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BPNT1 3'(2'), 5'-bisphosphate nucleotidase 1 [ Homo sapiens (human) ]

Gene ID: 10380, updated on 27-Nov-2024

Summary

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Official Symbol
BPNT1provided by HGNC
Official Full Name
3'(2'), 5'-bisphosphate nucleotidase 1provided by HGNC
Primary source
HGNC:HGNC:1096
See related
Ensembl:ENSG00000162813 MIM:604053; AllianceGenome:HGNC:1096
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
PIP; HEL20; HsPIP
Summary
BPNT1, also called bisphosphate 3-prime-nucleotidase, or BPntase, is a member of a magnesium-dependent phosphomonoesterase family. Lithium, a major drug used to treat manic depression, acts as an uncompetitive inhibitor of BPntase. The predicted human protein is 92% identical to mouse BPntase. BPntase's physiologic role in nucleotide metabolism may be regulated by inositol signaling pathways. The inhibition of human BPntase may account for lithium-induced nephrotoxicity. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in small intestine (RPKM 11.4), duodenum (RPKM 10.5) and 24 other tissues See more
Orthologs
mouse all
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Genomic context

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See BPNT1 in Genome Data Viewer
Location:
1q41
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (220057482..220089788, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (219296762..219329190, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (220230824..220263130, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA U3 Neighboring gene glutamyl-prolyl-tRNA synthetase 1 Neighboring gene small nucleolar RNA U13 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_4879 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:220200073-220200574 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:220219000-220219557 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2551 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2552 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_4904 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2553 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2554 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1822 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1823 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:220267703-220268202 Neighboring gene uncharacterized LOC105373475 Neighboring gene isoleucyl-tRNA synthetase 2, mitochondrial Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_4917 Neighboring gene uncharacterized LOC124904515 Neighboring gene microRNA 215

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. CircRNA HLCS regulates lens epithelial cell apoptosis via miR-338-3p/BPNT1 axis. Sun L, et al. Int Ophthalmol, 2024 Mar 17. PMID 38493427
  2. Cloning and characterization of a mammalian lithium-sensitive bisphosphate 3'-nucleotidase inhibited by inositol 1,4-bisphosphate. Spiegelberg BD, et al. J Biol Chem, 1999 May 7. PMID 10224133
  3. Evaluation of candidate stromal epithelial cross-talk genes identifies association between risk of serous ovarian cancer and TERT, a cancer susceptibility "hot-spot". Johnatty SE, et al. PLoS Genet, 2010 Jul 8. PMID 20628624, Free PMC Article
  4. AIMP2-DX2 provides therapeutic interface to control KRAS-driven tumorigenesis. Kim DG, et al. Nat Commun, 2022 May 11. PMID 35546148, Free PMC Article
  5. N(6)-Methyladenosine on mRNA facilitates a phase-separated nuclear body that suppresses myeloid leukemic differentiation. Cheng Y, et al. Cancer Cell, 2021 Jul 12. PMID 34048709, Free PMC Article

See all (33) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. CircRNA HLCS regulates lens epithelial cell apoptosis via miR-338-3p/BPNT1 axis.
    Title: CircRNA HLCS regulates lens epithelial cell apoptosis via miR-338-3p/BPNT1 axis.
  2. Meta-analysis of gene-disease association. (HuGE Navigator)
    Title: Evaluation of candidate stromal epithelial cross-talk genes identifies association between risk of serous ovarian cancer and TERT, a cancer susceptibility "hot-spot".
Submit: New GeneRIF Correction

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)

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

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables 3'(2'),5'-bisphosphate nucleotidase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables 3'(2'),5'-bisphosphate nucleotidase activity TAS
Traceable Author Statement
more info
  
enables inositol-1,4-bisphosphate 1-phosphatase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in 3'-phosphoadenosine 5'-phosphosulfate metabolic process TAS
Traceable Author Statement
more info
  
involved_in nervous system development TAS
Traceable Author Statement
more info
 PubMed 
involved_in nucleobase-containing compound metabolic process TAS
Traceable Author Statement
more info
 PubMed 
involved_in phosphatidylinositol phosphate biosynthetic process IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in mitochondrion HTP PubMed 

