HYOU1

protein-coding

hypoxia up-regulated 1, the group of Heat shock 70kDa proteins

Gene summary

The protein encoded by this gene belongs to the heat shock protein 70 family. This gene uses alternative transcription start sites. A cis-acting segment found in the 5' UTR is involved in stress-dependent induction, resulting in the accumulation of this protein in the endoplasmic reticulum (ER) under hypoxic conditions. The protein encoded by this gene is thought to play an important role in protein folding and secretion in the ER. Since suppression of the protein is associated with accelerated apoptosis, it is also suggested to have an important cytoprotective role in hypoxia-induced cellular perturbation. This protein has been shown to be up-regulated in tumors, especially in breast tumors, and thus it is associated with tumor invasiveness. This gene also has an alternative translation initiation site, resulting in a protein that lacks the N-terminal signal peptide. This signal peptide-lacking protein, which is only 3 amino acids shorter than the mature protein in the ER, is thought to have a housekeeping function in the cytosol. In rat, this protein localizes to both the ER by a carboxy-terminal peptide sequence and to mitochondria by an amino-terminal targeting signal. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2014]

MANE transcript

NM_006389.5

Inheritance

AR

ClinVar variants

P:3U:489B:170

Top phenotype

Immunodeficiency 59 and hypoglycemia

gnomAD constraint

pLI —, LoF o/e 0.2

Max pathogenic AF

—

Genomic locus

chr11:119,044,188-119,057,227

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~13.0 kb
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GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

granulocytopenia with immunoglobulin abnormalityLIMITED

Inheritance Pattern: AR

Disease ID:MONDO:0009305

Submitter: ClinGen

*HYOU1* (also known as *ORP150*, *HSP12A*, and Grp170) was first reported in relation to autosomal recessive granulocytopenia with immunoglobulin abnormality in 2017 (Haapaniemi et al., PMID: 27913302). Immunodeficiency-59 and hypoglycemia (IMD59) is an autosomal recessive primary immunologic disorder characterized by combined immunodeficiency and recurrent septic infections of the respiratory tract, skin, and mucous membranes, as well as disturbed glucose metabolism. Granulocyte, B-cell, and dendritic cell deficiency are present. Six missense variants reported in four probands in four publications (PMIDs: 27913302, 35549617, 35822684, 32888943) are included in this curation. The probands presented with frequent septic infections of the respiratory tract and skin, granulocytopenia, psychomotor deterioration, neutropenia, low B-cell count, normal CD4+ T cells, and normal CD8+ T cells among other phenotypes. The mechanism of pathogenicity is not clear. Other pathogenic or likely pathogenic variants reported in ClinVar are large copy number changes that include more genes than *HYOU1*. This gene-disease relationship is also known as immunodeficiency 59 and hypoglycemia (MONDO:0009305) which has been supported by experimental evidence (expression studies) (PMIDs:18094145, 35822684). *ORP150* plays an important role in protein folding and secretion in the ER, perhaps as a molecular chaperone in concert with other stress-induced genes referred to as glucose-regulated proteins (GRPs). GRPs are members of the stress-responsive superfamily of genes that also includes heat shock proteins (HSPs). GRPs and HSPs are essential for normal cellular function, and *ORP150* regulation may play a crucial role in coping with environmental stress. *HYOU1* is one of many genes that are associated with congenital neutropenia, disorders characterized by low neutrophil counts, susceptibility to infections, and viable developmental abnormalities. The hypogammaglobulinemia associated with *HYOU1* deficiency is however less common among congenital neutropenia disorders. Like many of the other congenital neutropenia genes, pathogenic variants in *HYOU1* are associated with a risk for leukemic transformation. Animal models (PMIDs: 10037731, 15223375, 11714735) of *ORP150* deficiency do not have signs of granulocytopenia or hypogammaglobulinemia but instead, exhibit neurodegenerative features. Neurodegeneration has not been described in patients with *HYOU1*-related granulocytopenia with immunoglobulin abnormality but most have died early in life so it remains unclear whether this could develop with age. In summary, there is limited evidence supporting the relationship between *HYOU1* and autosomal recessive granulocytopenia with immunoglobulin abnormality. This classification was approved by the ClinGen Primary Immune Regulatory Disorders GCEP on the meeting date January, 21, 2025 (SOP Version 11).

