PDXP (pyridoxal phosphatase)

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Gene miRNA Gene ontology Other IDs Protein Pathways Related genes Diseases linked via similar genes

Gene

• Entrez ID: 57026
• Gene name: Pyridoxal phosphatase
• Gene symbol: PDXP
• Synonyms (NCBI Gene): CIN, PLP, dJ37E16.5
• Chromosome: 22
• Chromosome location: 22q13.1
• Summary: Pyridoxal 5-prime-phosphate (PLP) is the active form of vitamin B6 that acts as a coenzyme in maintaining biochemical homeostasis. The preferred degradation route from PLP to 4-pyridoxic acid involves the dephosphorylation of PLP by PDXP (Jang et al., 200

miRNA Show/Hide all (251)

miRTarBase ID	miRNA	Experiments	Reference
MIRT050278	hsa-miR-25-3p	CLASH	23622248
MIRT043505	hsa-miR-331-3p	CLASH	23622248
MIRT043152	hsa-miR-324-5p	CLASH	23622248
MIRT564527	hsa-miR-5692a	PAR-CLIP	20371350
MIRT564526	hsa-miR-3121-3p	PAR-CLIP	20371350
MIRT301380	hsa-miR-95-5p	PAR-CLIP	20371350
MIRT564525	hsa-miR-4480	PAR-CLIP	20371350
MIRT301381	hsa-miR-4662a-5p	PAR-CLIP	20371350
MIRT564527	hsa-miR-5692a	PAR-CLIP	20371350
MIRT564526	hsa-miR-3121-3p	PAR-CLIP	20371350
MIRT301380	hsa-miR-95-5p	PAR-CLIP	20371350
MIRT564525	hsa-miR-4480	PAR-CLIP	20371350
MIRT301381	hsa-miR-4662a-5p	PAR-CLIP	20371350
MIRT1223898	hsa-miR-1266	CLIP-seq
MIRT1223899	hsa-miR-1908	CLIP-seq
MIRT1223900	hsa-miR-1912	CLIP-seq
MIRT1223901	hsa-miR-298	CLIP-seq
MIRT1223902	hsa-miR-3151	CLIP-seq
MIRT1223903	hsa-miR-3187-3p	CLIP-seq
MIRT1223904	hsa-miR-3192	CLIP-seq
MIRT1223905	hsa-miR-3619-3p	CLIP-seq
MIRT1223906	hsa-miR-3654	CLIP-seq
MIRT1223907	hsa-miR-3689a-3p	CLIP-seq
MIRT1223908	hsa-miR-3689c	CLIP-seq
MIRT1223909	hsa-miR-3689d	CLIP-seq
MIRT1223910	hsa-miR-3690	CLIP-seq
MIRT1223911	hsa-miR-3943	CLIP-seq
MIRT1223912	hsa-miR-4252	CLIP-seq
MIRT1223913	hsa-miR-4270	CLIP-seq
MIRT1223914	hsa-miR-4271	CLIP-seq
MIRT1223915	hsa-miR-4281	CLIP-seq
MIRT1223916	hsa-miR-4283	CLIP-seq
MIRT1223917	hsa-miR-4323	CLIP-seq
MIRT1223918	hsa-miR-4435	CLIP-seq
MIRT1223919	hsa-miR-4441	CLIP-seq
MIRT1223920	hsa-miR-4457	CLIP-seq
MIRT1223921	hsa-miR-4489	CLIP-seq
MIRT1223922	hsa-miR-4493	CLIP-seq
MIRT1223923	hsa-miR-4518	CLIP-seq
MIRT1223924	hsa-miR-4651	CLIP-seq
MIRT1223925	hsa-miR-4684-3p	CLIP-seq
MIRT1223926	hsa-miR-4701-5p	CLIP-seq
MIRT1223927	hsa-miR-4706	CLIP-seq
MIRT1223928	hsa-miR-4708-3p	CLIP-seq
MIRT1223929	hsa-miR-4725-3p	CLIP-seq
