ENSMUSG00000053398


Mus musculus

Features
Gene ID: ENSMUSG00000053398
  
Biological name :Phgdh
  
Synonyms : D-3-phosphoglycerate dehydrogenase / Phgdh / Q61753
  
Possible biological names infered from orthology : O43175 / phosphoglycerate dehydrogenase
  
Species: Mus musculus
  
Chr. number: 3
Strand: -1
Band: F2.2
Gene start: 98313170
Gene end: 98339990
  
Corresponding Affymetrix probe sets: 10500529 (MoGene1.0st)   10558439 (MoGene1.0st)   1426657_s_at (Mouse Genome 430 2.0 Array)   1426658_x_at (Mouse Genome 430 2.0 Array)   1437621_x_at (Mouse Genome 430 2.0 Array)   1454714_x_at (Mouse Genome 430 2.0 Array)   1456471_x_at (Mouse Genome 430 2.0 Array)   1456584_x_at (Mouse Genome 430 2.0 Array)   
  
Cross references: Ensembl peptide - ENSMUSP00000064755
Ensembl peptide - ENSMUSP00000117525
NCBI entrez gene - 236539     See in Manteia.
MGI - MGI:1355330
RefSeq - NM_016966
RefSeq Peptide - NP_058662
swissprot - F6ZSB7
swissprot - Q61753
Ensembl - ENSMUSG00000053398
  
See expression report in BioGPS
See gene description in Wikigenes
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 phgdhENSDARG00000001873Danio rerio
 PHGDHENSGALG00000002988Gallus gallus
 PHGDHENSG00000092621Homo sapiens


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
Ctbp2 / P56546 / C-terminal-binding protein 2 ENSMUSG0000003097022
Ctbp1 / O88712 / C-terminal-binding protein 1 / Q13363*ENSMUSG0000003737321


Protein motifs (from Interpro)
Interpro ID Name
 IPR006139  D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain
 IPR006140  D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding domain
 IPR006236  D-3-phosphoglycerate dehydrogenase
 IPR029009  Allosteric substrate binding domain superfamily
 IPR029752  D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding domain conserved site 1
 IPR029753  D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding domain conserved site
 IPR036291  NAD(P)-binding domain superfamily


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0006541 glutamine metabolic process IMP
 biological_processGO:0006544 glycine metabolic process IMP
 biological_processGO:0006563 L-serine metabolic process IMP
 biological_processGO:0006564 L-serine biosynthetic process IEA
 biological_processGO:0006566 threonine metabolic process IMP
 biological_processGO:0008152 metabolic process IEA
 biological_processGO:0008652 cellular amino acid biosynthetic process IEA
 biological_processGO:0009448 gamma-aminobutyric acid metabolic process IMP
 biological_processGO:0010468 regulation of gene expression IMP
 biological_processGO:0019530 taurine metabolic process IMP
 biological_processGO:0021510 spinal cord development IMP
 biological_processGO:0021782 glial cell development IMP
 biological_processGO:0021915 neural tube development IMP
 biological_processGO:0022008 neurogenesis IMP
 biological_processGO:0031175 neuron projection development IMP
 biological_processGO:0055114 oxidation-reduction process IEA
 biological_processGO:0070314 G1 to G0 transition IMP
 cellular_componentGO:0043209 myelin sheath IDA
 molecular_functionGO:0004617 phosphoglycerate dehydrogenase activity TAS
 molecular_functionGO:0016491 oxidoreductase activity IEA
 molecular_functionGO:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor IEA
 molecular_functionGO:0051287 NAD binding IEA


Pathways (from Reactome)
Pathway description
Serine biosynthesis


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 MP:0000433 microcephaly "an abnormally small head" [Stedman s Medical Dictionary , 27th edition:ISBN 0-683-40008-8, csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Cnr1tm1Map/Cnr1+
Genetic Background: involves: 129S1/Sv * 129X1/SvJ * CD-1

 MP:0000571 interdigital webbing "fold of skin, or web, between the toes that is not normally present" [Stedman s Medical Dictionary:ISBN 0-683-40008-8, J:49840]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0000774 reduced brain size "smaller appearance of the brain" [J:35802]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0000784 forebrain hypoplasia "reduced cell number in the anterior primitive cerebral vesicle; most rostral of three primary vesicles of the embryonic neural tube" [Stedman s Medical Dictionary:ISBN 0-683-40008-8]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

Allelic Composition: Phgdhtm1.2Shfu/Phgdhtm1.2Shfu,Tg(GFAP-cre)25Mes/0
Genetic Background: involves: 129P2/OlaHsd * FVB/N

 MP:0000786 abnormal neuroepithelial layer differentiation "malformation or arrest of differentiation or patterning of the epithelial layer of the brain" [J:45302]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0000850 absent cerebellum "missing the part of the metencephalon that lies in the posterior cranial fossa dorsal to the pons and medulla that is concerned with the coordination of movement" [Stedman s Medical Dictionary:ISBN 0-683-40008-8, J:19212, MeSH:National Library of Medicine - Medical Subject Headings , 2003]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0000913 abnormal brain development "malformed or incomplete differentiation of the brain" [MGI:cls, J:49840]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0000914 exencephaly "neurocranial defects resulting in exposure or extrusion of the brain" [Stedman s Medical Dictionary:ISBN 0-683-40008-8, J:49840]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0001698 reduced embryo size "smaller proportions of embryo compared to littermates" [J:61790]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0002175 low brain weight "lower than average weight of the brain" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Cnr1tm1Map/Cnr1+
Genetic Background: involves: 129S1/Sv * 129X1/SvJ * CD-1

 MP:0003451 absent olfactory bulb "absence of the forebrain region that coordinates neuronal signaling involved in the perception of smell; it receives input from the sensory neurons and outputs to the olfactory cortex" [Stedman s Medical Dictionary , 27th edition:ISBN 0-683-40008-8]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0003861 abnormal nervous system development "impaired or altered growth of the components of the nervous system" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0004274 abnormal embryonic/fetal subventricular zone morphology "any structural anomaly in the transient proliferative population of neurons that expands exponentially during late prenatal development; it is a continuous germinal zone distinct from the ventricular zone that surrounds the brain ventricles" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator", PMID:12637172]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0005332 abnormal amino acid level "aberrant concentration of these organic compounds, which, when polymerized, form proteins" [MeSH:National Library of Medicine - Medical Subject Headings , 2003]
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Allelic Composition: Phgdhtm1.2Shfu/Phgdhtm1.2Shfu,Tg(GFAP-cre)25Mes/0
Genetic Background: involves: 129P2/OlaHsd * FVB/N

 MP:0008535 enlarged lateral ventricles "increased size of the cavity in each of the cerebral hemispheres derived from the cavity of the embryonic neural tube; they are separated from each other by the septum pellucidum, and each communicates with the third ventricle by the foramen of Monro, through which also the choroid plexuses of the lateral ventricles become continuous with that of the third ventricle" [MESH:A08.186.211.276.650, MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0009937 abnormal neuron differentiation "abnormal growth or development of the cells of the nervous system that receive, conduct, and transmit impulses" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

 MP:0011098 complete embryonic lethality during organogenesis "death of all organisms of a given genotype in a population between embryo turning and the completion of organogenesis (Mus: E9 to less than E14)" [MGI:csmith]
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Allelic Composition: Alx4lst-J/Alx4lst-J
Genetic Background: B6C3Fe a/a-Alx4lst-J/J

  


Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSMUSG00000053398 Phgdh / Q61753 / D-3-phosphoglycerate dehydrogenase / O43175* / phosphoglycerate dehydrogenase*  / complex






 

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