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    ZCCHC17 zinc finger CCHC-type containing 17 [ Homo sapiens (human) ]

    Gene ID: 51538, updated on 19-Sep-2024

    Summary

    Official Symbol
    ZCCHC17provided by HGNC
    Official Full Name
    zinc finger CCHC-type containing 17provided by HGNC
    Primary source
    HGNC:HGNC:30246
    See related
    Ensembl:ENSG00000121766 MIM:619744; AllianceGenome:HGNC:30246
    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
    PS1D; pNO40; HSPC251
    Summary
    Enables identical protein binding activity. Predicted to be involved in RNA stabilization. Predicted to be located in nucleolus. Predicted to be part of cytosolic large ribosomal subunit. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in heart (RPKM 23.1), brain (RPKM 18.8) and 24 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See ZCCHC17 in Genome Data Viewer
    Location:
    1p35.2
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (31297032..31364936)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (31149209..31217206)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (31769879..31837783)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 566 Neighboring gene Sharpr-MPRA regulatory region 5533 Neighboring gene sodium/potassium transporting ATPase interacting 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:31671341-31671841 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr1:31688981-31689480 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:31695101-31695601 Neighboring gene small nuclear ribonucleoprotein U5 subunit 40 Neighboring gene MPRA-validated peak156 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 641 Neighboring gene Sharpr-MPRA regulatory region 7682 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:31827736-31827903 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:31839312-31839494 Neighboring gene Sharpr-MPRA regulatory region 13821 Neighboring gene uncharacterized LOC124903892 Neighboring gene Sharpr-MPRA regulatory region 3310 Neighboring gene fatty acid binding protein 3 Neighboring gene uncharacterized LOC105378623

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    NKAIN1-SERINC2 is a functional, replicable and genome-wide significant risk gene region specific for alcohol dependence in subjects of European descent.
    EBI GWAS Catalog

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Knockdown of zinc finger, CCHC domain containing 17 (ZCCHC17) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in RNA stabilization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    part_of cytosolic large ribosomal subunit IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    zinc finger CCHC domain-containing protein 17
    Names
    nucleolar protein 40
    nucleolar protein of 40 kDa
    pnn-interacting nucleolar protein
    putative S1 RNA binding domain protein
    zinc finger, CCHC domain containing 17

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001282566.2NP_001269495.1  zinc finger CCHC domain-containing protein 17 isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a).
      Source sequence(s)
      AF247661, AK307478, BC050609, DC366453
      Consensus CDS
      CCDS72741.1
      UniProtKB/TrEMBL
      A0A087WXF8, B4DYA9
      Related
      ENSP00000480986.1, ENST00000615916.4
      Conserved Domains (1) summary
      cd05686
      Location:45108
      S1_pNO40; S1_pNO40: pNO40 , S1-like RNA-binding domain. pNO40 is a nucleolar protein of unknown function with an N-terminal S1 RNA binding domain, a CCHC type zinc finger, and clusters of basic amino acids representing a potential nucleolar targeting signal. ...
    2. NM_001282567.2NP_001269496.1  zinc finger CCHC domain-containing protein 17 isoform b

      See identical proteins and their annotated locations for NP_001269496.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks a portion of the 5' UTR and 5' coding region, initiates translation at a downstream in-frame start codon, and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a.
      Source sequence(s)
      AF247661, AK302343, AK307478, BC050609, DC366453
      Consensus CDS
      CCDS60062.1
      UniProtKB/TrEMBL
      A0A0D9SEW3, B4DYA9
      Related
      ENSP00000486079.1, ENST00000627541.1
      Conserved Domains (1) summary
      cl09927
      Location:162
      S1_like; S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. ...
    3. NM_001282568.2NP_001269497.1  zinc finger CCHC domain-containing protein 17 isoform c

      See identical proteins and their annotated locations for NP_001269497.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and 5' coding region, and uses an alternate start codon, compared to variant 1. The encoded isoform (c) has a distinct and shorter N-terminus, compared to isoform a. Both variants 3 and 4 encode isoform c.
      Source sequence(s)
      AK302248, AK302343, AK307478, BC000685, BC050609, DC366453
      Consensus CDS
      CCDS341.1
      UniProtKB/Swiss-Prot
      B4DY38, D3DPN4, Q6PKH4, Q9NP64, Q9NYG4, Q9P0M8
      UniProtKB/TrEMBL
      B4DYA9
      Related
      ENSP00000362819.1, ENST00000373714.5
      Conserved Domains (1) summary
      cd05686
      Location:1386
      S1_pNO40; pNO40 , S1-like RNA-binding domain. pNO40 is a nucleolar protein of unknown function with an N-terminal S1 RNA binding domain, a CCHC type zinc finger, and clusters of basic amino acids representing a potential nucleolar targeting signal. pNO40 was ...
    4. NM_001282569.2NP_001269498.1  zinc finger CCHC domain-containing protein 17 isoform d

      See identical proteins and their annotated locations for NP_001269498.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR and 5' coding region, and uses an alternate start codon, compared to variant 1. The encoded isoform (d) has a distinct and shorter N-terminus, compared to isoform a.
      Source sequence(s)
      AK302248, AK307478, BC050609, DC366453
      Consensus CDS
      CCDS60061.1
      UniProtKB/TrEMBL
      B4DYA9
      Related
      ENSP00000444742.1, ENST00000546109.5
      Conserved Domains (1) summary
      cl09927
      Location:1578
      S1_like; Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains ...
    5. NM_001282570.2NP_001269499.1  zinc finger CCHC domain-containing protein 17 isoform e