MIRT1223930	hsa-miR-4728-5p	CLIP-seq
MIRT1223931	hsa-miR-4731-5p	CLIP-seq
MIRT1223932	hsa-miR-4747-5p	CLIP-seq
MIRT1223933	hsa-miR-4749-5p	CLIP-seq
MIRT1223934	hsa-miR-4776-5p	CLIP-seq
MIRT1223935	hsa-miR-4783-3p	CLIP-seq
MIRT1223936	hsa-miR-4786-5p	CLIP-seq
MIRT1223937	hsa-miR-490-3p	CLIP-seq
MIRT1223938	hsa-miR-510	CLIP-seq
MIRT1223939	hsa-miR-512-5p	CLIP-seq
MIRT1223940	hsa-miR-513b	CLIP-seq
MIRT1223941	hsa-miR-548s	CLIP-seq
MIRT1223942	hsa-miR-588	CLIP-seq
MIRT1223943	hsa-miR-608	CLIP-seq
MIRT1223944	hsa-miR-619	CLIP-seq
MIRT1223945	hsa-miR-663	CLIP-seq
MIRT1223946	hsa-miR-711	CLIP-seq
MIRT1223947	hsa-miR-769-5p	CLIP-seq
MIRT1223899	hsa-miR-1908	CLIP-seq
MIRT1223909	hsa-miR-3689d	CLIP-seq
MIRT1223914	hsa-miR-4271	CLIP-seq
MIRT1223922	hsa-miR-4493	CLIP-seq
MIRT1223924	hsa-miR-4651	CLIP-seq
MIRT1223927	hsa-miR-4706	CLIP-seq
MIRT1223929	hsa-miR-4725-3p	CLIP-seq
MIRT1223932	hsa-miR-4747-5p	CLIP-seq
MIRT1223933	hsa-miR-4749-5p	CLIP-seq
MIRT1223943	hsa-miR-608	CLIP-seq
MIRT1223945	hsa-miR-663	CLIP-seq
MIRT2065263	hsa-miR-1197	CLIP-seq
MIRT2065264	hsa-miR-133a	CLIP-seq
MIRT2065265	hsa-miR-133b	CLIP-seq
MIRT1223899	hsa-miR-1908	CLIP-seq
MIRT2065266	hsa-miR-1915	CLIP-seq
MIRT2065267	hsa-miR-296-3p	CLIP-seq
MIRT2065268	hsa-miR-3649	CLIP-seq
MIRT1223909	hsa-miR-3689d	CLIP-seq
MIRT1223911	hsa-miR-3943	CLIP-seq
MIRT1223912	hsa-miR-4252	CLIP-seq
MIRT1223914	hsa-miR-4271	CLIP-seq
MIRT2065269	hsa-miR-4436a	CLIP-seq
MIRT1223922	hsa-miR-4493	CLIP-seq
MIRT1223924	hsa-miR-4651	CLIP-seq
MIRT1223927	hsa-miR-4706	CLIP-seq
MIRT1223929	hsa-miR-4725-3p	CLIP-seq
MIRT2065270	hsa-miR-4737	CLIP-seq
MIRT1223932	hsa-miR-4747-5p	CLIP-seq
MIRT1223933	hsa-miR-4749-5p	CLIP-seq
MIRT2065271	hsa-miR-509-3p	CLIP-seq
MIRT1223943	hsa-miR-608	CLIP-seq
MIRT1223945	hsa-miR-663	CLIP-seq
MIRT2293079	hsa-miR-1185	CLIP-seq
MIRT2065263	hsa-miR-1197	CLIP-seq
MIRT2293080	hsa-miR-1263	CLIP-seq
MIRT2065264	hsa-miR-133a	CLIP-seq
MIRT2065265	hsa-miR-133b	CLIP-seq
MIRT1223899	hsa-miR-1908	CLIP-seq
MIRT2065266	hsa-miR-1915	CLIP-seq
MIRT2293081	hsa-miR-3117-3p	CLIP-seq
MIRT2293082	hsa-miR-3144-5p	CLIP-seq
MIRT2293083	hsa-miR-3605-5p	CLIP-seq
MIRT2065268	hsa-miR-3649	CLIP-seq
MIRT2293084	hsa-miR-3679-5p	CLIP-seq
MIRT1223909	hsa-miR-3689d	CLIP-seq
MIRT2293085	hsa-miR-371b-3p	CLIP-seq
MIRT2293086	hsa-miR-3944-3p	CLIP-seq
MIRT1223914	hsa-miR-4271	CLIP-seq
MIRT2293087	hsa-miR-4314	CLIP-seq
MIRT2293088	hsa-miR-4428	CLIP-seq
