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RCHY1 ring finger and CHY zinc finger domain containing 1 [ Homo sapiens (human) ]

Gene ID: 25898, updated on 6-Jan-2019

Summary

Official Symbol
RCHY1provided by HGNC
Official Full Name
ring finger and CHY zinc finger domain containing 1provided by HGNC
Primary source
HGNC:HGNC:17479
See related
Ensembl:ENSG00000163743 MIM:607680
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
ZCHY; ARNIP; CHIMP; PIRH2; RNF199; ZNF363; PRO1996
Summary
The protein encoded by this gene has ubiquitin ligase activity. It mediates E3-dependent ubiquitination and proteasomal degradation of target proteins, including tumor protein 53, histone deacetylase 1, and cyclin-dependent kinase inhibitor 1B, thus regulating their levels and cell cycle progression. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Jun 2013]
Expression
Ubiquitous expression in thyroid (RPKM 7.9), bone marrow (RPKM 6.3) and 25 other tissues See more
Orthologs

Genomic context

See RCHY1 in Genome Data Viewer
Location:
4q21.1
Exon count:
10
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 4 NC_000004.12 (75479037..75515057, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (76404247..76439884, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2483 Neighboring gene uncharacterized LOC107986230 Neighboring gene THAP domain containing 6 Neighboring gene odontogenesis associated phosphoprotein Neighboring gene cyclin dependent kinase like 2

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 FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association analysis implicates the involvement of eight loci with response to tocilizumab for the treatment of rheumatoid arthritis.
NHGRI GWA Catalog

Pathways from BioSystems

  • Adaptive Immune System, organism-specific biosystem (from REACTOME)
    Adaptive Immune System, organism-specific biosystemAdaptive immunity refers to antigen-specific immune response efficiently involved in clearing the pathogens. The adaptive immune system is comprised of B and T lymphocytes that express receptors with...
  • Antigen processing: Ubiquitination & Proteasome degradation, organism-specific biosystem (from REACTOME)
    Antigen processing: Ubiquitination & Proteasome degradation, organism-specific biosystemIntracellular foreign or aberrant host proteins are cleaved into peptide fragments of a precise size, such that they can be loaded on to class I MHC molecules and presented externally to cytotoxic T ...
  • Class I MHC mediated antigen processing & presentation, organism-specific biosystem (from REACTOME)
    Class I MHC mediated antigen processing & presentation, organism-specific biosystemMajor histocompatibility complex (MHC) class I molecules play an important role in cell mediated immunity by reporting on intracellular events such as viral infection, the presence of intracellular b...
  • DNA Damage Bypass, organism-specific biosystem (from REACTOME)
    DNA Damage Bypass, organism-specific biosystemIn addition to various processes for removing lesions from the DNA, cells have developed specific mechanisms for tolerating unrepaired damage during the replication of the genome. These mechanisms ar...
  • DNA Repair, organism-specific biosystem (from REACTOME)
    DNA Repair, organism-specific biosystemDNA repair is a phenomenal multi-enzyme, multi-pathway system required to ensure the integrity of the cellular genome. Living organisms are constantly exposed to harmful metabolic by-products, enviro...
  • Direct p53 effectors, organism-specific biosystem (from Pathway Interaction Database)
    Direct p53 effectors, organism-specific biosystem
    Direct p53 effectors
  • Immune System, organism-specific biosystem (from REACTOME)
    Immune System, organism-specific biosystemHumans are exposed to millions of potential pathogens daily, through contact, ingestion, and inhalation. Our ability to avoid infection depends on the adaptive immune system and during the first crit...
  • Measles, organism-specific biosystem (from KEGG)
    Measles, organism-specific biosystemMeasles virus (MV) is highly contagious virus that leads infant death worldwide. Humans are the unique natural reservoir for this virus. It causes severe immunosuppression favouring secondary bacteri...
  • Measles, conserved biosystem (from KEGG)
    Measles, conserved biosystemMeasles virus (MV) is highly contagious virus that leads infant death worldwide. Humans are the unique natural reservoir for this virus. It causes severe immunosuppression favouring secondary bacteri...
  • Regulation of Androgen receptor activity, organism-specific biosystem (from Pathway Interaction Database)
    Regulation of Androgen receptor activity, organism-specific biosystem
    Regulation of Androgen receptor activity
  • Translesion Synthesis by POLH, organism-specific biosystem (from REACTOME)
    Translesion Synthesis by POLH, organism-specific biosystemDNA polymerase eta (POLH) consists of 713 amino acids and can bypass thymidine-thymidine dimers, correctly adding two dAMPs opposite to the lesion. Mutations in the POLH gene result in the loss of th...
  • Translesion synthesis by Y family DNA polymerases bypasses lesions on DNA template, organism-specific biosystem (from REACTOME)
    Translesion synthesis by Y family DNA polymerases bypasses lesions on DNA template, organism-specific biosystemUbiquitous environmental and endogenous genotoxic agents cause DNA lesions that can interfere with normal DNA metabolism including DNA replication, eventually resulting in mutations that lead to carc...
  • Ubiquitin mediated proteolysis, organism-specific biosystem (from KEGG)
    Ubiquitin mediated proteolysis, organism-specific biosystemProtein ubiquitination plays an important role in eukaryotic cellular processes. It mainly functions as a signal for 26S proteasome dependent protein degradation. The addition of ubiquitin to protein...
  • Ubiquitin mediated proteolysis, conserved biosystem (from KEGG)
    Ubiquitin mediated proteolysis, conserved biosystemProtein ubiquitination plays an important role in eukaryotic cellular processes. It mainly functions as a signal for 26S proteasome dependent protein degradation. The addition of ubiquitin to protein...
  • p53 pathway, organism-specific biosystem (from Pathway Interaction Database)
    p53 pathway, organism-specific biosystem
    p53 pathway
  • p53 signaling pathway, organism-specific biosystem (from KEGG)
    p53 signaling pathway, organism-specific biosystemp53 activation is induced by a number of stress signals, including DNA damage, oxidative stress and activated oncogenes. The p53 protein is employed as a transcriptional activator of p53-regulated ge...
  • p53 signaling pathway, conserved biosystem (from KEGG)
    p53 signaling pathway, conserved biosystemp53 activation is induced by a number of stress signals, including DNA damage, oxidative stress and activated oncogenes. The p53 protein is employed as a transcriptional activator of p53-regulated ge...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp586C1620

