

  2. XM_054340082.1 → XP_054196057.1  phenylalanine--tRNA ligase beta subunit isoform X1

    UniProtKB/TrEMBL
    B7ZB32
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9NSD9.3 GenPept UniProtKB/Swiss-Prot:Q9NSD9

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