MIRT1223922	hsa-miR-4493	CLIP-seq
MIRT1223924	hsa-miR-4651	CLIP-seq
MIRT2293089	hsa-miR-4667-5p	CLIP-seq
MIRT2293090	hsa-miR-4700-3p	CLIP-seq
MIRT2293091	hsa-miR-4700-5p	CLIP-seq
MIRT1223927	hsa-miR-4706	CLIP-seq
MIRT2293092	hsa-miR-4711-3p	CLIP-seq
MIRT1223929	hsa-miR-4725-3p	CLIP-seq
MIRT2065270	hsa-miR-4737	CLIP-seq
MIRT1223932	hsa-miR-4747-5p	CLIP-seq
MIRT1223933	hsa-miR-4749-5p	CLIP-seq
MIRT2293093	hsa-miR-486-3p	CLIP-seq
MIRT2293094	hsa-miR-488	CLIP-seq
MIRT2065271	hsa-miR-509-3p	CLIP-seq
MIRT2293095	hsa-miR-511	CLIP-seq
MIRT2293096	hsa-miR-545	CLIP-seq
MIRT1223943	hsa-miR-608	CLIP-seq
MIRT2293097	hsa-miR-637	CLIP-seq
MIRT2293098	hsa-miR-651	CLIP-seq
MIRT1223945	hsa-miR-663	CLIP-seq
MIRT2293099	hsa-miR-665	CLIP-seq
MIRT1223946	hsa-miR-711	CLIP-seq
MIRT1223899	hsa-miR-1908	CLIP-seq
MIRT1223909	hsa-miR-3689d	CLIP-seq
MIRT1223914	hsa-miR-4271	CLIP-seq
MIRT1223922	hsa-miR-4493	CLIP-seq
MIRT1223924	hsa-miR-4651	CLIP-seq
MIRT1223927	hsa-miR-4706	CLIP-seq
MIRT1223929	hsa-miR-4725-3p	CLIP-seq
MIRT1223932	hsa-miR-4747-5p	CLIP-seq
MIRT1223933	hsa-miR-4749-5p	CLIP-seq
MIRT1223943	hsa-miR-608	CLIP-seq
MIRT1223945	hsa-miR-663	CLIP-seq
MIRT1223898	hsa-miR-1266	CLIP-seq
MIRT2591156	hsa-miR-1269	CLIP-seq
MIRT2591157	hsa-miR-1269b	CLIP-seq
MIRT2591158	hsa-miR-1273g	CLIP-seq
MIRT2591159	hsa-miR-1288	CLIP-seq
MIRT2591160	hsa-miR-1299	CLIP-seq
MIRT2065264	hsa-miR-133a	CLIP-seq
MIRT2065265	hsa-miR-133b	CLIP-seq
MIRT2591161	hsa-miR-141	CLIP-seq
MIRT2591162	hsa-miR-185	CLIP-seq
MIRT1223900	hsa-miR-1912	CLIP-seq
MIRT2591163	hsa-miR-200a	CLIP-seq
MIRT2065267	hsa-miR-296-3p	CLIP-seq
MIRT2591164	hsa-miR-3155	CLIP-seq
MIRT2591165	hsa-miR-3155b	CLIP-seq
MIRT2591166	hsa-miR-34c-3p	CLIP-seq
MIRT2591167	hsa-miR-3614-3p	CLIP-seq
MIRT2591168	hsa-miR-3664-3p	CLIP-seq
MIRT2591169	hsa-miR-3684	CLIP-seq
MIRT1223910	hsa-miR-3690	CLIP-seq
MIRT2591170	hsa-miR-378	CLIP-seq
MIRT2591171	hsa-miR-378b	CLIP-seq
MIRT2591172	hsa-miR-378c	CLIP-seq
MIRT2591173	hsa-miR-378d	CLIP-seq
MIRT2591174	hsa-miR-378e	CLIP-seq
MIRT2591175	hsa-miR-378f	CLIP-seq
MIRT2591176	hsa-miR-378h	CLIP-seq
MIRT2591177	hsa-miR-378i	CLIP-seq
MIRT2591178	hsa-miR-422a	CLIP-seq
MIRT1223912	hsa-miR-4252	CLIP-seq
MIRT1223915	hsa-miR-4281	CLIP-seq
MIRT2591179	hsa-miR-4306	CLIP-seq
MIRT2065269	hsa-miR-4436a	CLIP-seq
MIRT2591180	hsa-miR-4515	CLIP-seq
MIRT1223923	hsa-miR-4518	CLIP-seq
