Seroatlas · Human Serome Atlas

PDXP

Chronophin

Also known as: CIN, dJ37E16.5, FLJ32703, PLPP_HUMAN

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession: Q96GD0
Gene: PDXP
Ensembl: ENSG00000241360
Chromosome: 22
Canonical length: 296 aa
Protein class: Enzymes, Metabolic proteins, Predicted intracellular proteins
Quaternary structure: Homodimer

OverviewNCBI Gene

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., 2003 [PubMed 14522954]).[supplied by OMIM, Mar 2008]

Canonical amino-acid sequenceUniProt

296 residues, UniProt reviewed canonical sequence.

>Q96GD0|PDXP
     1  MARCERLRGA ALRDVLGRAQ GVLFDCDGVL WNGERAVPGA PELLERLARA GKAALFVSNN
    61  SRRARPELAL RFARLGFGGL RAEQLFSSAL CAARLLRQRL PGPPDAPGAV FVLGGEGLRA
   121  ELRAAGLRLA GDPSAGDGAA PRVRAVLVGY DEHFSFAKLR EACAHLRDPE CLLVATDRDP
   181  WHPLSDGSRT PGTGSLAAAV ETASGRQALV VGKPSPYMFE CITENFSIDP ARTLMVGDRL
   241  ETDILFGHRC GMTTVLTLTG VSRLEEAQAY LAAGQHDLVP HYYVESIADL TEGLED

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PDXP can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability: Cell surface
Secreted: No
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.26
Highest tissue expression: 258 nTPM

Expression across tissuesHPA

Tissue

cerebral cortex: 258 nTPM
amygdala: 205 nTPM
hippocampal formation: 186 nTPM
basal ganglia: 141 nTPM
hypothalamus: 126 nTPM
cerebellum: 114 nTPM

Single-cell type

other brain neurons: 51 nCPM
brain inhibitory neurons: 37 nCPM
brain excitatory neurons: 35 nCPM
ependymal cells: 10 nCPM
oligodendrocyte progenitor cells: 9.3 nCPM
oligodendrocytes: 8.4 nCPM

Immune cell

plasmacytoid DC: 12 nTPM
memory B-cell: 1.3 nTPM
naive B-cell: 1.2 nTPM
gdT-cell: 0.9 nTPM
NK-cell: 0.9 nTPM
myeloid DC: 0.6 nTPM

Brain region

cerebral cortex: 216 nTPM
hippocampal formation: 174 nTPM
basal ganglia: 168 nTPM
white matter: 162 nTPM
amygdala: 154 nTPM
thalamus: 146 nTPM

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance): 1.32
gnomAD pLI: 0.26
gnomAD missense Z: 0.9
DepMap mean gene effect: -0.09
DepMap dependency class: selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 6% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

actin rod assembly
cellular response to ATP
dephosphorylation
positive regulation of actin filament depolymerization
protein dephosphorylation
regulation of cytokinesis
regulation of mitotic nuclear division
regulation of modification of postsynaptic structure
pyridoxal phosphate catabolic process

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads PDXP as an antibody target. Whether an autoantibody or antibody against PDXP could matter depends on whether native PDXP is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PDXP is annotated at the cell surface, where native PDXP is exposed to circulating antibodies and is a prime autoantibody target that could block, deplete, or overstimulate it.

Annotation status

The present source text does not explicitly label PDXP as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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