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HCFC1 host cell factor C1 [ Homo sapiens (human) ]

Gene ID: 3054, updated on 7-Apr-2024

Summary

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Official Symbol
HCFC1provided by HGNC
Official Full Name
host cell factor C1provided by HGNC
Primary source
HGNC:HGNC:4839
See related
Ensembl:ENSG00000172534 MIM:300019; AllianceGenome:HGNC:4839
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CFF; HCF; HCF1; HFC1; MRX3; VCAF; HCF-1; MAHCX; XLID3; PPP1R89
Summary
This gene is a member of the host cell factor family and encodes a protein with five Kelch repeats, a fibronectin-like motif, and six HCF repeats, each of which contains a highly specific cleavage signal. This nuclear coactivator is proteolytically cleaved at one of the six possible sites, resulting in the creation of an N-terminal chain and the corresponding C-terminal chain. The final form of this protein consists of noncovalently bound N- and C-terminal chains. The protein is involved in control of the cell cycle and transcriptional regulation during herpes simplex virus infection. Alternatively spliced variants which encode different protein isoforms have been described; however, not all variants have been fully characterized. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in bone marrow (RPKM 11.5), spleen (RPKM 8.5) and 25 other tissues See more
Orthologs
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Genomic context

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See HCFC1 in Genome Data Viewer
Location:
Xq28
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (153947557..153971818, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (152221276..152245538, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (153213008..153237269, complement)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21075 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:153200750-153201255 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:153201256-153201760 Neighboring gene N-alpha-acetyltransferase 10, NatA catalytic subunit Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:153204898-153205662 Neighboring gene renin binding protein Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30043 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:153210247-153211010 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:153213176-153213715 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30044 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:153231131-153231789 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:153231790-153232449 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:153234675-153234853 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30045 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:153235869-153236718 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21077 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21078 Neighboring gene HCFC1 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21079 Neighboring gene transmembrane protein 187 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30047 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30048 Neighboring gene microRNA 3202-1 Neighboring gene microRNA 3202-2 Neighboring gene CRISPRi-validated cis-regulatory element chrX.2695 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:153265676-153266176 Neighboring gene NFE2L2 motif-containing MPRA enhancer 190/191 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:153277410-153278394 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:153278395-153279378 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21080 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21081 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:153285318-153286287 Neighboring gene interleukin 1 receptor associated kinase 1

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. HCFC1 variants in the proteolysis domain are associated with X-linked idiopathic partial epilepsy: Exploring the underlying mechanism. He N, et al. Clin Transl Med, 2023 Jun. PMID 37264743, Free PMC Article
  2. Novel exon-skipping variant disrupting the basic domain of HCFC1 causes intellectual disability without metabolic abnormalities in both male and female patients. Wongkittichote P, et al. J Hum Genet, 2021 Jul. PMID 33517344
  3. Heat-Shock Protein 90 Controls the Expression of Cell-Cycle Genes by Stabilizing Metazoan-Specific Host-Cell Factor HCFC1. Antonova A, et al. Cell Rep, 2019 Nov 5. PMID 31693902
  4. The conserved threonine-rich region of the HCF-1(PRO) repeat activates promiscuous OGT:UDP-GlcNAc glycosylation and proteolysis activities. Kapuria V, et al. J Biol Chem, 2018 Nov 16. PMID 30224358, Free PMC Article
  5. Multiple congenital anomalies in two boys with mutation in HCFC1 and cobalamin disorder. Gérard M, et al. Eur J Med Genet, 2015 Mar. PMID 25595573