MIRT2591181	hsa-miR-4638-3p	CLIP-seq
MIRT2591182	hsa-miR-4644	CLIP-seq
MIRT2591183	hsa-miR-4716-3p	CLIP-seq
MIRT2591184	hsa-miR-4724-5p	CLIP-seq
MIRT2591185	hsa-miR-4740-5p	CLIP-seq
MIRT2591186	hsa-miR-4782-5p	CLIP-seq
MIRT1223936	hsa-miR-4786-5p	CLIP-seq
MIRT2591187	hsa-miR-484	CLIP-seq
MIRT1223937	hsa-miR-490-3p	CLIP-seq
MIRT2065271	hsa-miR-509-3p	CLIP-seq
MIRT2591188	hsa-miR-516b	CLIP-seq
MIRT2591189	hsa-miR-563	CLIP-seq
MIRT2591190	hsa-miR-564	CLIP-seq
MIRT2591191	hsa-miR-570	CLIP-seq
MIRT2591192	hsa-miR-593	CLIP-seq
MIRT1223944	hsa-miR-619	CLIP-seq
MIRT1223946	hsa-miR-711	CLIP-seq
MIRT1223947	hsa-miR-769-5p	CLIP-seq
MIRT1223898	hsa-miR-1266	CLIP-seq
MIRT2591156	hsa-miR-1269	CLIP-seq
MIRT2591157	hsa-miR-1269b	CLIP-seq
MIRT2591158	hsa-miR-1273g	CLIP-seq
MIRT2591159	hsa-miR-1288	CLIP-seq
MIRT2591160	hsa-miR-1299	CLIP-seq
MIRT2065264	hsa-miR-133a	CLIP-seq
MIRT2065265	hsa-miR-133b	CLIP-seq
MIRT2591161	hsa-miR-141	CLIP-seq
MIRT2591162	hsa-miR-185	CLIP-seq
MIRT1223900	hsa-miR-1912	CLIP-seq
MIRT2591163	hsa-miR-200a	CLIP-seq
MIRT2065267	hsa-miR-296-3p	CLIP-seq
MIRT2591164	hsa-miR-3155	CLIP-seq
MIRT2591165	hsa-miR-3155b	CLIP-seq
MIRT2591166	hsa-miR-34c-3p	CLIP-seq
MIRT2591167	hsa-miR-3614-3p	CLIP-seq
MIRT2591168	hsa-miR-3664-3p	CLIP-seq
MIRT1223910	hsa-miR-3690	CLIP-seq
MIRT2591170	hsa-miR-378	CLIP-seq
MIRT2591171	hsa-miR-378b	CLIP-seq
MIRT2591172	hsa-miR-378c	CLIP-seq
MIRT2591173	hsa-miR-378d	CLIP-seq
MIRT2591174	hsa-miR-378e	CLIP-seq
MIRT2591175	hsa-miR-378f	CLIP-seq
MIRT2591176	hsa-miR-378h	CLIP-seq
MIRT2591177	hsa-miR-378i	CLIP-seq
MIRT2591178	hsa-miR-422a	CLIP-seq
MIRT1223912	hsa-miR-4252	CLIP-seq
MIRT1223915	hsa-miR-4281	CLIP-seq
MIRT2591179	hsa-miR-4306	CLIP-seq
MIRT2065269	hsa-miR-4436a	CLIP-seq
MIRT2591180	hsa-miR-4515	CLIP-seq
MIRT1223923	hsa-miR-4518	CLIP-seq
MIRT2591181	hsa-miR-4638-3p	CLIP-seq
MIRT2591182	hsa-miR-4644	CLIP-seq
MIRT2591183	hsa-miR-4716-3p	CLIP-seq
MIRT2591184	hsa-miR-4724-5p	CLIP-seq
MIRT2591185	hsa-miR-4740-5p	CLIP-seq
MIRT2591186	hsa-miR-4782-5p	CLIP-seq
MIRT1223936	hsa-miR-4786-5p	CLIP-seq
MIRT2591187	hsa-miR-484	CLIP-seq
MIRT1223937	hsa-miR-490-3p	CLIP-seq
MIRT2065271	hsa-miR-509-3p	CLIP-seq
MIRT2591188	hsa-miR-516b	CLIP-seq
MIRT2591190	hsa-miR-564	CLIP-seq
MIRT2591191	hsa-miR-570	CLIP-seq
MIRT2591192	hsa-miR-593	CLIP-seq
MIRT1223944	hsa-miR-619	CLIP-seq
MIRT1223946	hsa-miR-711	CLIP-seq
MIRT1223947	hsa-miR-769-5p	CLIP-seq

