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

Summary

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

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_000001.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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?

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.
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)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D8S2279 (e-PCR)
- UniSTS:473907

SHGC-76373 (e-PCR)
- UniSTS:36803

GDB:631802 (e-PCR)
- UniSTS:158429

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 more info	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

EC 3.1.3.57

EC 3.1.3.7

NP_001273079.1

EC 3.1.3.57

EC 3.1.3.7

NP_001273080.1

EC 3.1.3.57

EC 3.1.3.7

NP_006076.4

EC 3.1.3.57

EC 3.1.3.7

XP_005273055.1

EC 3.1.3.57

EC 3.1.3.7

XP_005273056.1

EC 3.1.3.57

EC 3.1.3.7

XP_005273057.1

EC 3.1.3.57

EC 3.1.3.7

XP_005273061.1

EC 3.1.3.57

EC 3.1.3.7

XP_005273062.1

EC 3.1.3.57

EC 3.1.3.7

XP_006711177.1

EC 3.1.3.57

EC 3.1.3.7

XP_011507365.1

EC 3.1.3.57

EC 3.1.3.7

XP_011507367.1

EC 3.1.3.57

EC 3.1.3.7

XP_016855532.1

EC 3.1.3.57

EC 3.1.3.7

XP_016855534.1

EC 3.1.3.57

EC 3.1.3.7

XP_047285423.1

EC 3.1.3.57

EC 3.1.3.7

XP_047285529.1

EC 3.1.3.57

EC 3.1.3.7

XP_047285580.1

EC 3.1.3.57

EC 3.1.3.7

XP_047285622.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189789.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189790.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189791.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189792.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189793.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189794.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189795.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189796.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189797.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189798.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189799.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189800.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189801.1

EC 3.1.3.57

EC 3.1.3.7

XP_054189802.1

EC 3.1.3.57

EC 3.1.3.7

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)

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 ...
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 ...
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 ...
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

NC_000001.11 Reference GRCh38.p14 Primary Assembly

Range

220057482..220089788 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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 ...
XM_047429573.1 → XP_047285529.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X8
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 ...
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 ...
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 ...
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 ...
XM_047429467.1 → XP_047285423.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X3
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 ...
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 ...
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 ...
XM_047429666.1 → XP_047285622.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X10
XM_017000045.3 → XP_016855534.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X9
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 ...
XM_047429624.1 → XP_047285580.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X9

Alternate T2T-CHM13v2.0

Genomic

NC_060925.1 Alternate T2T-CHM13v2.0

Range

219296762..219329190 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054333818.1 → XP_054189793.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X3
XM_054333822.1 → XP_054189797.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X6
XM_054333815.1 → XP_054189790.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X1
XM_054333819.1 → XP_054189794.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X4
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
XM_054333820.1 → XP_054189795.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X5
XM_054333824.1 → XP_054189799.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X8
XM_054333817.1 → XP_054189792.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X3
XM_054333821.1 → XP_054189796.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X6
XM_054333814.1 → XP_054189789.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X1
XM_054333826.1 → XP_054189801.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X9
XM_054333827.1 → XP_054189802.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X10
XM_054333825.1 → XP_054189800.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X9
XM_054333823.1 → XP_054189798.1 3'(2'),5'-bisphosphate nucleotidase 1 isoform X7