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    CUL9 cullin 9 [ Homo sapiens (human) ]

    Gene ID: 23113, updated on 2-Nov-2024

    Summary

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    Official Symbol
    CUL9provided by HGNC
    Official Full Name
    cullin 9provided by HGNC
    Primary source
    HGNC:HGNC:15982
    See related
    Ensembl:ENSG00000112659 MIM:607489; AllianceGenome:HGNC:15982
    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
    PARC; H7AP1
    Summary
    Predicted to enable ubiquitin protein ligase activity. Involved in microtubule cytoskeleton organization; protein ubiquitination; and regulation of mitotic nuclear division. Located in cytosol. Part of cullin-RING ubiquitin ligase complex. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in testis (RPKM 6.1), skin (RPKM 5.9) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See CUL9 in Genome Data Viewer
    Location:
    6p21.1
    Exon count:
    43
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (43182196..43224587)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (43010969..43053382)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (43149934..43192325)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17218 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:43049243-43049446 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:43050481-43051047 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:43051048-43051613 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:43057365-43057958 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr6:43057959-43058553 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:43058554-43059147 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24589 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24590 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24591 Neighboring gene protein tyrosine kinase 7 (inactive) Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:43086921-43087840 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:43087841-43088760 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:43099803-43100304 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:43100305-43100804 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24592 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:43138211-43138940 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17219 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:43139967-43140935 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24594 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:43145601-43146102 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:43146103-43146602 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24595 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17220 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17221 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr6:43154118-43155317 Neighboring gene serum response factor Neighboring gene MPRA-validated peak5812 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:43190560-43191097 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24596 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17222 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:43197001-43197500 Neighboring gene 2'-deoxynucleoside 5'-phosphate N-hydrolase 1 Neighboring gene tau tubulin kinase 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:43239819-43240068 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17224 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:43245015-43245670 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:43245671-43246325 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:43254414-43255266

    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 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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    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Noncanonical assembly, neddylation and chimeric cullin-RING/RBR ubiquitylation by the 1.8 MDa CUL9 E3 ligase complex.
      Title: Noncanonical assembly, neddylation and chimeric cullin-RING/RBR ubiquitylation by the 1.8 MDa CUL9 E3 ligase complex.
    2. A proteomics approach for the identification of cullin-9 (CUL9) related signaling pathways in induced pluripotent stem cell models.
      Title: A proteomics approach for the identification of cullin-9 (CUL9) related signaling pathways in induced pluripotent stem cell models.
    3. Results in U2OS cells demonstrate that the functions of CUL9 in regulating cell proliferation and maintaining genomic integrity are mainly mediated by p53, and that CUL9 is a critical p53 activator.
      Title: Cytoplasmic E3 ubiquitin ligase CUL9 controls cell proliferation, senescence, apoptosis and genome integrity through p53.
    4. PARC-mediated ubiquitination and degradation of Cyt c is a strategy engaged by both neurons and cancer cells to prevent apoptosis during conditions of mitochondrial stress.
      Title: The E3 ligase PARC mediates the degradation of cytosolic cytochrome c to promote survival in neurons and cancer cells.
    5. PARC (also known as CUL9) was found to be the ubiquitin ligase responsible for the ubiquitination and proteasomal degradation of cytochrome c, thus promoting cell survival.
      Title: Killing the Killer: PARC/CUL9 promotes cell survival by destroying cytochrome C.
    6. the regulation of p53 subcellular localization and apoptosis by PARC as a contributing factor in CDDP resistance in OVCA cells and Ca(2+)/calpain in PARC post-translational processing and chemosensitivity.
      Title: Calpain-mediated processing of p53-associated parkin-like cytoplasmic protein (PARC) affects chemosensitivity of human ovarian cancer cells by promoting p53 subcellular trafficking.
    7. Observational study of gene-disease association. (HuGE Navigator)
      Title: Association of genetic variants with hemorrhagic stroke in Japanese individuals.
    8. These studies suggest that PARC-interacting peptides are promising candidates for the enhancement of p53-dependent apoptosis in tumors with wt cytoplasmic p53.
      Title: Activation of p53-dependent responses in tumor cells treated with a PARC-interacting peptide.
    9. PARC and CUL7 subcomplexes exhibit E3 ubiquitin ligase activity in vitro.
      Title: PARC and CUL7 form atypical cullin RING ligase complexes.
    10. FUBP1 is an authentic substrate of Parkin that might play an important role in development of Parkinson disease pathology along with aminoacyl-tRNA synthetase interacting multifunctional protein type 2
      Title: Identification of far upstream element-binding protein-1 as an authentic Parkin substrate.
    Submit: New GeneRIF Correction See all GeneRIFs (12)

