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ZCCHC4 zinc finger CCHC-type containing 4 [ Homo sapiens (human) ]

Gene ID: 29063, updated on 5-Jan-2022

Summary

Official Symbol
ZCCHC4provided by HGNC
Official Full Name
zinc finger CCHC-type containing 4provided by HGNC
Primary source
HGNC:HGNC:22917
See related
Ensembl:ENSG00000168228 MIM:611792
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
ZGRF4; HSPC052
Summary
Enables S-adenosyl-L-methionine binding activity; rRNA (adenine-N6-)-methyltransferase activity; and zinc ion binding activity. Involved in positive regulation of translation and rRNA methylation. Located in cytoplasm and nucleolus. [provided by Alliance of Genome Resources, Nov 2021]
Expression
Ubiquitous expression in testis (RPKM 1.4), ovary (RPKM 1.3) and 25 other tissues See more
Orthologs
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Genomic context

See ZCCHC4 in Genome Data Viewer
Location:
4p15.2
Exon count:
15
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (25312774..25373176)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (25314396..25372005)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene SEPSECS antisense RNA 1 (head to head) Neighboring gene uncharacterized LOC105374535 Neighboring gene phosphatidylinositol 4-kinase type 2 beta Neighboring gene anaphase promoting complex subunit 4 Neighboring gene uncharacterized LOC105374536

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC21108

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables S-adenosyl-L-methionine binding IDA
Inferred from Direct Assay
more info
PubMed 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables rRNA (adenine-N6-)-methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables rRNA (adenine-N6-)-methyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables zinc ion binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
involved_in positive regulation of translation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in rRNA methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in rRNA methylation IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleolus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
rRNA N6-adenosine-methyltransferase ZCCHC4
Names
DHHC domain-containing zinc finger protein
zinc finger CCHC domain-containing protein 4
zinc finger, CCHC domain containing 4
zinc finger, GRF-type containing 4

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_001318148.2NP_001305077.1  rRNA N6-adenosine-methyltransferase ZCCHC4 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks several exons and includes an alternate 3' terminal exon, compared to variant 1. It encodes isoform 2 which is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC108218, AK309675, BG719159, CA952098
    Conserved Domains (2) summary
    pfam06839
    Location:3882
    zf-GRF; GRF zinc finger
    pfam10237
    Location:172329
    N6-adenineMlase; Probable N6-adenine methyltransferase
  2. NM_024936.3NP_079212.2  rRNA N6-adenosine-methyltransferase ZCCHC4 isoform 1

    See identical proteins and their annotated locations for NP_079212.2

    Status: VALIDATED

    Description
    Transcript Variant: Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK026677, AY629351, BG719159
    Consensus CDS
    CCDS43218.1
    UniProtKB/Swiss-Prot
    Q9H5U6
    Related
    ENSP00000303468.4, ENST00000302874.9
    Conserved Domains (3) summary
    pfam06839
    Location:3882
    zf-GRF; GRF zinc finger
    pfam10237
    Location:172329
    N6-adenineMlase; Probable N6-adenine methyltransferase
    cl19890
    Location:409438
    zf-DHHC; DHHC palmitoyltransferase

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
    25312774..25373176
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017008128.1XP_016863617.1  rRNA N6-adenosine-methyltransferase ZCCHC4 isoform X2

    Conserved Domains (2) summary
    pfam10237
    Location:121298
    N6-adenineMlase; Probable N6-adenine methyltransferase
    cl19890
    Location:364393
    DHHC; DHHC palmitoyltransferase
  2. XM_011513835.2XP_011512137.1  rRNA N6-adenosine-methyltransferase ZCCHC4 isoform X1

    Conserved Domains (3) summary
    pfam06839
    Location:3882
    zf-GRF; GRF zinc finger
    pfam10237
    Location:166294
    N6-adenineMlase; Probable N6-adenine methyltransferase
    cl19890
    Location:424453
    DHHC; DHHC palmitoyltransferase
  3. XM_017008129.2XP_016863618.1  rRNA N6-adenosine-methyltransferase ZCCHC4 isoform X3

    Conserved Domains (3) summary
    pfam06839
    Location:3882
    zf-GRF; GRF zinc finger
    pfam10237
    Location:166256
    N6-adenineMlase; Probable N6-adenine methyltransferase
    cl19890
    Location:325354
    DHHC; DHHC palmitoyltransferase

RNA

  1. XR_925324.3 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_014150.1: Suppressed sequence

    Description
    NM_014150.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
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