Gene ontology (GO) Show/Hide all (45)

GO ID	Ontology	Definition	Evidence	Reference
GO:0000287	Function	Magnesium ion binding	IEA
GO:0000287	Function	Magnesium ion binding	ISS
GO:0004721	Function	Phosphoprotein phosphatase activity	IDA	15580268, 19000834
GO:0004722	Function	Protein serine/threonine phosphatase activity	IEA
GO:0005515	Function	Protein binding	IPI	17500066
GO:0005737	Component	Cytoplasm	IBA
GO:0005737	Component	Cytoplasm	IEA
GO:0005829	Component	Cytosol	IBA
GO:0005829	Component	Cytosol	IDA	15580268
GO:0005829	Component	Cytosol	IEA
GO:0005856	Component	Cytoskeleton	IEA
GO:0005886	Component	Plasma membrane	IDA	15580268
GO:0005886	Component	Plasma membrane	IEA
GO:0005911	Component	Cell-cell junction	IEA
GO:0006470	Process	Protein dephosphorylation	IDA	15580268
GO:0007088	Process	Regulation of mitotic nuclear division	IMP	15580268
GO:0015629	Component	Actin cytoskeleton	IDA	15580268
GO:0016020	Component	Membrane	IEA
GO:0016311	Process	Dephosphorylation	IDA	8132548, 14522954
GO:0016787	Function	Hydrolase activity	IEA
GO:0016791	Function	Phosphatase activity	IEA
GO:0030027	Component	Lamellipodium	IDA	15580268
GO:0030496	Component	Midbody	IDA	15580268
GO:0030836	Process	Positive regulation of actin filament depolymerization	IMP	15580268
GO:0031072	Function	Heat shock protein binding	IDA	19000834
GO:0031247	Process	Actin rod assembly	IDA	19000834
GO:0031247	Process	Actin rod assembly	IMP	19000834
GO:0031258	Component	Lamellipodium membrane	IEA
GO:0032154	Component	Cleavage furrow	IDA	15580268
GO:0032361	Process	Pyridoxal phosphate catabolic process	IDA	8132548, 14522954
GO:0032361	Process	Pyridoxal phosphate catabolic process	IEA
GO:0032465	Process	Regulation of cytokinesis	IMP	15580268
GO:0032587	Component	Ruffle membrane	IDA	15580268
GO:0032587	Component	Ruffle membrane	IEA
GO:0033883	Function	Pyridoxal phosphatase activity	IBA
GO:0033883	Function	Pyridoxal phosphatase activity	IDA	8132548, 14522954
GO:0033883	Function	Pyridoxal phosphatase activity	IEA
GO:0042803	Function	Protein homodimerization activity	IEA
GO:0042995	Component	Cell projection	IEA
GO:0046872	Function	Metal ion binding	IEA
GO:0070938	Component	Contractile ring	IDA	15580268
GO:0071318	Process	Cellular response to ATP	IDA	19000834
GO:0098794	Component	Postsynapse	IEA
GO:0098978	Component	Glutamatergic synapse	IEA
GO:0099159	Process	Regulation of modification of postsynaptic structure	IEA