    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

    EBI GWAS Catalog

    Description
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    EBI GWAS Catalog

    Variation

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    See Variation Viewer (GRCh37.p13)

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • DKFZp686G1042, DKFZp686P2024

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ubiquitin protein ligase activity TAS
    Traceable Author Statement
    more info
    		  
    enables ubiquitin protein ligase binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in microtubule cytoskeleton organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein ubiquitination IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein ubiquitination TAS
    Traceable Author Statement
    more info
    		  
    involved_in regulation of mitotic nuclear division IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in ubiquitin-dependent protein catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of cullin-RING ubiquitin ligase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    cullin-9
    Names
    CUL-9
    UbcH7-associated protein 1
    p53-associated parkin-like cytoplasmic protein
    parkin-like cytoplasmic p53 binding protein

    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_015089.4 → NP_055904.1  cullin-9

      See identical proteins and their annotated locations for NP_055904.1

      Status: VALIDATED

      Source sequence(s)
      AJ318215, AL133375, BC002879, KF458162
      Consensus CDS
      CCDS4890.1
      UniProtKB/Swiss-Prot
      O75188, Q5TCY3, Q68CP2, Q68D92, Q8IWT3, Q8N3W9, Q9BU56
      UniProtKB/TrEMBL
      E9PEZ1
      Related
      ENSP00000252050.4, ENST00000252050.9
      Conserved Domains (8) summary
      smart00182
      Location:1593 → 1764
      CULLIN; Cullin
      smart00647
      Location:2141 → 2203
      IBR; In Between Ring fingers
      pfam01485
      Location:2234 → 2272
      IBR; IBR domain, a half RING-finger domain
      pfam11515
      Location:366 → 440
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam13639
      Location:2068 → 2117
      zf-RING_2; Ring finger domain
      pfam16195
      Location:593 → 638
      UBA2_C; SUMO-activating enzyme subunit 2 C-terminus
      cl02148
      Location:1167 → 1297
      APC10-like; APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination
      cl11186
      Location:1864 → 1944
      Cullin_Nedd8; Cullin protein neddylation domain

    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_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      43182196..43224587
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017010589.2 → XP_016866078.1  cullin-9 isoform X1

      UniProtKB/TrEMBL
      E9PEZ1
      Conserved Domains (8) summary
      smart00182
      Location:1642 → 1813
      CULLIN; Cullin
      smart00647
      Location:2190 → 2252
      IBR; In Between Ring fingers
      pfam01485
      Location:2283 → 2321
      IBR; IBR domain, a half RING-finger domain
      pfam11515
      Location:366 → 440
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam13639
      Location:2117 → 2166
      zf-RING_2; Ring finger domain
      pfam16195
      Location:593 → 638
      UBA2_C; SUMO-activating enzyme subunit 2 C-terminus
      cl02148
      Location:1167 → 1297
      APC10-like; APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination
      cl11186
      Location:1913 → 1993
      Cullin_Nedd8; Cullin protein neddylation domain

    2. XM_011514423.3 → XP_011512725.1  cullin-9 isoform X1

      See identical proteins and their annotated locations for XP_011512725.1

      UniProtKB/TrEMBL
      E9PEZ1
      Conserved Domains (8) summary
      smart00182
      Location:1642 → 1813
      CULLIN; Cullin
      smart00647
      Location:2190 → 2252
      IBR; In Between Ring fingers
      pfam01485
      Location:2283 → 2321
      IBR; IBR domain, a half RING-finger domain
      pfam11515
      Location:366 → 440
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam13639
      Location:2117 → 2166
      zf-RING_2; Ring finger domain
      pfam16195
      Location:593 → 638
      UBA2_C; SUMO-activating enzyme subunit 2 C-terminus
      cl02148
      Location:1167 → 1297
      APC10-like; APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination
      cl11186
      Location:1913 → 1993
      Cullin_Nedd8; Cullin protein neddylation domain

