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SEPSECS Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase [ Homo sapiens (human) ]

Gene ID: 51091, updated on 23-Nov-2021

Summary

Official Symbol
SEPSECSprovided by HGNC
Official Full Name
Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthaseprovided by HGNC
Primary source
HGNC:HGNC:30605
See related
Ensembl:ENSG00000109618 MIM:613009
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
LP; SLA; PCH2D; SLA/LP
Summary
The amino acid selenocysteine is the only amino acid that does not have its own tRNA synthetase. Instead, this amino acid is synthesized on its cognate tRNA in a three step process. The protein encoded by this gene catalyzes the third step in the process, the conversion of O-phosphoseryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec).[provided by RefSeq, Mar 2011]
Expression
Ubiquitous expression in liver (RPKM 7.2), duodenum (RPKM 5.0) and 25 other tissues See more
Orthologs
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Genomic context

See SEPSECS in Genome Data Viewer
Location:
4p15.2
Exon count:
13
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (25120014..25160546, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (25121636..25162071, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102723675 Neighboring gene leucine rich repeat LGI family member 2 Neighboring gene uncharacterized LOC105374534 Neighboring gene SEPSECS antisense RNA 1 (head to head) Neighboring gene uncharacterized LOC105374535 Neighboring gene phosphatidylinositol 4-kinase type 2 beta

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Pr55(Gag) gag HIV-1 Gag is identified to have a physical interaction with Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase (SEPSECS) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed
matrix gag HIV-1 MA is identified to have a physical interaction with Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase (SEPSECS) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC161491, DKFZp434B1417

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables phosphoseryl-selenocysteinyl-tRNA selenium transferase activity IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables tRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables tRNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
Process Evidence Code Pubs
involved_in selenocysteine incorporation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in selenocysteine incorporation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in selenocysteinyl-tRNA(Sec) biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
O-phosphoseryl-tRNA(Sec) selenium transferase
Names
SLA-p35
SLA/LP autoantigen
UGA suppressor tRNA-associated protein
liver-pancreas antigen
soluble liver antigen
soluble liver antigen/liver pancreas antigen
tRNA(Ser/Sec)-associated antigenic protein
NP_058651.3
XP_011512148.1
XP_011512149.1
XP_011512150.1
XP_016863766.1
XP_016863767.1

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.

Genomic

  1. NG_028222.1 RefSeqGene

    Range
    5134..45569
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_016955.4NP_058651.3  O-phosphoseryl-tRNA(Sec) selenium transferase

    See identical proteins and their annotated locations for NP_058651.3

    Status: REVIEWED

    Source sequence(s)
    AC007073, AK292476, AW515989, BX648976, CN429794, DA155173
    Consensus CDS
    CCDS3432.2
    UniProtKB/Swiss-Prot
    Q9HD40
    Related
    ENSP00000371535.2, ENST00000382103.7
    Conserved Domains (1) summary
    TIGR03531
    Location:12458
    selenium_SpcS; O-phosphoseryl-tRNA(Sec) selenium transferase

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p13 Primary Assembly

    Range
    25120014..25160546 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017008277.1XP_016863766.1  O-phosphoseryl-tRNA(Sec) selenium transferase isoform X1

    Related
    ENSP00000505991.1, ENST00000681948.1
  2. XM_017008278.1XP_016863767.1  O-phosphoseryl-tRNA(Sec) selenium transferase isoform X5

  3. XM_011513848.1XP_011512150.1  O-phosphoseryl-tRNA(Sec) selenium transferase isoform X4

    See identical proteins and their annotated locations for XP_011512150.1

    UniProtKB/Swiss-Prot
    Q9HD40
    UniProtKB/TrEMBL
    A1A4F3
    Related
    ENST00000680824.1
    Conserved Domains (1) summary
    TIGR03531
    Location:1398
    selenium_SpcS; O-phosphoseryl-tRNA(Sec) selenium transferase
  4. XM_011513846.2XP_011512148.1  O-phosphoseryl-tRNA(Sec) selenium transferase isoform X2

    See identical proteins and their annotated locations for XP_011512148.1

    UniProtKB/Swiss-Prot
    Q9HD40
    Conserved Domains (1) summary
    TIGR03531
    Location:38457
    selenium_SpcS; O-phosphoseryl-tRNA(Sec) selenium transferase
  5. XM_011513847.2XP_011512149.1  O-phosphoseryl-tRNA(Sec) selenium transferase isoform X3

    Conserved Domains (1) summary
    TIGR03531
    Location:27447
    selenium_SpcS; O-phosphoseryl-tRNA(Sec) selenium transferase

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001159728.1: Suppressed sequence

    Description
    NM_001159728.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
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