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Field

Term
Gene name

Class

Subclass

Chromosome

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In atlas

Reliability

Reliability

Reliability

Validation

Method

Validation

Method

Validation

Method

Validation

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Searches

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Cell line

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Cancer

Specificity

Tissue

Detectable

Cell line

Detectable

Cancer

Detectable

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Score

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Antibodies

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PHGDH
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    TISSUE

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    CELL

  • PATHOLOGY

TISSUE ATLAS PRIMARY DATA

GENE/PROTEIN

Antibody validation


Dictionary


Tissue proteome

GENERAL INFORMATION

Gene name

PHGDH

Gene description

Phosphoglycerate dehydrogenase

Protein class

Disease related genes
Enzymes
Plasma proteins
Potential drug targets
Predicted intracellular proteins

Predicted localization

Intracellular

Number of transcripts

2
SHOW MORE

HUMAN PROTEIN ATLAS INFORMATION

RNA tissue category

HPA:Tissue enhanced (parathyroid gland)
GTEx:Mixed
FANTOM5:Expressed in all

Protein evidence

Evidence at protein level

Protein expression

General cytoplasmic expression with nuclear expression in several tissues.

DATA RELIABILITY

Data reliability
description

Antibody staining mainly consistent with RNA expression data. Pending external verification.

Reliability score

Supported based on 4 antibodies.
HPA021241 , HPA024031 , CAB003681 , CAB068216
SHOW MORE

RNA AND PROTEIN EXPRESSION SUMMARY

RNA expression (TPM) Protein expression (score)
Brain
Cerebral cortex
Hippocampus
N/A
Caudate
N/A
Cerebellum
N/A
Endocrine tissues
Thyroid gland
Parathyroid gland
Adrenal gland
Bone marrow & immune system
Appendix
Bone marrow
Lymph node
Tonsil
Spleen
Muscle tissues
Heart muscle
Skeletal muscle
Smooth muscle
Lung
Nasopharynx
N/A
Bronchus
N/A
Lung
Liver & gallbladder
Liver
Gallbladder
Pancreas
Pancreas
Gastrointestinal tract
Oral mucosa
N/A
Salivary gland
Esophagus
Stomach
Duodenum
Small intestine
Colon
Rectum
Kidney & urinary bladder
Kidney
Urinary bladder
Male tissues
Testis
Epididymis
Prostate
Seminal vesicle
Female tissues
Breast
Vagina
N/A
Cervix, uterine
Endometrium
Fallopian tube
Ovary
Placenta
Adipose & soft tissue
Adipose tissue
Soft tissue
N/A
Skin
Skin
Cerebral cortex

Lymph node

Liver

Salivary gland

Colon

Kidney

Testis

PROTEIN EXPRESSION OVERVIEW

Organ
Expression
Alphabetical

RNA EXPRESSION OVERVIEW

HPA dataset
Organ
Expression
Alphabetical
RNA tissue category: Tissue enhanced (parathyroid gland)
GTEx dataset
Organ
Expression
Alphabetical
RNA tissue category: Mixed
FANTOM5 dataset
Organ
Expression
Alphabetical
RNA tissue category: Expressed in all

GENE INFORMATION

Gene name

PHGDH (HGNC Symbol)

Synonyms

PDG, PGDH, SERA

Description

Phosphoglycerate dehydrogenase (HGNC Symbol)

Entrez gene summary

This gene encodes the enzyme which is involved in the early steps of L-serine synthesis in animal cells. L-serine is required for D-serine and other amino acid synthesis. The enzyme requires NAD/NADH as a cofactor and forms homotetramers for activity. Mutations in this gene have been found in a family with congenital microcephaly, psychomotor retardation and other symptoms. Multiple alternatively spliced transcript variants have been found, however the full-length nature of most are not known. [provided by RefSeq, Aug 2011]

Chromosome

1

Cytoband

p12

Chromosome location (bp)

119659798 - 119744215

Protein evidence

Evidence at protein level (all genes)

Ensembl

ENSG00000092621 (version 83.38)

Entrez gene

26227

UniProt

O43175 (UniProt - Evidence at protein level)

neXtProt

NX_O43175

Antibodypedia

PHGDH antibodies

PROTEIN BROWSER

PHGDH-001
PHGDH-002

PROTEIN INFORMATION

Splice variant

UniProt

Protein class

Gene ontology

Length & mass

Signal peptide
(predicted)

Transmembrane regions
(predicted)

PHGDH-001
ENSP00000358417
ENST00000369409
O43175 [Direct mapping]
D-3-phosphoglycerate dehydrogenase
Show all
Enzymes
   ENZYME proteins
   Oxidoreductases
   SPOCTOPUS predicted membrane proteins
Predicted intracellular proteins
Plasma proteins
Disease related genes
Potential drug targets
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0004617 [phosphoglycerate dehydrogenase activity]
GO:0005829 [cytosol]
GO:0006541 [glutamine metabolic process]
GO:0006544 [glycine metabolic process]
GO:0006563 [L-serine metabolic process]
GO:0006564 [L-serine biosynthetic process]
GO:0006566 [threonine metabolic process]
GO:0007420 [brain development]
GO:0008152 [metabolic process]
GO:0008652 [cellular amino acid biosynthetic process]
GO:0009055 [electron carrier activity]
GO:0009070 [serine family amino acid biosynthetic process]
GO:0009448 [gamma-aminobutyric acid metabolic process]
GO:0010468 [regulation of gene expression]
GO:0016616 [oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor]
GO:0019530 [taurine metabolic process]
GO:0021510 [spinal cord development]
GO:0021782 [glial cell development]
GO:0021915 [neural tube development]
GO:0022008 [neurogenesis]
GO:0031175 [neuron projection development]
GO:0034641 [cellular nitrogen compound metabolic process]
GO:0043209 [myelin sheath]
GO:0044281 [small molecule metabolic process]
GO:0051287 [NAD binding]
GO:0055114 [oxidation-reduction process]
GO:0070062 [extracellular exosome]
GO:0070314 [G1 to G0 transition]
Show all
533 aa
56.6 kDa
No 0
PHGDH-002
ENSP00000358415
ENST00000369407
Q5SZU1 [Direct mapping]
D-3-phosphoglycerate dehydrogenase
Show all
   SPOCTOPUS predicted membrane proteins
   SignalP predicted secreted proteins
Predicted intracellular proteins
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0004617 [phosphoglycerate dehydrogenase activity]
GO:0006564 [L-serine biosynthetic process]
GO:0008152 [metabolic process]
GO:0016616 [oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor]
GO:0051287 [NAD binding]
GO:0055114 [oxidation-reduction process]
Show all
499 aa
53.1 kDa
No 0

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