SSB small RNA binding exonuclease protection factor La [Homo sapiens (human)] - Gene

Summary

Official Symbol: SSBprovided by HGNC
Official Full Name: small RNA binding exonuclease protection factor Laprovided by HGNC
Primary source: HGNC:HGNC:11316
See related: Ensembl:ENSG00000138385 MIM:109090; AllianceGenome:HGNC:11316
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: La; LARP3; La/SSB
Summary: The protein encoded by this gene is involved in diverse aspects of RNA metabolism, including binding and protecting poly(U) termini of nascent RNA polymerase III transcripts from exonuclease digestion, processing 5' and 3' ends of pre-tRNA precursors, acting as an RNA chaperone, and binding viral RNAs associated with hepatitis C virus. Autoantibodies reacting with this protein are found in the sera of patients with Sjogren syndrome and systemic lupus erythematosus. Alternative promoter usage results in two different transcript variants which encode the same protein. [provided by RefSeq, Jun 2014]
Expression: Ubiquitous expression in fat (RPKM 51.7), thyroid (RPKM 36.0) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 2q31.1

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	2	NC_000002.12 (169798871..169812064)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	2	NC_060926.1 (170276405..170289608)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	2	NC_000002.11 (170655381..170668574)

Chromosome 2 - NC_000002.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

LARP3, LARP7, and MePCE are involved in the early stage of human telomerase RNA biogenesis.
Title: LARP3, LARP7, and MePCE are involved in the early stage of human telomerase RNA biogenesis.
NMR Analysis Suggests Synergy between the RRM2 and the Carboxy-Terminal Segment of Human La Protein in the Recognition and Interaction with HCV IRES.
Title: NMR Analysis Suggests Synergy between the RRM2 and the Carboxy-Terminal Segment of Human La Protein in the Recognition and Interaction with HCV IRES.
Upregulated SSB Is Involved in Hepatocellular Carcinoma Progression and Metastasis through the Epithelial-Mesenchymal Transition, Antiapoptosis, and Altered ROS Level Pathway.
Title: Upregulated SSB Is Involved in Hepatocellular Carcinoma Progression and Metastasis through the Epithelial-Mesenchymal Transition, Antiapoptosis, and Altered ROS Level Pathway.
The RNA-binding protein La/SSB associates with radiation-induced DNA double-strand breaks in lung cancer cell lines.
Title: The RNA-binding protein La/SSB associates with radiation-induced DNA double-strand breaks in lung cancer cell lines.
RNA-binding proteins La and HuR cooperatively modulate translation repression of PDCD4 mRNA.
Title: RNA-binding proteins La and HuR cooperatively modulate translation repression of PDCD4 mRNA.
Sjogren Syndrome antigen B regulates LIN28-let-7 axis in Caenorhabditis elegans and human.
Title: Sjögren Syndrome antigen B regulates LIN28-let-7 axis in Caenorhabditis elegans and human.
Functional and Structural Aspects of La Protein Overexpression in Lung Cancer.
Title: Functional and Structural Aspects of La Protein Overexpression in Lung Cancer.
Data is consistent with human La functioning in translation through contacts to the poly(A) tail.
Title: Human La binds mRNAs through contacts to the poly(A) tail.
Sumoylation of La protein promotes cell proliferation by averting ubiquitination-mediated degradation of the STAT3 protein.
Title: SUMO Modification of the RNA-Binding Protein La Regulates Cell Proliferation and STAT3 Protein Stability.
A cytoplasmic isoform of La protein as well as LARPs 6, 4, and 1 function in mRNA metabolism and translation in distinct but similar ways, sometimes with the poly(A)-binding protein, and in some cases by direct binding to poly(A)-RNA.
Title: The La and related RNA-binding proteins (LARPs): structures, functions, and evolving perspectives.

