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    DCUN1D4 defective in cullin neddylation 1 domain containing 4 [ Homo sapiens (human) ]

    Gene ID: 23142, updated on 2-Nov-2024

    Summary

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    Official Symbol
    DCUN1D4provided by HGNC
    Official Full Name
    defective in cullin neddylation 1 domain containing 4provided by HGNC
    Primary source
    HGNC:HGNC:28998
    See related
    Ensembl:ENSG00000109184 MIM:612977; AllianceGenome:HGNC:28998
    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
    DCNL4
    Summary
    Enables cullin family protein binding activity. Involved in positive regulation of protein neddylation. Located in nucleus. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in testis (RPKM 10.1), adrenal (RPKM 8.7) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See DCUN1D4 in Genome Data Viewer
    Location:
    4q12
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (51833884..51916837)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (55319835..55402788)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (52709319..52783003)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:49580519-49581018 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:49633186-49634164 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49634165-49635142 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49641011-49641988 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49640033-49641010 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49639055-49640032 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49637099-49638076 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49636121-49637098 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49635143-49636120 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49641989-49642966 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49642967-49643944 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49643945-49644922 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49644923-49645900 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49645901-49646878 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49646879-49647856 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49647857-49648834 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49654039-49654666 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:49649537-49650190 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49653413-49654038 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49652786-49653412 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49652159-49652785 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:49650191-49650844 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:49648883-49649536 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49651532-49652158 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49657513-49658434 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:49658435-49659357 Neighboring gene sorting nexin 18 pseudogene 24 Neighboring gene sorting nexin 18 pseudogene 25 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15416 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15420 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15419 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15418 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15417 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:52719621-52720522 Neighboring gene deoxyuridine triphosphatase pseudogene 7 Neighboring gene ribosomal protein L37a pseudogene 2 Neighboring gene leucine rich repeat containing 66

    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. Structural conservation of distinctive N-terminal acetylation-dependent interactions across a family of mammalian NEDD8 ligation enzymes. Monda JK, et al. Structure, 2013 Jan 8. PMID 23201271, Free PMC Article
    2. A physical interaction network of dengue virus and human proteins. Khadka S, et al. Mol Cell Proteomics, 2011 Dec. PMID 21911577, Free PMC Article
    3. Characterization of the mammalian family of DCN-type NEDD8 E3 ligases. Keuss MJ, et al. J Cell Sci, 2016 Apr 1. PMID 26906416, Free PMC Article
    4. The conserved protein DCN-1/Dcn1p is required for cullin neddylation in C. elegans and S. cerevisiae. Kurz T, et al. Nature, 2005 Jun 30. PMID 15988528
    5. Prediction of the coding sequences of unidentified human genes. VI. The coding sequences of 80 new genes (KIAA0201-KIAA0280) deduced by analysis of cDNA clones from cell line KG-1 and brain. Nagase T, et al. DNA Res, 1996 Oct 31. PMID 9039502

    See all (26) 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 Variation Viewer (GRCh37.p13)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ42355, KIAA0276

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables cullin family protein binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cullin family protein binding IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ubiquitin conjugating enzyme binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin-like protein binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of protein neddylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein neddylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    part_of ubiquitin ligase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    DCN1-like protein 4
    Names
    DCN1, defective in cullin neddylation 1, domain containing 4
    DCUN1 domain-containing protein 4
    defective in cullin neddylation protein 1-like protein 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_001040402.3 → NP_001035492.1  DCN1-like protein 4 isoform 1

      See identical proteins and their annotated locations for NP_001035492.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) has an alternate exon in place of the first exon compared to variant 3. The resulting isoform (1) has a shorter and distinct N-terminus compared to isoform 3.
      Source sequence(s)
      AK124346, BC053897, D87466
      Consensus CDS
      CCDS33982.1
      UniProtKB/Swiss-Prot
      B4DH25, Q7Z3F3, Q7Z6B8, Q92564
      Related
      ENSP00000334625.5, ENST00000334635.10
      Conserved Domains (1) summary
      pfam03556
      Location:175 → 285
      Cullin_binding; Cullin binding

    2. NM_001287755.1 → NP_001274684.1  DCN1-like protein 4 isoform 3

      See identical proteins and their annotated locations for NP_001274684.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) encodes the longest isoform (3).
      Source sequence(s)
      AC027271, AK294894, BC053897
      Consensus CDS
      CCDS75123.1
      UniProtKB/Swiss-Prot
      Q92564
      Related
      ENSP00000389900.2, ENST00000451288.6
      Conserved Domains (1) summary
      pfam03556
      Location:219 → 330
      Cullin_binding; Cullin binding

    3. NM_001287757.2 → NP_001274686.1  DCN1-like protein 4 isoform 4

      See identical proteins and their annotated locations for NP_001274686.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) has two alternate exons in place of the first exon compared to variant 3. The resulting isoform (4) is shorter at the N-terminus compared to isoform 3.
      Source sequence(s)
      AC027271, AK294896, BC053897
      UniProtKB/TrEMBL
      B4DH26
      Conserved Domains (1) summary
      pfam03556
      Location:115 → 225
      Cullin_binding; Cullin binding

    4. NM_015115.4 → NP_055930.2  DCN1-like protein 4 isoform 2

      See identical proteins and their annotated locations for NP_055930.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has an alternate exon in place of the first exon and lacks an alternate in-frame exon in the 3' coding sequence compared to variant 3. The resulting isoform (2) has a shorter and distinct N-terminus and lacks an alternate internal segment compared to isoform 3.
      Source sequence(s)
      AC027271, BC053897
      Consensus CDS
      CCDS3487.2
      UniProtKB/Swiss-Prot
      Q92564
      Related
      ENSP00000370850.3, ENST00000381441.7
      Conserved Domains (1) summary
      pfam03556
      Location:175 → 250
      Cullin_binding; Cullin binding