Gene Ontology Provided by GOA

Function Evidence Code Pubs
p53 binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
signaling receptor binding IEA
Inferred from Electronic Annotation
more info
 
ubiquitin-protein transferase activity IDA
Inferred from Direct Assay
more info
PubMed 
ubiquitin-protein transferase activity TAS
Traceable Author Statement
more info
 
zinc ion binding IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
nuclear speck IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
ubiquitin ligase complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
RING finger and CHY zinc finger domain-containing protein 1
Names
CH-rich interacting match with PLAG1
E3 ubiquitin-protein ligase Pirh2
RING finger protein 199
RING-type E3 ubiquitin transferase RCHY1
androgen-receptor N-terminal-interacting protein
p53-induced protein with a RING-H2 domain
ring finger and CHY zinc finger domain containing 1, E3 ubiquitin protein ligase
zinc finger protein 363
zinc finger, CHY-type
NP_001009922.1
NP_001265465.1
NP_001265466.1
NP_001265467.1
NP_001265468.1
NP_056251.2
XP_011530140.1
XP_011530141.1
XP_024309752.1

NCBI Reference Sequences (RefSeq)

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_029152.1 RefSeqGene

    Range
    5001..40394
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001009922.2NP_001009922.1  RING finger and CHY zinc finger domain-containing protein 1 isoform 3

    See identical proteins and their annotated locations for NP_001009922.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an in-frame exon in the internal coding region, compared to variant 1. The encoded isoform (3, also known as Pirh2B) is shorter, compared to isoform 1.
    Source sequence(s)
    AC096759, AF255666, AK091501, AK308754, AW236209, BQ024871, DB044826, DN919417, GQ250945
    Consensus CDS
    CCDS34012.1
    UniProtKB/Swiss-Prot
    Q96PM5
    Related
    ENSP00000421084.1, ENST00000513257.5
    Conserved Domains (3) summary
    pfam05495
    Location:2091
    zf-CHY; CHY zinc finger
    pfam14599
    Location:182240
    zinc_ribbon_6; Zinc-ribbon
    cl17238
    Location:144178
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
  2. NM_001278536.1NP_001265465.1  RING finger and CHY zinc finger domain-containing protein 1 isoform 4

    See identical proteins and their annotated locations for NP_001265465.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks an in-frame exon in the 5' coding region, compared to variant 1. The encoded isoform (4) is shorter, compared to isoform 1.
    Source sequence(s)
    AC096759, AK308754, DA197338
    Consensus CDS
    CCDS63991.1
    UniProtKB/Swiss-Prot
    Q96PM5
    Related
    ENSP00000370220.2, ENST00000380840.6
    Conserved Domains (2) summary
    pfam14599
    Location:151209
    zinc_ribbon_6; Zinc-ribbon
    cd16464
    Location:104147
    RING-H2_Pirh2; RING finger, H2 subclass, found in p53-induced RING-H2 protein (Pirh2) and similar proteins
  3. NM_001278537.1NP_001265466.1  RING finger and CHY zinc finger domain-containing protein 1 isoform 5