See all (256) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. HCFC1 variants in the proteolysis domain are associated with X-linked idiopathic partial epilepsy: Exploring the underlying mechanism.
    Title: HCFC1 variants in the proteolysis domain are associated with X-linked idiopathic partial epilepsy: Exploring the underlying mechanism.
  2. Novel exon-skipping variant disrupting the basic domain of HCFC1 causes intellectual disability without metabolic abnormalities in both male and female patients.
    Title: Novel exon-skipping variant disrupting the basic domain of HCFC1 causes intellectual disability without metabolic abnormalities in both male and female patients.
  3. MLL5, a histone modifying enzyme, regulates androgen receptor activity in prostate cancer cells by recruiting co-regulators, HCF1 and SET1.
    Title: MLL5, a histone modifying enzyme, regulates androgen receptor activity in prostate cancer cells by recruiting co-regulators, HCF1 and SET1.
  4. HCF-1 promotes cell cycle progression by regulating the expression of CDC42.
    Title: HCF-1 promotes cell cycle progression by regulating the expression of CDC42.
  5. Heat-Shock Protein 90 Controls the Expression of Cell-Cycle Genes by Stabilizing Metazoan-Specific Host-Cell Factor HCFC1.
    Title: Heat-Shock Protein 90 Controls the Expression of Cell-Cycle Genes by Stabilizing Metazoan-Specific Host-Cell Factor HCFC1.
  6. Host cell factors stimulate HIV-1 transcription by antagonizing substrate-binding function of Siah1 ubiquitin ligase to stabilize transcription elongation factor ELL2.
    Title: Host cell factors stimulate HIV-1 transcription by antagonizing substrate-binding function of Siah1 ubiquitin ligase to stabilize transcription elongation factor ELL2.
  7. The HCF-1:ChREBP complex resides at lipogenic gene promoters, where HCF-1 regulates H3K4 trimethylation to prime recruitment of the Jumonji C domain-containing histone demethylase PHF2 for epigenetic activation of these promoters.. these findings define HCF-1's interaction with ChREBP as a previously unappreciated mechanism whereby glucose signals are both relayed to ChREBP and transmitted for epigenetic regulation
    Title: HCF-1 Regulates De Novo Lipogenesis through a Nutrient-Sensitive Complex with ChREBP.
  8. The HCF-1PRO repeat possesses an important extended threonine-rich region that is tightly bound by the OGT tetratricopeptide-repeat region. This region confers both glycosylation and proteolytic activities to HCF-1.
    Title: The conserved threonine-rich region of the HCF-1(PRO) repeat activates promiscuous OGT:UDP-GlcNAc glycosylation and proteolysis activities.
  9. Data show that Myc boxes (MbIV) is required for the association of MYC with the abundant transcriptional coregulator host cell factor-1 (HCF-1).
    Title: Interaction of MYC with host cell factor-1 is mediated by the evolutionarily conserved Myc box IV motif.
  10. The M4 motif (ACTAYRNNNCCCR) is a functional regulatory bipartite cis-element, which engages a THAP11/HCF-1 complex via binding to the ACTAYR module, while the CCCRRNRNRC subsequence part constitutes a binding platform for Ikaros and NFKB1
    Title: Biochemical and cellular characterization of transcription factors binding to the hyperconserved core promoter-associated M4 motif.
Submit: New GeneRIF Correction See all GeneRIFs (49)

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

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat specifically associates with HCFC1 promoter to downregulate HCFC1 expression in T cells PubMed

Go to the HIV-1, Human Interaction Database

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

  • MGC70925

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA-binding transcription factor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables cadherin binding HDA PubMed 
enables chromatin binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein-macromolecule adaptor activity IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription coactivator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transcription coactivator activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Process Evidence Code Pubs
involved_in cell cycle IEA
Inferred from Electronic Annotation
more info
  
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in positive regulation of cell cycle TAS
Traceable Author Statement
more info
 PubMed 
involved_in positive regulation of gene expression IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein stabilization IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of protein-containing complex assembly IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in release from viral latency NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
part_of MLL1 complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of MLL1 complex IPI
Inferred from Physical Interaction
more info
 PubMed 
part_of MLL1/2 complex IPI
Inferred from Physical Interaction
more info
 PubMed 
part_of NSL complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of Set1C/COMPASS complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of Set1C/COMPASS complex IPI
Inferred from Physical Interaction
more info
 PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
part_of histone acetyltransferase complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of histone methyltransferase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane HDA PubMed 
located_in neuronal cell body IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
host cell factor 1
Names
VP16-accessory protein
protein phosphatase 1, regulatory subunit 89

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.

Genomic

  1. NG_012513.2 RefSeqGene

    Range
    5000..29261
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001410705.1 → NP_001397634.1  host cell factor 1 isoform 1

    Status: REVIEWED

    Source sequence(s)
    U52112
    Consensus CDS
    CCDS94699.1
    UniProtKB/TrEMBL
    A6NEM2
    Related
    ENSP00000359001.4, ENST00000369984.4

  2. NM_005334.3 → NP_005325.2  host cell factor 1 isoform 2

    See identical proteins and their annotated locations for NP_005325.2

    Status: REVIEWED

    Source sequence(s)
    BC010606, BC063435, L20010, U52112
    Consensus CDS
    CCDS44020.1
    UniProtKB/Swiss-Prot
    P51610, Q6P4G5
    UniProtKB/TrEMBL
    A0A223PQH6
    Related
    ENSP00000309555.7, ENST00000310441.12
    Conserved Domains (6) summary
    PLN02153
    Location:12 → 330
    PLN02153; epithiospecifier protein
    cd00063
    Location:1856 → 1885
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    sd00038
    Location:200 → 253
    Kelch; KELCH repeat [structural motif]
    pfam01344
    Location:32 → 69
    Kelch_1; Kelch motif
    pfam13415
    Location:215 → 263
    Kelch_3; Galactose oxidase, central domain
    pfam13854
    Location:134 → 179
    Kelch_5; Kelch motif

