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LHPP phospholysine phosphohistidine inorganic pyrophosphate phosphatase [ Homo sapiens (human) ]

Gene ID: 64077, updated on 2-Nov-2024

Summary

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Official Symbol
LHPPprovided by HGNC
Official Full Name
phospholysine phosphohistidine inorganic pyrophosphate phosphataseprovided by HGNC
Primary source
HGNC:HGNC:30042
See related
Ensembl:ENSG00000107902 MIM:617231; AllianceGenome:HGNC:30042
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
HDHD2B
Summary
Enables inorganic diphosphate phosphatase activity and protein homodimerization activity. Involved in phosphate-containing compound metabolic process. Located in cytosol and nuclear speck. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in brain (RPKM 7.5), kidney (RPKM 4.5) and 25 other tissues See more
Orthologs
mouse all
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Genomic context

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See LHPP in Genome Data Viewer
Location:
10q26.13
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (124461823..124614141)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (125340028..125495193)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (126150392..126302710)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126135289-126136156 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:126139473-126140028 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:126140029-126140585 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2910 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126152248-126152748 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126152749-126153249 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126156959-126157916 Neighboring gene NK1 homeobox 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126163369-126163869 Neighboring gene ornithine aminotransferase pseudogene 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:126169709-126169860 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126170100-126170636 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126172247-126172783 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126172784-126173319 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126183769-126184346 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126184347-126184924 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126184925-126185502 Neighboring gene ribosomal protein S10 pseudogene 18 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126210683-126211224 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4166 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_10852 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2911 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126221662-126222195 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126222196-126222728 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126228406-126228906 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4167 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_10867 Neighboring gene Neanderthal introgressed variant-containing enhancers experimental_10870 and experimental_10871 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126247815-126248795 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126254941-126255518 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_10873 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126294466-126295410 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4168 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126301501-126302011 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4169 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126310260-126310760 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126313637-126314592 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126314593-126315548 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126315549-126316504 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126318420-126319272 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126326782-126327282 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126328441-126329180 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4170 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126330659-126331396 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4171 Neighboring gene Sharpr-MPRA regulatory regions 4217 and 14470 Neighboring gene Sharpr-MPRA regulatory region 12473 Neighboring gene family with sequence similarity 53 member B Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4173 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126347140-126348026 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126352280-126352937 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126359217-126359750 Neighboring gene Sharpr-MPRA regulatory region 1593 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126362023-126362646 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2912 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:126373874-126374845 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4174 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126376343-126376844 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4175 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:126381504-126381695 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4176 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4177 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126388301-126388971 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4178 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4179 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126393799-126394390 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126397487-126398205 Neighboring gene Sharpr-MPRA regulatory region 10105 Neighboring gene FAM53B antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4180 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4181 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126412727-126413693 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4182 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4183 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126421434-126421976 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4184 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2913 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2914 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2915 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2916 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2917 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2918 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4185 Neighboring gene EEF1A lysine methyltransferase 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126480408-126481132

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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Related articles in PubMed

  1. LHPP promotes the intracellular reactive oxygen species accumulation and sensitivity of gastric cancer to cisplatin via JNK and p38 MAPK pathways. Gao K, et al. Histol Histopathol, 2023 Sep. PMID 36546683
  2. The Interplay Between Risky Sexual Behaviors and Alcohol Dependence: Genome-Wide Association and Neuroimaging Support for LHPP as a Risk Gene. Polimanti R, et al. Neuropsychopharmacology, 2017 Feb. PMID 27531626, Free PMC Article
  3. Relationship between the LHPP Gene Polymorphism and Resting-State Brain Activity in Major Depressive Disorder. Cui L, et al. Neural Plast, 2016. PMID 27843651, Free PMC Article
  4. Association of LHPP genetic variation (rs35936514) with structural and functional connectivity of hippocampal-corticolimbic neural circuitry. Cui L, et al. Brain Imaging Behav, 2020 Aug. PMID 31250265
  5. Tumor suppressor LHPP regulates the proliferation of colorectal cancer cells via the PI3K/AKT pathway. Hou B, et al. Oncol Rep, 2020 Feb. PMID 31894339, Free PMC Article