    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_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      51833884..51916837
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047449871.1 → XP_047305827.1  DCN1-like protein 4 isoform X2

      UniProtKB/TrEMBL
      B4DH26

    2. XM_047449872.1 → XP_047305828.1  DCN1-like protein 4 isoform X3

    3. XM_047449878.1 → XP_047305834.1  DCN1-like protein 4 isoform X7

    4. XM_047449880.1 → XP_047305836.1  DCN1-like protein 4 isoform X9

    5. XM_024453943.2 → XP_024309711.1  DCN1-like protein 4 isoform X2

      UniProtKB/TrEMBL
      B4DH26
      Conserved Domains (1) summary
      pfam03556
      Location:115 → 225
      Cullin_binding; Cullin binding

    6. XM_047449873.1 → XP_047305829.1  DCN1-like protein 4 isoform X3

    7. XM_047449874.1 → XP_047305830.1  DCN1-like protein 4 isoform X3

    8. XM_005265731.4 → XP_005265788.1  DCN1-like protein 4 isoform X1

      Conserved Domains (1) summary
      pfam03556
      Location:219 → 295
      Cullin_binding; Cullin binding

    9. XM_047449875.1 → XP_047305831.1  DCN1-like protein 4 isoform X4

    10. XM_047449876.1 → XP_047305832.1  DCN1-like protein 4 isoform X6

      Related
      ENSP00000426982.1, ENST00000505403.5

    11. XM_047449881.1 → XP_047305837.1  DCN1-like protein 4 isoform X10

    12. XM_047449882.1 → XP_047305838.1  DCN1-like protein 4 isoform X2

      UniProtKB/TrEMBL
      B4DH26

    13. XM_024453944.2 → XP_024309712.1  DCN1-like protein 4 isoform X2

      UniProtKB/TrEMBL
      B4DH26
      Conserved Domains (1) summary
      pfam03556
      Location:115 → 225
      Cullin_binding; Cullin binding

    14. XM_024453945.2 → XP_024309713.1  DCN1-like protein 4 isoform X10

      Conserved Domains (1) summary
      pfam03556
      Location:115 → 190
      Cullin_binding; Cullin binding

    15. XM_011534380.2 → XP_011532682.1  DCN1-like protein 4 isoform X2

      See identical proteins and their annotated locations for XP_011532682.1

      UniProtKB/TrEMBL
      B4DH26
      Conserved Domains (1) summary
      pfam03556
      Location:115 → 225
      Cullin_binding; Cullin binding

    16. XM_047449879.1 → XP_047305835.1  DCN1-like protein 4 isoform X8

    17. XM_017007912.3 → XP_016863401.1  DCN1-like protein 4 isoform X5

    18. XM_047449877.1 → XP_047305833.1  DCN1-like protein 4 isoform X2

      UniProtKB/TrEMBL
      B4DH26

    19. XM_017007913.3 → XP_016863402.1  DCN1-like protein 4 isoform X11

      Conserved Domains (1) summary
      pfam03556
      Location:35 → 145
      Cullin_binding; Cullin binding

    RNA

    1. XR_007096386.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      55319835..55402788
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054349359.1 → XP_054205334.1  DCN1-like protein 4 isoform X2

      UniProtKB/TrEMBL
      B4DH26

    2. XM_054349361.1 → XP_054205336.1  DCN1-like protein 4 isoform X3

    3. XM_054349371.1 → XP_054205346.1  DCN1-like protein 4 isoform X7

    4. XM_054349373.1 → XP_054205348.1  DCN1-like protein 4 isoform X9

    5. XM_054349370.1 → XP_054205345.1  DCN1-like protein 4 isoform X2

      UniProtKB/TrEMBL
      B4DH26

    6. XM_054349362.1 → XP_054205337.1  DCN1-like protein 4 isoform X3

    7. XM_054349363.1 → XP_054205338.1  DCN1-like protein 4 isoform X3

    8. XM_054349358.1 → XP_054205333.1  DCN1-like protein 4 isoform X1

    9. XM_054349364.1 → XP_054205339.1  DCN1-like protein 4 isoform X4

    10. XM_054349366.1 → XP_054205341.1  DCN1-like protein 4 isoform X6

    11. XM_054349375.1 → XP_054205350.1  DCN1-like protein 4 isoform X10

    12. XM_054349376.1 → XP_054205351.1  DCN1-like protein 4 isoform X2

      UniProtKB/TrEMBL
      B4DH26

    13. XM_054349367.1 → XP_054205342.1  DCN1-like protein 4 isoform X2

      UniProtKB/TrEMBL
      B4DH26

    14. XM_054349374.1 → XP_054205349.1  DCN1-like protein 4 isoform X10

    15. XM_054349368.1 → XP_054205343.1  DCN1-like protein 4 isoform X2

      UniProtKB/TrEMBL
      B4DH26

    16. XM_054349360.1 → XP_054205335.1  DCN1-like protein 4 isoform X3

    17. XM_054349372.1 → XP_054205347.1  DCN1-like protein 4 isoform X8

    18. XM_054349365.1 → XP_054205340.1  DCN1-like protein 4 isoform X5

    19. XM_054349369.1 → XP_054205344.1  DCN1-like protein 4 isoform X2

      UniProtKB/TrEMBL
      B4DH26

    20. XM_054349377.1 → XP_054205352.1  DCN1-like protein 4 isoform X11

    RNA

    1. XR_008486953.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q92564.2 GenPept UniProtKB/Swiss-Prot:Q92564

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