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

Gene ID: 23142, updated on 3-Apr-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, Apr 2022]
Expression
Ubiquitous expression in testis (RPKM 10.1), adrenal (RPKM 8.7) and 25 other tissues See more
Orthologs
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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_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (51833884..51916837)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (55319835..55402788)
105.20220307 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. 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
  3. A physical interaction network of dengue virus and human proteins. Khadka S, et al. Mol Cell Proteomics, 2011 Dec. PMID 21911577, 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 (24) 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 variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

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_2023_10

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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