General protein information

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Preferred Names
3'(2'),5'-bisphosphate nucleotidase 1
Names
3'-phosphoadenosine 5'-phosphate phosphatase
BPntase
BPntase 1
PAP phosphatase
PAP-inositol-1,4-phosphatase
bisphosphate 3'-nucleotidase 1
epididymis luminal protein 20
inositol-polyphosphate 1-phosphatase
testicular tissue protein Li 29
NP_001273078.1
NP_001273079.1
NP_001273080.1
NP_006076.4
XP_005273055.1
XP_005273056.1
XP_005273057.1
XP_005273061.1
XP_005273062.1
XP_006711177.1
XP_011507365.1
XP_011507367.1
XP_016855532.1
XP_016855534.1
XP_047285423.1
XP_047285529.1
XP_047285580.1
XP_047285622.1
XP_054189789.1
XP_054189790.1
XP_054189791.1
XP_054189792.1
XP_054189793.1
XP_054189794.1
XP_054189795.1
XP_054189796.1
XP_054189797.1
XP_054189798.1
XP_054189799.1
XP_054189800.1
XP_054189801.1
XP_054189802.1

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_001286149.2 → NP_001273078.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform 2

    See identical proteins and their annotated locations for NP_001273078.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and lacks a portion of the 5' coding region, compared to variant 1. These differences cause translation initiation at a downstream AUG and result in an isoform (2) with a shorter N-terminus, compared to isoform 1. Variants 2 and 4 encode the same isoform (2).
    Source sequence(s)
    AC103590, AK298476
    Consensus CDS
    CCDS65787.1
    UniProtKB/TrEMBL
    B7Z9J7
    Conserved Domains (1) summary
    cd01640
    Location:1 → 242
    IPPase; IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may ...

  2. NM_001286150.2 → NP_001273079.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform 3

    See identical proteins and their annotated locations for NP_001273079.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an in-frame exon in the 5' coding region compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
    Source sequence(s)
    AC103590, AK300777
    Consensus CDS
    CCDS65788.1
    UniProtKB/TrEMBL
    A6NF51
    Related
    ENSP00000410348.2, ENST00000414869.6
    Conserved Domains (1) summary
    cd01640
    Location:11 → 261
    IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may also ...

  3. NM_001286151.2 → NP_001273080.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform 2

    See identical proteins and their annotated locations for NP_001273080.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and lacks a portion of the 5' coding region, compared to variant 1. These differences cause translation initiation at a downstream AUG and result in an isoform (2) with a shorter N-terminus, compared to isoform 1. Variants 2 and 4 encode the same isoform (2).
    Source sequence(s)
    AC103590, AK315962
    Consensus CDS
    CCDS65787.1
    UniProtKB/TrEMBL
    B7Z9J7
    Related
    ENSP00000444398.1, ENST00000544404.5
    Conserved Domains (1) summary
    cd01640
    Location:1 → 242
    IPPase; IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may ...

  4. NM_006085.6 → NP_006076.4  3'(2'),5'-bisphosphate nucleotidase 1 isoform 1

    See identical proteins and their annotated locations for NP_006076.4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC103590, AK291943
    Consensus CDS
    CCDS41469.1
    UniProtKB/Swiss-Prot
    A8K7C8, B4DPS5, B4DUS9, D3DTA9, O95861, Q8WVL5, Q9UGJ3
    UniProtKB/TrEMBL
    A6NF51, V9HWF9
    Related
    ENSP00000318852.7, ENST00000322067.12
    Conserved Domains (1) summary
    cd01640
    Location:11 → 297
    IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may also ...

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    220057482..220089788 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011509063.3 → XP_011507365.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X5

    UniProtKB/TrEMBL
    B7Z9J7
    Conserved Domains (1) summary
    cd01640
    Location:1 → 257
    IPPase; IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may ...