    See identical proteins and their annotated locations for NP_001265466.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) lacks two in-frame coding exons, compared to variant 1. The encoded isoform (5) is shorter, compared to isoform 1.
    Source sequence(s)
    AC096759, BP314571, DA197338
    Consensus CDS
    CCDS63990.1
    UniProtKB/Swiss-Prot
    Q96PM5
    Related
    ENSP00000424472.1, ENST00000507014.1
    Conserved Domains (2) summary
    pfam14599
    Location:142200
    zinc_ribbon_6; Zinc-ribbon
    cl17238
    Location:104138
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
  4. NM_001278538.1NP_001265467.1  RING finger and CHY zinc finger domain-containing protein 1 isoform 6

    See identical proteins and their annotated locations for NP_001265467.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) uses an alternate splice site in the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (6) has a shorter and distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    AC096759, BQ959587, DA197338
    Consensus CDS
    CCDS63992.1
    UniProtKB/Swiss-Prot
    Q96PM5
    Related
    ENSP00000423976.1, ENST00000512706.5
    Conserved Domains (3) summary
    pfam05495
    Location:469
    zf-CHY; CHY zinc finger
    pfam14599
    Location:169227
    zinc_ribbon_6; Zinc-ribbon
    cd16464
    Location:122165
    RING-H2_Pirh2; RING finger, H2 subclass, found in p53-induced RING-H2 protein (Pirh2) and similar proteins
  5. NM_001278539.1NP_001265468.1  RING finger and CHY zinc finger domain-containing protein 1 isoform 7

    See identical proteins and their annotated locations for NP_001265468.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) uses an alternate splice site in the 5' terminal exon, and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (7) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AC096759, BG703058, DA197338
    Conserved Domains (2) summary
    pfam14599
    Location:64122
    zinc_ribbon_6; Zinc-ribbon
    cd16464
    Location:1760
    RING-H2_Pirh2; RING finger, H2 subclass, found in p53-induced RING-H2 protein (Pirh2) and similar proteins
  6. NM_015436.3NP_056251.2  RING finger and CHY zinc finger domain-containing protein 1 isoform 1

    See identical proteins and their annotated locations for NP_056251.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1, also known as Pirh2A).
    Source sequence(s)
    AC096759, AF255666, AK091501, AK308754, AW236209, BQ024871, DB044826, DN919417, GQ250944
    Consensus CDS
    CCDS3567.1
    UniProtKB/Swiss-Prot
    Q96PM5
    Related
    ENSP00000321239.5, ENST00000324439.9
    Conserved Domains (3) summary
    pfam05495
    Location:2091
    zf-CHY; CHY zinc finger
    pfam14599
    Location:191249
    zinc_ribbon_6; Zinc-ribbon
    cd16464
    Location:144187
    RING-H2_Pirh2; RING finger, H2 subclass, found in p53-induced RING-H2 protein (Pirh2) and similar proteins

RNA

  1. NR_037913.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate donor splice site at an 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 this transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC096759, AF255666, AK091501, AK308754, AK309555, AW236209, BQ024871, DB044826, DN919417, GQ250946
  2. NR_037914.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) uses alternate donor splice sites at two internal exons 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 this transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC096759, AF255666, AK091501, AK308754, AK309555, AW236209, BQ024871, DB044826, DN919417
  3. NR_103723.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 3' region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC096759, AF247041, DA197338
  4. NR_103724.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (10) uses an alternate splice site in an 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 this transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC096759, AY888047, DA197338
  5. NR_103725.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (11) uses an alternate 5'-terminal exon, and lacks an internal exon, compared to variant 1. This variant is represented as non-coding because it does not encode a supported protein.
    Source sequence(s)
    AC096759, BF102905, GQ250945

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p12 Primary Assembly

    Range
    75479037..75515057 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011531839.2XP_011530141.1  RING finger and CHY zinc finger domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011530141.1

    Conserved Domains (2) summary
    pfam14599
    Location:64122
    zinc_ribbon_6; Zinc-ribbon
    cd16464
    Location:1760
    RING-H2_Pirh2; RING finger, H2 subclass, found in p53-induced RING-H2 protein (Pirh2) and similar proteins
  2. XM_024453984.1XP_024309752.1  RING finger and CHY zinc finger domain-containing protein 1 isoform X2

    Conserved Domains (2) summary
    pfam14599
    Location:55113
    zinc_ribbon_6; Zinc-ribbon
    cl17238
    Location:1751
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
  3. XM_011531838.2XP_011530140.1  RING finger and CHY zinc finger domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011530140.1

    Conserved Domains (2) summary
    pfam14599
    Location:64122
    zinc_ribbon_6; Zinc-ribbon
    cd16464
    Location:1760
    RING-H2_Pirh2; RING finger, H2 subclass, found in p53-induced RING-H2 protein (Pirh2) and similar proteins

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001008925.2: Suppressed sequence

    Description
    NM_001008925.2: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
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