Other IDs

• MIM: 609246
• HGNC: 30259
• e!Ensembl: ENSG00000241360

Protein

• UniProt ID: Q96GD0
• Protein name: Chronophin (EC 3.1.3.16) (EC 3.1.3.74) (Pyridoxal phosphate phosphatase) (PLP phosphatase)
• Protein function: Functions as a pyridoxal phosphate (PLP) phosphatase, which also catalyzes the dephosphorylation of pyridoxine 5'-phosphate (PNP) and pyridoxamine 5'-phosphate (PMP), with order of substrate preference PLP > PNP > PMP and therefore plays a role
• PDB: 2CFR , 2CFS , 2CFT , 2OYC , 2P27 , 2P69 , 5GYN , 8S8A , 9EM1
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF13242	Hydrolase_like	210 → 290		Domain
  PF13344	Hydrolase_6	22 → 128	Haloacid dehalogenase-like hydrolase	Domain

• Tissue specificity: TISSUE SPECIFICITY: Ubiquitously expressed (at protein level) (PubMed:23223568). Highly expressed in all the regions of central nerve system except the spinal cord. Also expressed at high level in liver and testis. In fetus, it is weakly expressed in all
• Sequence:

  MARCERLRGAALRDVLGRAQGVLFDCDGVLWNGERAVPGAPELLERLARAGKAALFVSNN
  SRRARPELALRFARLGFGGLRAEQLFSSALCAARLLRQRLPGPPDAPGAVFVLGGEGLRA
  ELRAAGLRLAGDPSAGDGAAPRVRAVLVGYDEHFSFAKLREACAHLRDPECLLVATDRDP
  WHPLSDGSRTPGTGSLAAAVETASGRQALVVGKPSPYMFECITENFSIDPARTLMVGDRL
  ETDILFGHRCGMTTVLTLTGVSRLEEAQAYLAAGQHDLVPHYYVESIADLTEGLED

• Sequence length: 296

Pathways

KEGG Pathway

Vitamin B6 metabolism

Metabolic pathways

Biosynthesis of cofactors

Related Genes

Sort by: Blended Diseases Pathways Evidence source

PHOSPHO2 2 shared pathwaysVitamin B6 metabolism, Biosynthesis of cofactors Related via 2 shared pathways including Vitamin B6 metabolism, Biosynthesis of cofactors. PNPO 2 shared pathwaysVitamin B6 metabolism, Biosynthesis of cofactors Related via 2 shared pathways including Vitamin B6 metabolism, Biosynthesis of cofactors. PDXK 2 shared pathwaysVitamin B6 metabolism, Biosynthesis of cofactors Related via 2 shared pathways including Vitamin B6 metabolism, Biosynthesis of cofactors. PSAT1 2 shared pathwaysVitamin B6 metabolism, Biosynthesis of cofactors Related via 2 shared pathways including Vitamin B6 metabolism, Biosynthesis of cofactors.

Related Gene	Shared Diseases	Shared Disease Names	Shared Pathways	Shared Pathway Names	Shared Evidence Sources	Shared Evidence Names
PHOSPHO2	0	[]	2	["Vitamin B6 metabolism","Biosynthesis of cofactors"]	0	[]
PNPO	0	[]	2	["Vitamin B6 metabolism","Biosynthesis of cofactors"]	0	[]
PDXK	0	[]	2	["Vitamin B6 metabolism","Biosynthesis of cofactors"]	0	[]
PSAT1	0	[]	2	["Vitamin B6 metabolism","Biosynthesis of cofactors"]	0	[]

Diseases Linked via Similar Genes

Schizophrenia Linked via 2 of 4 related genesPNPO, PSAT1 Status epilepticus Linked via 2 of 4 related genesPNPO, PDXK Distal hereditary motor neuropathy Linked via 1 of 4 related genesPNPO Pyridoxamine 5'-phosphate oxidase deficiency Linked via 1 of 4 related genesPNPO pyridoxal phosphate-responsive seizures Linked via 1 of 4 related genesPNPO

Disease	Linked Via (Gene Count)	Linked Via (Gene Names)
Schizophrenia	2	["PNPO","PSAT1"]
Status epilepticus	2	["PNPO","PDXK"]
Distal hereditary motor neuropathy	1	["PNPO"]
Pyridoxamine 5'-phosphate oxidase deficiency	1	["PNPO"]
pyridoxal phosphate-responsive seizures	1	["PNPO"]