    3. XM_047418475.1 → XP_047274431.1  cullin-9 isoform X3

      UniProtKB/Swiss-Prot
      O75188, Q5TCY3, Q68CP2, Q68D92, Q8IWT3, Q8N3W9, Q9BU56

    4. XM_047418478.1 → XP_047274434.1  cullin-9 isoform X6

    5. XM_011514422.2 → XP_011512724.1  cullin-9 isoform X1

      See identical proteins and their annotated locations for XP_011512724.1

      UniProtKB/TrEMBL
      E9PEZ1
      Conserved Domains (8) summary
      smart00182
      Location:1642 → 1813
      CULLIN; Cullin
      smart00647
      Location:2190 → 2252
      IBR; In Between Ring fingers
      pfam01485
      Location:2283 → 2321
      IBR; IBR domain, a half RING-finger domain
      pfam11515
      Location:366 → 440
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam13639
      Location:2117 → 2166
      zf-RING_2; Ring finger domain
      pfam16195
      Location:593 → 638
      UBA2_C; SUMO-activating enzyme subunit 2 C-terminus
      cl02148
      Location:1167 → 1297
      APC10-like; APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination
      cl11186
      Location:1913 → 1993
      Cullin_Nedd8; Cullin protein neddylation domain

    6. XM_011514424.2 → XP_011512726.1  cullin-9 isoform X2

      UniProtKB/TrEMBL
      E9PEZ1
      Conserved Domains (8) summary
      smart00182
      Location:1615 → 1786
      CULLIN; Cullin
      smart00647
      Location:2163 → 2225
      IBR; In Between Ring fingers
      pfam01485
      Location:2256 → 2294
      IBR; IBR domain, a half RING-finger domain
      pfam11515
      Location:366 → 440
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam13639
      Location:2090 → 2139
      zf-RING_2; Ring finger domain
      pfam16195
      Location:593 → 638
      UBA2_C; SUMO-activating enzyme subunit 2 C-terminus
      cl02148
      Location:1140 → 1270
      APC10-like; APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination
      cl11186
      Location:1886 → 1966
      Cullin_Nedd8; Cullin protein neddylation domain

    7. XM_047418476.1 → XP_047274432.1  cullin-9 isoform X4

    8. XM_011514425.2 → XP_011512727.1  cullin-9 isoform X5

      UniProtKB/TrEMBL
      E9PEZ1
      Conserved Domains (8) summary
      smart00182
      Location:1532 → 1703
      CULLIN; Cullin
      smart00647
      Location:2080 → 2142
      IBR; In Between Ring fingers
      pfam01485
      Location:2173 → 2211
      IBR; IBR domain, a half RING-finger domain
      pfam11515
      Location:366 → 419
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam13639
      Location:2007 → 2056
      zf-RING_2; Ring finger domain
      pfam16195
      Location:483 → 528
      UBA2_C; SUMO-activating enzyme subunit 2 C-terminus
      cl02148
      Location:1057 → 1187
      APC10-like; APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination
      cl11186
      Location:1803 → 1883
      Cullin_Nedd8; Cullin protein neddylation domain

    9. XM_047418479.1 → XP_047274435.1  cullin-9 isoform X7

    10. XM_047418477.1 → XP_047274433.1  cullin-9 isoform X6

    11. XM_047418480.1 → XP_047274436.1  cullin-9 isoform X9

    12. XM_011514426.2 → XP_011512728.1  cullin-9 isoform X8

      UniProtKB/TrEMBL
      E9PEZ1
      Conserved Domains (8) summary
      smart00182
      Location:1642 → 1813
      CULLIN; Cullin
      smart00647
      Location:2190 → 2252
      IBR; In Between Ring fingers
      pfam01485
      Location:2283 → 2321
      IBR; IBR domain, a half RING-finger domain
      pfam11515
      Location:366 → 440
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam13639
      Location:2117 → 2166
      zf-RING_2; Ring finger domain
      pfam16195
      Location:593 → 638
      UBA2_C; SUMO-activating enzyme subunit 2 C-terminus
      cl02148
      Location:1167 → 1297
      APC10-like; APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination
      cl11186
      Location:1913 → 1993
      Cullin_Nedd8; Cullin protein neddylation domain

