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LONRF3 LON peptidase N-terminal domain and ring finger 3 [ Homo sapiens (human) ]

Gene ID: 79836, updated on 3-Apr-2024

Summary

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Official Symbol
LONRF3provided by HGNC
Official Full Name
LON peptidase N-terminal domain and ring finger 3provided by HGNC
Primary source
HGNC:HGNC:21152
See related
Ensembl:ENSG00000175556 AllianceGenome:HGNC:21152
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
RNF127
Summary
The protein encoded by this gene contains a RING finger domain, a motif present in a variety of functionally distinct proteins and known to be involved in protein-protein and protein-DNA interactions. Multiple alternatively spliced transcript variants have been suggested, but their full length natures are not clear. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in thyroid (RPKM 3.2), liver (RPKM 3.1) and 25 other tissues See more
Orthologs
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Genomic context

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See LONRF3 in Genome Data Viewer
Location:
Xq24
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (118974614..119018355)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (117352354..117396078)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (118108577..118152318)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1285 Neighboring gene AKR7A2P pseudogene 1 Neighboring gene COBL pseudogene 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chrX:118125886-118127085 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20952 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chrX:118174593-118175792 Neighboring gene KIAA1210 Neighboring gene cancer/testis antigen family 47 member C1

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. Does this have a familiar RING? Saurin AJ, et al. Trends Biochem Sci, 1996 Jun. PMID 8744354
  2. Induction of IL-17 and nonclassical T-cell activation by HIV-Tat protein. Johnson TP, et al. Proc Natl Acad Sci U S A, 2013 Aug 13. PMID 23898208, Free PMC Article
  3. A comprehensive resource of interacting protein regions for refining human transcription factor networks. Miyamoto-Sato E, et al. PLoS One, 2010 Feb 24. PMID 20195357, Free PMC Article
  4. The DNA sequence of the human X chromosome. Ross MT, et al. Nature, 2005 Mar 17. PMID 15772651, Free PMC Article
  5. High-throughput mapping of a dynamic signaling network in mammalian cells. Barrios-Rodiles M, et al. Science, 2005 Mar 11. PMID 15761153

See all (22) citations in PubMed

GeneRIFs: Gene References Into Functions

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)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat downregulates the expression of LON peptidase N-terminal domain and ring finger 3 (LONRF3) in human primary T cells 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

Homology

Clone Names

  • FLJ22612, MGC119463, MGC119465

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
LON peptidase N-terminal domain and RING finger protein 3
Names
ring finger protein 127

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_012577.1 RefSeqGene

    Range
    4869..48606
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001031855.3 → NP_001027026.1  LON peptidase N-terminal domain and RING finger protein 3 isoform 1

    See identical proteins and their annotated locations for NP_001027026.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AK290198, BC100671, DA249558
    Consensus CDS
    CCDS35374.1
    UniProtKB/Swiss-Prot
    Q496Y0, Q5JPN6, Q8NB00, Q9H647
    UniProtKB/TrEMBL
    A8K2D3
    Related
    ENSP00000360690.3, ENST00000371628.8
    Conserved Domains (6) summary
    cd00162
    Location:466 → 505
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cl19481
    Location:566 → 744
    LON; Found in ATP-dependent protease La (LON)
    sd00006
    Location:243 → 271
    TPR; TPR repeat [structural motif]
    pfam02190
    Location:555 → 756
    LON_substr_bdg; ATP-dependent protease La (LON) substrate-binding domain
    pfam13414
    Location:242 → 308
    TPR_11; TPR repeat
    cl17238
    Location:158 → 195
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

  2. NM_001289109.1 → NP_001276038.1  LON peptidase N-terminal domain and RING finger protein 3 isoform 3

    See identical proteins and their annotated locations for NP_001276038.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding region, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. This results in a protein (isoform 3) which has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AK097641, AK290198, AL772284, BC098283
    Consensus CDS
    CCDS76014.1
    UniProtKB/TrEMBL
    B3KUN7
    Related
    ENSP00000408894.2, ENST00000422289.3
    Conserved Domains (3) summary
    cd00162
    Location:210 → 249
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cl19481
    Location:300 → 488
    LON; Found in ATP-dependent protease La (LON)
    pfam02190
    Location:299 → 500
    LON_substr_bdg; ATP-dependent protease La (LON) substrate-binding domain

  3. NM_024778.5 → NP_079054.3  LON peptidase N-terminal domain and RING finger protein 3 isoform 2

    See identical proteins and their annotated locations for NP_079054.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the 5' coding region, compared to variant 1, resulting in a shorter protein (isoform 2).
    Source sequence(s)
    AK290198, BC103491, DA249558
    Consensus CDS
    CCDS14575.1
    UniProtKB/TrEMBL
    A8K2D3
    Related
    ENSP00000307732.7, ENST00000304778.11
    Conserved Domains (6) summary
    cd00162
    Location:425 → 464
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cl19481
    Location:525 → 703
    LON; Found in ATP-dependent protease La (LON)
    sd00006
    Location:243 → 271
    TPR; TPR repeat [structural motif]
    pfam02190
    Location:514 → 715
    LON_substr_bdg; ATP-dependent protease La (LON) substrate-binding domain
    pfam13414
    Location:242 → 308
    TPR_11; TPR repeat
    cl17238
    Location:158 → 195
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

RNA

  1. NR_110311.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate 3' splice site, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK091777, AK290198, DA249558
    Related
    ENST00000481285.5

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    118974614..119018355
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005262476.3 → XP_005262533.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X1

    UniProtKB/TrEMBL
    A8K2D3
    Conserved Domains (6) summary
    cd00162
    Location:518 → 557
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cl19481
    Location:618 → 796
    LON; Found in ATP-dependent protease La (LON)
    sd00006
    Location:243 → 271
    TPR; TPR repeat [structural motif]
    pfam02190
    Location:607 → 808
    LON_substr_bdg; ATP-dependent protease La (LON) substrate-binding domain
    pfam13414
    Location:242 → 308
    TPR_11; TPR repeat
    cl17238
    Location:158 → 195
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

  2. XM_047442517.1 → XP_047298473.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X2

  3. XM_017029845.1 → XP_016885334.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X4

  4. XM_011531398.3 → XP_011529700.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X3

    Conserved Domains (6) summary
    cd00162
    Location:518 → 557
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cl19481
    Location:618 → 653
    LON; Found in ATP-dependent protease La (LON)
    sd00006
    Location:243 → 271
    TPR; TPR repeat [structural motif]
    pfam02190
    Location:607 → 650
    LON_substr_bdg; ATP-dependent protease La (LON) substrate-binding domain
    pfam13414
    Location:242 → 308
    TPR_11; TPR repeat
    cl17238
    Location:158 → 195
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

  5. XM_047442518.1 → XP_047298474.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X5

  6. XM_047442519.1 → XP_047298475.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X6

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    117352354..117396078
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054327872.1 → XP_054183847.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X1

  2. XM_054327873.1 → XP_054183848.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X2

  3. XM_054327875.1 → XP_054183850.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X4

  4. XM_054327874.1 → XP_054183849.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X3

  5. XM_054327876.1 → XP_054183851.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X5

  6. XM_054327877.1 → XP_054183852.1  LON peptidase N-terminal domain and RING finger protein 3 isoform X6

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q496Y0.1 GenPept UniProtKB/Swiss-Prot:Q496Y0

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