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_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    153947557..153971818 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047442060.1 → XP_047298016.1  host cell factor 1 isoform X14

  2. XM_047442059.1 → XP_047298015.1  host cell factor 1 isoform X13

  3. XM_017029471.3 → XP_016884960.1  host cell factor 1 isoform X12

    UniProtKB/TrEMBL
    A0A223PQH6

  4. XM_047442058.1 → XP_047298014.1  host cell factor 1 isoform X11

  5. XM_011531148.4 → XP_011529450.1  host cell factor 1 isoform X9

    UniProtKB/TrEMBL
    A0A223PQH6
    Conserved Domains (6) summary
    PLN02153
    Location:12 → 330
    PLN02153; epithiospecifier protein
    cd00063
    Location:1859 → 1888
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    sd00038
    Location:200 → 253
    Kelch; KELCH repeat [structural motif]
    pfam01344
    Location:32 → 69
    Kelch_1; Kelch motif
    pfam13415
    Location:215 → 263
    Kelch_3; Galactose oxidase, central domain
    pfam13854
    Location:134 → 179
    Kelch_5; Kelch motif

  6. XM_047442057.1 → XP_047298013.1  host cell factor 1 isoform X10

  7. XM_011531147.4 → XP_011529449.1  host cell factor 1 isoform X8

    UniProtKB/TrEMBL
    A0A223PQH6
    Conserved Domains (6) summary
    PLN02153
    Location:12 → 330
    PLN02153; epithiospecifier protein
    cd00063
    Location:1860 → 1889
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    sd00038
    Location:200 → 253
    Kelch; KELCH repeat [structural motif]
    pfam01344
    Location:32 → 69
    Kelch_1; Kelch motif
    pfam13415
    Location:215 → 263
    Kelch_3; Galactose oxidase, central domain
    pfam13854
    Location:134 → 179
    Kelch_5; Kelch motif

  8. XM_047442056.1 → XP_047298012.1  host cell factor 1 isoform X7

  9. XM_047442054.1 → XP_047298010.1  host cell factor 1 isoform X4

  10. XM_047442055.1 → XP_047298011.1  host cell factor 1 isoform X6

  11. XM_047442053.1 → XP_047298009.1  host cell factor 1 isoform X3

  12. XM_006724816.4 → XP_006724879.1  host cell factor 1 isoform X5

    UniProtKB/TrEMBL
    A0A223PQH6
    Conserved Domains (6) summary
    PLN02153
    Location:12 → 330
    PLN02153; epithiospecifier protein
    cd00063
    Location:1900 → 1929
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    sd00038
    Location:200 → 253
    Kelch; KELCH repeat [structural motif]
    pfam01344
    Location:32 → 69
    Kelch_1; Kelch motif
    pfam13415
    Location:215 → 263
    Kelch_3; Galactose oxidase, central domain
    pfam13854
    Location:134 → 179
    Kelch_5; Kelch motif

  13. XM_047442052.1 → XP_047298008.1  host cell factor 1 isoform X2

  14. XM_047442051.1 → XP_047298007.1  host cell factor 1 isoform X1

  15. XM_047442061.1 → XP_047298017.1  host cell factor 1 isoform X15

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    152221276..152245538 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054326953.1 → XP_054182928.1  host cell factor 1 isoform X14

  2. XM_054326952.1 → XP_054182927.1  host cell factor 1 isoform X13

  3. XM_054326951.1 → XP_054182926.1  host cell factor 1 isoform X12

  4. XM_054326950.1 → XP_054182925.1  host cell factor 1 isoform X11

  5. XM_054326948.1 → XP_054182923.1  host cell factor 1 isoform X9

  6. XM_054326949.1 → XP_054182924.1  host cell factor 1 isoform X10

  7. XM_054326947.1 → XP_054182922.1  host cell factor 1 isoform X8

  8. XM_054326946.1 → XP_054182921.1  host cell factor 1 isoform X7

  9. XM_054326943.1 → XP_054182918.1  host cell factor 1 isoform X4

  10. XM_054326945.1 → XP_054182920.1  host cell factor 1 isoform X6

  11. XM_054326942.1 → XP_054182917.1  host cell factor 1 isoform X3

  12. XM_054326944.1 → XP_054182919.1  host cell factor 1 isoform X5

  13. XM_054326941.1 → XP_054182916.1  host cell factor 1 isoform X2

  14. XM_054326940.1 → XP_054182915.1  host cell factor 1 isoform X1

  15. XM_054326954.1 → XP_054182929.1  host cell factor 1 isoform X15

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P51610.2 GenPept UniProtKB/Swiss-Prot:P51610

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