      See identical proteins and their annotated locations for NP_001269499.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) lacks a portion of the 5' UTR and 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (e) is shorter at the N-terminus, compared to isoform a.
      Source sequence(s)
      AK307478, BC050609
      UniProtKB/TrEMBL
      B4DYA9
      Conserved Domains (1) summary
      cl09927
      Location:162
      S1_like; S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. ...
    6. NM_001282571.2NP_001269500.1  zinc finger CCHC domain-containing protein 17 isoform f

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) differs in the 5' UTR and 5' coding region, and uses an alternate start codon, compared to variant 1. The encoded isoform (f) has a distinct and shorter N-terminus, compared to isoform a.
      Source sequence(s)
      AK001929, AK302343, AK307478, BC050609, BP309837, BP371153, DC366453
      Consensus CDS
      CCDS72744.1
      UniProtKB/TrEMBL
      A0A087WYV3
      Related
      ENSP00000482122.1, ENST00000616393.4
    7. NM_001282572.2NP_001269501.1  zinc finger CCHC domain-containing protein 17 isoform g

      See identical proteins and their annotated locations for NP_001269501.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) differs in the 5' UTR and 5' coding region, uses an alternate start codon, and lacks two exons that result in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (g) has distinct N- and C-termini and is shorter than isoform a.
      Source sequence(s)
      AK001929, AK302343, AK307478, BC050609, BF309574
      UniProtKB/Swiss-Prot
      Q9NP64
      UniProtKB/TrEMBL
      B4DYA9
      Conserved Domains (1) summary
      cd05686
      Location:1386
      S1_pNO40; pNO40 , S1-like RNA-binding domain. pNO40 is a nucleolar protein of unknown function with an N-terminal S1 RNA binding domain, a CCHC type zinc finger, and clusters of basic amino acids representing a potential nucleolar targeting signal. pNO40 was ...
    8. NM_001282573.2NP_001269502.1  zinc finger CCHC domain-containing protein 17 isoform h

      See identical proteins and their annotated locations for NP_001269502.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9) differs in the 5' UTR and 5' coding region, uses an alternate start codon, and lacks two exons that result in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (h) has distinct N- and C-termini and is shorter than isoform a.
      Source sequence(s)
      AK001929, AK302343, AK307478, BC050609, DA737244
      Consensus CDS
      CCDS72743.1
      UniProtKB/TrEMBL
      A0A087WYF0
      Related
      ENSP00000481743.1, ENST00000616859.4
      Conserved Domains (1) summary
      cl09927
      Location:1578
      S1_like; Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains ...
    9. NM_001282574.2NP_001269503.1  zinc finger CCHC domain-containing protein 17 isoform i

      See identical proteins and their annotated locations for NP_001269503.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (10) differs in the 5' UTR and 5' coding region, uses an alternate start codon, and lacks an exon that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (i) has distinct N- and C-termini and is shorter than isoform a.
      Source sequence(s)
      AK001929, AK302343, AK307478, BC050609, CN423139, DC366453
      Consensus CDS
      CCDS72742.1
      UniProtKB/TrEMBL
      A0A087WXU5
      Related
      ENSP00000481299.1, ENST00000618216.4
      Conserved Domains (1) summary
      cd05686
      Location:1386
      S1_pNO40; pNO40 , S1-like RNA-binding domain. pNO40 is a nucleolar protein of unknown function with an N-terminal S1 RNA binding domain, a CCHC type zinc finger, and clusters of basic amino acids representing a potential nucleolar targeting signal. pNO40 was ...
    10. NM_016505.4NP_057589.2  zinc finger CCHC domain-containing protein 17 isoform c

      See identical proteins and their annotated locations for NP_057589.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and 5' coding region, and uses an alternate start codon, compared to variant 1. The encoded isoform (c) has a distinct and shorter N-terminus, compared to isoform a. Both variants 3 and 4 encode isoform c.
      Source sequence(s)
      AK001929, AK302343, AK307478, BC050609
      Consensus CDS
      CCDS341.1
      UniProtKB/Swiss-Prot
      B4DY38, D3DPN4, Q6PKH4, Q9NP64, Q9NYG4, Q9P0M8
      UniProtKB/TrEMBL
      B4DYA9
      Related
      ENSP00000343557.5, ENST00000344147.10
      Conserved Domains (1) summary
      cd05686
      Location:1386
      S1_pNO40; pNO40 , S1-like RNA-binding domain. pNO40 is a nucleolar protein of unknown function with an N-terminal S1 RNA binding domain, a CCHC type zinc finger, and clusters of basic amino acids representing a potential nucleolar targeting signal. pNO40 was ...

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      31297032..31364936
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047422508.1XP_047278464.1  zinc finger CCHC domain-containing protein 17 isoform X1

      UniProtKB/Swiss-Prot
      B4DY38, D3DPN4, Q6PKH4, Q9NP64, Q9NYG4, Q9P0M8
      UniProtKB/TrEMBL
      B4DYA9

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      31149209..31217206
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054336976.1XP_054192951.1  zinc finger CCHC domain-containing protein 17 isoform X1

      UniProtKB/Swiss-Prot
      B4DY38, D3DPN4, Q6PKH4, Q9NP64, Q9NYG4, Q9P0M8
      UniProtKB/TrEMBL
      B4DYA9