  2. XM_047429573.1 → XP_047285529.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X8

  3. XM_006711114.4 → XP_006711177.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X3

    See identical proteins and their annotated locations for XP_006711177.1

    UniProtKB/TrEMBL
    A6NF51
    Conserved Domains (1) summary
    cd01640
    Location:11 → 276
    IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may also ...

  4. XM_005273004.4 → XP_005273061.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X6

    See identical proteins and their annotated locations for XP_005273061.1

    Conserved Domains (1) summary
    cd01640
    Location:11 → 231
    IPPase; IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may ...

  5. XM_005272998.4 → XP_005273055.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X1

    See identical proteins and their annotated locations for XP_005273055.1

    UniProtKB/TrEMBL
    A6NF51
    Related
    ENSP00000346862.3, ENST00000354807.7
    Conserved Domains (1) summary
    cd01640
    Location:11 → 312
    IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may also ...

  6. XM_017000043.2 → XP_016855532.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X4

    UniProtKB/TrEMBL
    A6NF51
    Conserved Domains (1) summary
    cd01640
    Location:11 → 261
    IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may also ...

  7. XM_047429467.1 → XP_047285423.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X3

  8. XM_005273005.5 → XP_005273062.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X6

    See identical proteins and their annotated locations for XP_005273062.1

    Conserved Domains (1) summary
    cd01640
    Location:11 → 231
    IPPase; IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may ...

  9. XM_005273000.6 → XP_005273057.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X2

    See identical proteins and their annotated locations for XP_005273057.1

    UniProtKB/Swiss-Prot
    A8K7C8, B4DPS5, B4DUS9, D3DTA9, O95861, Q8WVL5, Q9UGJ3
    UniProtKB/TrEMBL
    A6NF51, V9HWF9
    Conserved Domains (1) summary
    cd01640
    Location:11 → 297
    IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may also ...

  10. XM_005272999.6 → XP_005273056.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X1

    See identical proteins and their annotated locations for XP_005273056.1

    UniProtKB/TrEMBL
    A6NF51
    Conserved Domains (1) summary
    cd01640
    Location:11 → 312
    IPPase; Inositol polyphosphate-1-phosphatase, a member of the Mg++ dependent family of inositol monophosphatase-like domains, hydrolyzes the 1' position phosphate from inositol 1,3,4-trisphosphate and inositol 1,4-bisphosphate. Members in this group may also ...

  11. XM_047429666.1 → XP_047285622.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X10

  12. XM_017000045.3 → XP_016855534.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X9

  13. XM_011509065.4 → XP_011507367.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X7

    Conserved Domains (1) summary
    cl00289
    Location:11 → 157
    FIG; FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in ...

  14. XM_047429624.1 → XP_047285580.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X9

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    219296762..219329190 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054333818.1 → XP_054189793.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X3

  2. XM_054333822.1 → XP_054189797.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X6

  3. XM_054333815.1 → XP_054189790.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X1

  4. XM_054333819.1 → XP_054189794.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X4

  5. XM_054333816.1 → XP_054189791.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X2

    UniProtKB/Swiss-Prot
    A8K7C8, B4DPS5, B4DUS9, D3DTA9, O95861, Q8WVL5, Q9UGJ3
    UniProtKB/TrEMBL
    V9HWF9

  6. XM_054333820.1 → XP_054189795.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X5

  7. XM_054333824.1 → XP_054189799.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X8

  8. XM_054333817.1 → XP_054189792.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X3

  9. XM_054333821.1 → XP_054189796.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X6

  10. XM_054333814.1 → XP_054189789.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X1

  11. XM_054333826.1 → XP_054189801.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X9

  12. XM_054333827.1 → XP_054189802.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X10

  13. XM_054333825.1 → XP_054189800.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X9

  14. XM_054333823.1 → XP_054189798.1  3'(2'),5'-bisphosphate nucleotidase 1 isoform X7

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O95861.1 GenPept UniProtKB/Swiss-Prot:O95861

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