Seroatlas · Human Serome Atlas

PDXDC1

Pyridoxal-dependent decarboxylase domain-containing protein 1

Also known as: KIAA0251, PDXD1_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q6P996
Gene: PDXDC1
Ensembl: ENSG00000179889
Chromosome: 16
Canonical length: 788 aa
Protein class: Predicted intracellular proteins
Subcellular location: Golgi apparatus,Vesicles

OverviewNCBI Gene

Enables cadherin binding activity. Predicted to be involved in carboxylic acid metabolic process. Located in Golgi apparatus. [provided by Alliance of Genome Resources, Jul 2025]

Canonical amino-acid sequenceUniProt

788 residues, UniProt reviewed canonical sequence.

>Q6P996|PDXDC1
     1  MDASLEKIAD PTLAEMGKNL KEAVKMLEDS QRRTEEENGK KLISGDIPGP LQGSGQDMVS
    61  ILQLVQNLMH GDEDEEPQSP RIQNIGEQGH MALLGHSLGA YISTLDKEKL RKLTTRILSD
   121  TTLWLCRIFR YENGCAYFHE EEREGLAKIC RLAIHSRYED FVVDGFNVLY NKKPVIYLSA
   181  AARPGLGQYL CNQLGLPFPC LCRVPCNTVF GSQHQMDVAF LEKLIKDDIE RGRLPLLLVA
   241  NAGTAAVGHT DKIGRLKELC EQYGIWLHVE GVNLATLALG YVSSSVLAAA KCDSMTMTPG
   301  PWLGLPAVPA VTLYKHDDPA LTLVAGLTSN KPTDKLRALP LWLSLQYLGL DGFVERIKHA
   361  CQLSQRLQES LKKVNYIKIL VEDELSSPVV VFRFFQELPG SDPVFKAVPV PNMTPSGVGR
   421  ERHSCDALNR WLGEQLKQLV PASGLTVMDL EAEGTCLRFS PLMTAAVLGT RGEDVDQLVA
   481  CIESKLPVLC CTLQLREEFK QEVEATAGLL YVDDPNWSGI GVVRYEHAND DKSSLKSDPE
   541  GENIHAGLLK KLNELESDLT FKIGPEYKSM KSCLYVGMAS DNVDAAELVE TIAATAREIE
   601  ENSRLLENMT EVVRKGIQEA QVELQKASEE RLLEEGVLRQ IPVVGSVLNW FSPVQALQKG
   661  RTFNLTAGSL ESTEPIYVYK AQGAGVTLPP TPSGSRTKQR LPGQKPFKRS LRGSDALSET
   721  SSVSHIEDLE KVERLSSGPE QITLEASSTE GHPGAPSPQH TDQTEAFQKG VPHPEDDHSQ
   781  VEGPESLR

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PDXDC1 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: Intracellular
Secreted: No
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.36
Highest tissue expression: 105 nTPM

Expression across tissuesHPA

Tissue

testis: 105 nTPM
liver: 99 nTPM
salivary gland: 76 nTPM
pancreas: 67 nTPM
pituitary gland: 60 nTPM
small intestine: 57 nTPM

Single-cell type

late spermatids: 361 nCPM
early spermatids: 210 nCPM
podocytes: 195 nCPM
papillary tip epithelial cells: 185 nCPM
loop of henle epithelial cells: 168 nCPM
renal collecting duct intercalated cells: 164 nCPM

Immune cell

eosinophil: 13 nTPM
myeloid DC: 12 nTPM
MAIT T-cell: 11 nTPM
gdT-cell: 10 nTPM
naive B-cell: 10 nTPM
memory B-cell: 9.9 nTPM

Brain region

cerebellum: 62 nTPM
choroid plexus: 48 nTPM
pons: 46 nTPM
hypothalamus: 45 nTPM
midbrain: 43 nTPM
hippocampal formation: 42 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about PDXDC1.

Disease | ImmuneIEDB

Conditions an epitope on PDXDC1 was assayed in.

human immunodeficiency virus infectious disease T cell

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): 0.85
gnomAD pLI: 0
gnomAD missense Z: 0.47
DepMap mean gene effect: -0.18
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

carboxylic acid metabolic process

Molecular functions

Cellular components

Golgi apparatus

Protein domainsUniProt · Pfam · InterPro

Pyridoxal phosphate-dependent decarboxylase, major domain
Pyridoxal phosphate-dependent transferase, major domain
Pyridoxal phosphate-dependent transferase
Group II Amino Acid Decarboxylases
PDXDC1/PDXD2, second domain
Pyridoxal-dependent decarboxylase conserved domain
PDXDC1-like central domain
PDXDC1-like, third domain
PDXDC1-like second central domain

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of PDXDC1 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

MFSD4A

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads PDXDC1 as an antibody target. Whether an autoantibody or antibody against PDXDC1 could matter depends on whether native PDXDC1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PDXDC1 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label PDXDC1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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