    13. XM_047418481.1 → XP_047274437.1  cullin-9 isoform X11

    14. XM_011514428.2 → XP_011512730.1  cullin-9 isoform X13

      Conserved Domains (4) summary
      smart00182
      Location:1642 → 1813
      CULLIN; Cullin
      pfam11515
      Location:366 → 440
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam16195
      Location:593 → 638
      UBA2_C; SUMO-activating enzyme subunit 2 C-terminus
      cl02148
      Location:1167 → 1297
      APC10-like; APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination

    15. XM_047418482.1 → XP_047274438.1  cullin-9 isoform X14

    16. XM_011514430.2 → XP_011512732.1  cullin-9 isoform X15

      Conserved Domains (3) summary
      pfam11515
      Location:366 → 440
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam16195
      Location:593 → 638
      UBA2_C; SUMO-activating enzyme subunit 2 C-terminus
      cl02148
      Location:1167 → 1297
      APC10-like; APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination

    17. XM_047418483.1 → XP_047274439.1  cullin-9 isoform X15

    18. XM_011514427.1 → XP_011512729.1  cullin-9 isoform X10

      UniProtKB/TrEMBL
      E9PEZ1
      Conserved Domains (6) summary
      smart00182
      Location:1171 → 1342
      CULLIN; Cullin
      smart00647
      Location:1719 → 1781
      IBR; In Between Ring fingers
      pfam01485
      Location:1812 → 1850
      IBR; IBR domain, a half RING-finger domain
      pfam16195
      Location:122 → 167
      UBA2_C; SUMO-activating enzyme subunit 2 C-terminus
      cl02148
      Location:696 → 826
      APC10-like; APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination
      cl11186
      Location:1442 → 1522
      Cullin_Nedd8; Cullin protein neddylation domain

    19. XM_017010590.1 → XP_016866079.1  cullin-9 isoform X12

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      43010969..43053382
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054354821.1 → XP_054210796.1  cullin-9 isoform X1

    2. XM_054354824.1 → XP_054210799.1  cullin-9 isoform X3

    3. XM_054354828.1 → XP_054210803.1  cullin-9 isoform X6

    4. XM_054354820.1 → XP_054210795.1  cullin-9 isoform X1

    5. XM_054354823.1 → XP_054210798.1  cullin-9 isoform X2

    6. XM_054354825.1 → XP_054210800.1  cullin-9 isoform X4

    7. XM_054354826.1 → XP_054210801.1  cullin-9 isoform X5

    8. XM_054354829.1 → XP_054210804.1  cullin-9 isoform X7

    9. XM_054354827.1 → XP_054210802.1  cullin-9 isoform X6

    10. XM_054354831.1 → XP_054210806.1  cullin-9 isoform X9

    11. XM_054354830.1 → XP_054210805.1  cullin-9 isoform X8

    12. XM_054354833.1 → XP_054210808.1  cullin-9 isoform X11

    13. XM_054354835.1 → XP_054210810.1  cullin-9 isoform X13

    14. XM_054354836.1 → XP_054210811.1  cullin-9 isoform X14

    15. XM_054354838.1 → XP_054210813.1  cullin-9 isoform X15

    16. XM_054354837.1 → XP_054210812.1  cullin-9 isoform X15

    17. XM_054354822.1 → XP_054210797.1  cullin-9 isoform X1

    18. XM_054354832.1 → XP_054210807.1  cullin-9 isoform X10

    19. XM_054354834.1 → XP_054210809.1  cullin-9 isoform X12

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8IWT3.2 GenPept UniProtKB/Swiss-Prot:Q8IWT3

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