See all (44) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LHPP promotes the intracellular reactive oxygen species accumulation and sensitivity of gastric cancer to cisplatin via JNK and p38 MAPK pathways.
    Title: LHPP promotes the intracellular reactive oxygen species accumulation and sensitivity of gastric cancer to cisplatin via JNK and p38 MAPK pathways.
  2. Identification of Tumor Suppressor Gene LHPP-Based 5-microRNA Signature That Predicts the Early- and Midstage Esophageal Squamous Cell Carcinoma: A Two-Stage Case-Control Study in the Chinese Han Population.
    Title: Identification of Tumor Suppressor Gene LHPP-Based 5-microRNA Signature That Predicts the Early- and 
Midstage Esophageal Squamous Cell Carcinoma: 
A Two-Stage Case-Control Study in the Chinese Han Population.
  3. LHPP Inhibits the Viability, Migration, and Proliferation of PDAC Cells and Significantly Affects the Expression of SDC1 and S100p.
    Title: LHPP Inhibits the Viability, Migration, and Proliferation of PDAC Cells and Significantly Affects the Expression of SDC1 and S100p.
  4. Tumor suppressor LHPP suppresses cell proliferation and epithelial-mesenchymal transition in hepatocellular carcinoma cell lines.
    Title: Tumor suppressor LHPP suppresses cell proliferation and epithelial-mesenchymal transition in hepatocellular carcinoma cell lines.
  5. As a Novel Tumor Suppressor, LHPP Promotes Apoptosis by Inhibiting the PI3K/AKT Signaling Pathway in Oral Squamous Cell Carcinoma.
    Title: As a Novel Tumor Suppressor, LHPP Promotes Apoptosis by Inhibiting the PI3K/AKT Signaling Pathway in Oral Squamous Cell Carcinoma.
  6. Three LHPP gene-targeting co-expressed microRNAs (microRNA-765, microRNA-21, and microRNA-144) promote proliferation, epithelial-mesenchymal transition, invasion, and are independent prognostic biomarkers in renal cell carcinomas patients.
    Title: Three LHPP gene-targeting co-expressed microRNAs (microRNA-765, microRNA-21, and microRNA-144) promote proliferation, epithelial-mesenchymal transition, invasion, and are independent prognostic biomarkers in renal cell carcinomas patients.
  7. LHPP exerts a tumor-inhibiting role in glioblastoma via the downregulation of Akt and Wnt/beta-catenin signaling.
    Title: LHPP exerts a tumor-inhibiting role in glioblastoma via the downregulation of Akt and Wnt/β-catenin signaling.
  8. LHPP suppresses tumorigenesis of intrahepatic cholangiocarcinoma by inhibiting the TGFbeta/smad signaling pathway.
    Title: LHPP suppresses tumorigenesis of intrahepatic cholangiocarcinoma by inhibiting the TGFβ/smad signaling pathway.
  9. Prognostic Correlation of Glycolysis-Related Gene Signature in Patients with Laryngeal Cancer.
    Title: Prognostic Correlation of Glycolysis-Related Gene Signature in Patients with Laryngeal Cancer.
  10. LHPP inhibits hepatocellular carcinoma cell growth and metastasis.
    Title: LHPP inhibits hepatocellular carcinoma cell growth and metastasis.
Submit: New GeneRIF Correction See all GeneRIFs (26)

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
Genome wide association study for plasma levels of natural anticoagulant inhibitors and protein C anticoagulant pathway: the MARTHA project.
EBI GWAS Catalog
Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women.
EBI GWAS Catalog
Genome-wide association study of chemotherapeutic agent-induced severe neutropenia/leucopenia for patients in Biobank Japan.
EBI GWAS Catalog
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
EBI GWAS Catalog

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

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

  • FLJ44846, FLJ46044, MGC117251, MGC142189, MGC142191

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables inorganic diphosphate phosphatase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables inorganic diphosphate phosphatase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables phosphatase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein homodimerization activity IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in dephosphorylation IEA
Inferred from Electronic Annotation
more info
  
involved_in phosphate-containing compound metabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in nuclear speck IDA
Inferred from Direct Assay
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
phospholysine phosphohistidine inorganic pyrophosphate phosphatase
Names
hLHPP
NP_001161352.1
NP_001305260.1
NP_001305261.1
NP_071409.3
XP_005270083.1
XP_011538360.1
XP_016871998.1
XP_016872001.1
XP_024303890.1
XP_054222503.1
XP_054222504.1
XP_054222505.1
XP_054222506.1
XP_054222507.1

