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ZGPAT zinc finger CCCH-type and G-patch domain containing [ Homo sapiens (human) ]

Gene ID: 84619, updated on 5-Jan-2022

Summary

Official Symbol
ZGPATprovided by HGNC
Official Full Name
zinc finger CCCH-type and G-patch domain containingprovided by HGNC
Primary source
HGNC:HGNC:15948
See related
Ensembl:ENSG00000197114 MIM:619577
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ZIP; ZC3H9; GPATC6; GPATCH6; ZC3HDC9; KIAA1847
Summary
Enables DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in negative regulation of epidermal growth factor-activated receptor activity and negative regulation of transcription by RNA polymerase II. Located in nucleoplasm and plasma membrane. [provided by Alliance of Genome Resources, Nov 2021]
Expression
Ubiquitous expression in liver (RPKM 22.1), kidney (RPKM 17.5) and 25 other tissues See more
Orthologs
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Genomic context

See ZGPAT in Genome Data Viewer
Location:
20q13.33
Exon count:
8
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 20 NC_000020.11 (63707442..63736142)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (62338794..62367494)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene RTEL1-TNFRSF6B readthrough (NMD candidate) Neighboring gene regulator of telomere elongation helicase 1 Neighboring gene TNF receptor superfamily member 6b Neighboring gene ADP ribosylation factor related protein 1 Neighboring gene LIME1 eExon liver enhancer Neighboring gene SLC2A4 regulator Neighboring gene Lck interacting transmembrane adaptor 1 Neighboring gene zinc finger and BTB domain containing 46

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

Phenotypes

Associated conditions

Description Tests
Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
GeneReviews: Not available
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
GeneReviews: Not available
Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array.
GeneReviews: Not available
Loci on 20q13 and 21q22 are associated with pediatric-onset inflammatory bowel disease.
GeneReviews: Not available
Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47.
GeneReviews: Not available

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of zinc finger, CCCH-type with G patch domain (ZGPAT) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Protein interactions

Protein Gene Interaction Pubs
Vpr vpr HIV-1 Vpr induces the degradation of ZIP/sZIP through the DCAF1 ubiquitin ligase, while VprQ65R mutant impairs the Vpr-induced degradation of ZIP/sZIP PubMed
vpr HIV-1 Vpr forms a complex by recruiting RbAp46, HAT1, ZIP/sZIP, and Cul4A PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Potential readthrough

Included gene: LIME1

Homology

Clone Names

  • KIAA1847, MGC44880

Gene Ontology Provided by GOA

Component Evidence Code Pubs
located_in chromatin ISA
Inferred from Sequence Alignment
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
zinc finger CCCH-type with G patch domain-containing protein
Names
g patch domain-containing protein 6
zinc finger CCCH domain-containing protein 9
zinc finger and G patch domain-containing protein
zinc finger, CCCH-type with G patch domain

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_001083113.2NP_001076582.1  zinc finger CCCH-type with G patch domain-containing protein isoform c

    See identical proteins and their annotated locations for NP_001076582.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and uses an alternate in-frame splice site in the middle portion of the coding region, compared to variant 1. This results in a shorter protein (isoform c), compared to isoform a. Variants 3, 4 and 5 encode the same isoform (c).
    Source sequence(s)
    AB058750, BC019338, DA252406
    Consensus CDS
    CCDS13535.1
    UniProtKB/Swiss-Prot
    Q8N5A5
    UniProtKB/TrEMBL
    A0A0S2Z5X3
    Related
    ENSP00000391176.1, ENST00000448100.6
    Conserved Domains (3) summary
    cd04508
    Location:221251
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    smart00356
    Location:178199
    ZnF_C3H1; zinc finger
    pfam01585
    Location:313354
    G-patch; G-patch domain
  2. NM_001195653.2NP_001182582.1  zinc finger CCCH-type with G patch domain-containing protein isoform c

    See identical proteins and their annotated locations for NP_001182582.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and uses an alternate in-frame splice site in the middle portion of the coding region, compared to variant 1. This results in a shorter protein (isoform c), compared to isoform a. Variants 3, 4 and 5 encode the same isoform (c).
    Source sequence(s)
    AK314726, BC019338, BC032612
    Consensus CDS
    CCDS13535.1
    UniProtKB/Swiss-Prot
    Q8N5A5
    UniProtKB/TrEMBL
    A0A0S2Z5X3
    Related
    ENSP00000358984.3, ENST00000369967.7
    Conserved Domains (3) summary
    cd04508
    Location:221251
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    smart00356
    Location:178199
    ZnF_C3H1; zinc finger
    pfam01585
    Location:313354
    G-patch; G-patch domain
  3. NM_001195654.2NP_001182583.1  zinc finger CCCH-type with G patch domain-containing protein isoform d

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) uses two alternate in-frame splice sites in the middle portion of the coding region, compared to variant 1. This results in a shorter protein (isoform d), compared to isoform a.
    Source sequence(s)
    BC019338, BC032612, DA055150
    Consensus CDS
    CCDS56203.1
    UniProtKB/Swiss-Prot
    Q8N5A5
    Related
    ENSP00000349634.4, ENST00000357119.8
    Conserved Domains (3) summary
    cd04508
    Location:221251
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    smart00356
    Location:178199
    ZnF_C3H1; zinc finger
    pfam01585
    Location:304345
    G-patch; G-patch domain
  4. NM_032527.5NP_115916.3  zinc finger CCCH-type with G patch domain-containing protein isoform a

    See identical proteins and their annotated locations for NP_115916.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AK027878, BC019338, BC032612, DA055150
    Consensus CDS
    CCDS13534.1
    UniProtKB/Swiss-Prot
    Q8N5A5
    Related
    ENSP00000332013.5, ENST00000328969.5
    Conserved Domains (3) summary
    cd04508
    Location:221251
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    smart00356
    Location:178199
    ZnF_C3H1; zinc finger
    pfam01585
    Location:333374
    G-patch; G-patch domain
  5. NM_181485.3NP_852150.2  zinc finger CCCH-type with G patch domain-containing protein isoform c

    See identical proteins and their annotated locations for NP_852150.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and uses an alternate in-frame splice site in the middle portion of the coding region, compared to variant 1. This results in a shorter protein (isoform c), compared to isoform a. Variants 3, 4 and 5 encode the same isoform (c).
    Source sequence(s)
    AL121845, BC019338, BC032612, DA848516
    Consensus CDS
    CCDS13535.1
    UniProtKB/Swiss-Prot
    Q8N5A5
    UniProtKB/TrEMBL
    A0A0S2Z5X3
    Related
    ENSP00000348242.6, ENST00000355969.11
    Conserved Domains (3) summary
    cd04508
    Location:221251
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    smart00356
    Location:178199
    ZnF_C3H1; zinc finger
    pfam01585
    Location:313354
    G-patch; G-patch domain

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_000020.11 Reference GRCh38.p13 Primary Assembly

    Range
    63707442..63736142
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_181484.1: Suppressed sequence

    Description
    NM_181484.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
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