granulocytopenia with immunoglobulin abnormalityLIMITED

Inheritance Pattern: Unknown

Disease ID:MONDO:0009305

Submitter: Labcorp Genetics (formerly Invitae)

granulocytopenia with immunoglobulin abnormalityLIMITED

Inheritance Pattern: AR

Disease ID:MONDO:0009305

Submitter: Ambry Genetics

granulocytopenia with immunoglobulin abnormalitySTRONG

Inheritance Pattern: AR

Disease ID:MONDO:0009305

Submitter: PanelApp Australia

Clinical Genomic Database (CGD)

Immunodeficiency 59 and hypoglycemiaAR

Manifestation: Allergy/Immunology/Infectious; Endocrine

Intervention: Allergy/Immunology/Infectious; Endocrine

Rationale: The condition has been described as involving recurrent infection, and antiinfectious prophylaxis and early and aggressive treatment of infections may be beneficial; Abnormal gluocose metabolism (resulting in hypoglycemia) has been described, and awareness may allow prompt management

Refs: 27913302Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to HYOU1 variants in ClinVar

5 Conditions Cataloged
not providedTotal: 767
not specifiedTotal: 208
HYOU1-related disorderTotal: 32
Granulocytopenia with immunoglobulin abnormalityTotal: 16
Infantile hypotonia-oculomotor anomalies-hyperkinetic movements-developmental delay syndromeTotal: 1

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_006389.5. Only rare variants are included.

We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.

Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.

EffectPLPVUSLBBSum
synonymous
48
clinvar
152
clinvar
6
clinvar
206
missense
3
clinvar
427
clinvar
12
clinvar
442
nonsense
4
clinvar
4
start loss
0
frameshift
3
clinvar
3
splice donor/acceptor (+/-2bp)
7
clinvar
7
Total304891646662

Highest pathogenic variant AF is 6.86144e-7

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 84 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_006389.5RefSeqNP_006380.125MANE Select
ENST00000617285.5EnsemblENSP00000480150.125MANE Select
NM_001130991.3RefSeqNP_001124463.125Standard
NM_001411041.1RefSeqNP_001397970.125Standard

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • Protein processing in endoplasmic reticulum - Homo sapiens (human)
  • Ibuprofen Action Pathway
  • Phenytoin (Antiarrhythmic) Action Pathway
  • Ibuprofen Metabolism Pathway
  • Morphine Metabolism Pathway

Biological Process

  • response to ischemia
  • endoplasmic reticulum to Golgi vesicle-mediated transport
  • receptor-mediated endocytosis
  • response to endoplasmic reticulum stress
  • IRE1-mediated unfolded protein response

Molecular Function

  • ATP binding
  • chaperone binding

Cellular Component

  • extracellular region
  • endoplasmic reticulum
  • endoplasmic reticulum lumen
  • smooth endoplasmic reticulum
  • focal adhesion

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000404233
Coding exons
25
Length
13014
Individuals with no LoFs
125726
Homozygous LoFs
0
Heterozygous LoFs
22
Defined
125748
p
0.0000875
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense1.804725960.7920.00003606538
Missense (PolyPhen)96182.650.525592059
Synonymous-0.4862372281.040.00001351969
Loss of Function5.491154.90.2000.00000303608

Population LoF Frequency

PopulationCAFp-valueStatus
African0.000310.00031rare
Latino/Admixed American00.0absent
Ashkenazi Jewish0.0000990.000099rare
East Asian0.000160.00016rare
Finnish0.000220.00018rare
European (Non-Finnish)0.0000350.000035rare
South Asian0.000130.00013rare
Other0.000160.00016rare

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Has a pivotal role in cytoprotective cellular mechanisms triggered by oxygen deprivation. May play a role as a molecular chaperone and participate in protein folding. {ECO:0000269|PubMed:10037731}.;

Recessive Scores

pRec
0.180

Intolerance Scores

LoFtool
0.406
RVIS EVS
-1.84
RVIS percentile EVS
2.08

Essentials

Essential (CRISPR)
E
Essential (CRISPR2)
E
Essential (gene trap)
N
Indispensability pred.
N
Indispensability score
0.498

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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