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_001167880.2 → NP_001161352.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an exon in the coding region, which results in a frameshift and an early stop codon, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AL445237, BC007324, BC113629
    Consensus CDS
    CCDS53587.1
    UniProtKB/Swiss-Prot
    Q9H008
    Related
    ENSP00000357832.1, ENST00000368839.1
    Conserved Domains (2) summary
    pfam13242
    Location:186 → 209
    Hydrolase_like; HAD-hyrolase-like
    pfam13344
    Location:14 → 111
    Hydrolase_6; Haloacid dehalogenase-like hydrolase

  2. NM_001318331.2 → NP_001305260.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks alternate in-frame exons in the coding region compared to variant 1. It encodes isoform 3, which is shorter than isoform 1.
    Source sequence(s)
    BC073172, BC110344, BC113629, HY154569
    UniProtKB/Swiss-Prot
    Q9H008
    Conserved Domains (2) summary
    TIGR01458
    Location:11 → 184
    HAD-SF-IIA-hyp3; HAD-superfamily subfamily IIA hydrolase, TIGR01458
    pfam13344
    Location:14 → 111
    Hydrolase_6; Haloacid dehalogenase-like hydrolase

  3. NM_001318332.2 → NP_001305261.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks a portion of the 3' coding region and uses an alternate 3'-terminal exon compared to variant 1. It encodes isoform 4, which is shorter and has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AL445237, AW631352, BC113629, BM541880, BQ012268
    Consensus CDS
    CCDS81519.1
    UniProtKB/TrEMBL
    Q5T1Z0
    Related
    ENSP00000376512.4, ENST00000392757.8
    Conserved Domains (2) summary
    pfam13242
    Location:186 → 208
    Hydrolase_like; HAD-hyrolase-like
    pfam13344
    Location:14 → 111
    Hydrolase_6; Haloacid dehalogenase-like hydrolase

  4. NM_022126.4 → NP_071409.3  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform 1

    See identical proteins and their annotated locations for NP_071409.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK055532, AL445237, BC007324, BC113631
    Consensus CDS
    CCDS7640.1
    UniProtKB/Swiss-Prot
    B3KP20, Q2TBE9, Q5VUV9, Q5VUW0, Q9H008
    Related
    ENSP00000357835.5, ENST00000368842.10
    Conserved Domains (3) summary
    TIGR01458
    Location:11 → 267
    HAD-SF-IIA-hyp3; HAD-superfamily subfamily IIA hydrolase, TIGR01458
    pfam13242
    Location:186 → 260
    Hydrolase_like; HAD-hyrolase-like
    pfam13344
    Location:14 → 111
    Hydrolase_6; Haloacid dehalogenase-like hydrolase

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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    124461823..124614141
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005270026.4 → XP_005270083.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform X2

    Conserved Domains (3) summary
    TIGR01460
    Location:14 → 236
    HAD-SF-IIA; Haloacid Dehalogenase Superfamily Class (subfamily) IIA
    pfam13242
    Location:186 → 243
    Hydrolase_like; HAD-hyrolase-like
    pfam13344
    Location:14 → 111
    Hydrolase_6; Haloacid dehalogenase-like hydrolase

  2. XM_024448122.1 → XP_024303890.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform X3

    Conserved Domains (1) summary
    cl28370
    Location:11 → 239
    NagD; Ribonucleotide monophosphatase NagD, HAD superfamily [Nucleotide transport and metabolism]

  3. XM_017016509.2 → XP_016871998.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform X1

  4. XM_011540058.4 → XP_011538360.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform X4

    Conserved Domains (2) summary
    pfam13242
    Location:186 → 208
    Hydrolase_like; HAD-hyrolase-like
    pfam13344
    Location:14 → 111
    Hydrolase_6; Haloacid dehalogenase-like hydrolase

  5. XM_017016512.2 → XP_016872001.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform X5

RNA

  1. XR_001747177.3 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    125340028..125495193
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054366529.1 → XP_054222504.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform X2

  2. XM_054366530.1 → XP_054222505.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform X3

  3. XM_054366528.1 → XP_054222503.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform X1

  4. XM_054366531.1 → XP_054222506.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform X4

  5. XM_054366532.1 → XP_054222507.1  phospholysine phosphohistidine inorganic pyrophosphate phosphatase isoform X5

RNA

  1. XR_008488245.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9H008.2 GenPept UniProtKB/Swiss-Prot:Q9H008

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