Submit: New GeneRIF Correction See all GeneRIFs (78)

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
Knockdown of Sjogren syndrome antigen B (SSB) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells	PubMed

Protein interactions

Protein	Gene	Interaction	Pubs
Rev	rev	HIV-1 Rev is identified to have a physical interaction with Sjogren syndrome antigen B ( SSB) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses	PubMed
	rev	HIV-1 Rev interacting protein, Sjogren syndrome antigen B (SSB), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with SSB is increased by RRE	PubMed
Tat	tat	The La autoantigen binds to HIV-1 TAR RNA and alleviates translational repression by the HIV-1 leader RNA, suggesting a possible involvement of the La autoantigen in HIV-1 gene expression and Tat transactivation	PubMed
Vpr	vpr	A stable-isotope labeling by amino acids in cell culture coupled with mass spectrometry-based proteomics identifies downregulation of Sjogren syndrome antigen B (SSB, autoantigen La) expression by HIV-1 Vpr in Vpr transduced macrophages	PubMed
retropepsin	gag-pol	Positional proteomics analysis identifies the cleavage of human Sjogren syndrome antigen B (SSB; autoantigen La) at amino acid residues 24-25 by the HIV-1 protease	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D2S2569 (e-PCR)
- UniSTS:62597

RH12569 (e-PCR)
- UniSTS:86172

D2S2771 (e-PCR)
- UniSTS:25298

RH70881 (e-PCR)
- UniSTS:71156

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RNA binding	HDA more info	PubMed
enables RNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables poly(U) RNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables poly(U) RNA binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific mRNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables tRNA binding	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in IRES-dependent viral translational initiation	IDA Inferred from Direct Assay more info	PubMed
involved_in histone mRNA metabolic process	TAS Traceable Author Statement more info	PubMed
involved_in nuclear histone mRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of translation	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein localization to cytoplasmic stress granule	IDA Inferred from Direct Assay more info	PubMed
involved_in tRNA 3'-end processing	IGI Inferred from Genetic Interaction more info	PubMed
involved_in tRNA 5'-leader removal	IGI Inferred from Genetic Interaction more info	PubMed
involved_in tRNA export from nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in tRNA modification	TAS Traceable Author Statement more info	PubMed
involved_in tRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in tRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in chromosome, telomeric region	HDA more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytoplasmic stress granule	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
part_of ribonucleoprotein complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: lupus La protein

Names: La ribonucleoprotein domain family, member 3; SS-B; SS-B/La protein; Sjogren syndrome antigen B; autoantigen La; la autoantigen; lupus La antigen; sjoegren syndrome type B antigen

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

NG_030640.1 RefSeqGene

Range

5060..18253

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001294145.2 → NP_001281074.1 lupus La protein

See identical proteins and their annotated locations for NP_001281074.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) has an alternate 5' UTR exon and encodes the same protein, compared to variant 1.

Source sequence(s)

BC001289, X69804

Consensus CDS

CCDS2237.1

UniProtKB/Swiss-Prot

P05455, Q15367, Q53XJ4

UniProtKB/TrEMBL

B5BUB5

Related

ENSP00000386636.1, ENST00000409333.1

Conserved Domains (3) summary

cd08028
Location:10 → 91

LARP_3; La RNA-binding domain of La-related protein 3

cd12291
Location:112 → 183

RRM1_La; RNA recognition motif 1 in La autoantigen (La or LARP3) and similar proteins

pfam08777
Location:231 → 334

RRM_3; RNA binding motif
NM_003142.5 → NP_003133.1 lupus La protein

See identical proteins and their annotated locations for NP_003133.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) and variant 2 encode the same protein.

Source sequence(s)

BC001289, CD676196

Consensus CDS

CCDS2237.1

UniProtKB/Swiss-Prot

P05455, Q15367, Q53XJ4

UniProtKB/TrEMBL

B5BUB5

Related

ENSP00000260956.4, ENST00000260956.9

Conserved Domains (3) summary

cd08028
Location:10 → 91

LARP_3; La RNA-binding domain of La-related protein 3

cd12291
Location:112 → 183

RRM1_La; RNA recognition motif 1 in La autoantigen (La or LARP3) and similar proteins

pfam08777
Location:231 → 334

RRM_3; RNA binding motif