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Sds serine dehydratase [ Rattus norvegicus (Norway rat) ]

Gene ID: 25044, updated on 18-Apr-2019

Summary

Official Symbol
Sdsprovided by RGD
Official Full Name
serine dehydrataseprovided by RGD
Primary source
RGD:67376
See related
Ensembl:ENSRNOG00000001388
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Sdh; TDH; SDH2; Sdhe1; RATSDHE1
Summary
enzyme that converts L-serine to pyruvate and ammonia; involved in gluconeogenesis [RGD, Feb 2006]
Expression
Biased expression in Liver (RPKM 90.4) and Kidney (RPKM 25.4) See more
Orthologs

Genomic context

See Sds in Genome Data Viewer
Location:
12q16
Exon count:
9
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (41620429..41627741, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 12 NC_005111.3 (43473323..43480635, complement)

Chromosome 12 - NC_005111.4Genomic Context describing neighboring genes Neighboring gene solute carrier family 8 member B1 Neighboring gene phospholipase B domain containing 2 Neighboring gene serine dehydratase-like Neighboring gene uncharacterized LOC108352452 Neighboring gene LIM homeobox 5

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Biosynthesis of amino acids, organism-specific biosystem (from KEGG)
    Biosynthesis of amino acids, organism-specific biosystemThis map presents a modular architecture of the biosynthesis pathways of twenty amino acids, which may be viewed as consisting of the core part and its extensions. The core part is the KEGG module fo...
  • Biosynthesis of amino acids, conserved biosystem (from KEGG)
    Biosynthesis of amino acids, conserved biosystemThis map presents a modular architecture of the biosynthesis pathways of twenty amino acids, which may be viewed as consisting of the core part and its extensions. The core part is the KEGG module fo...
  • Carbon metabolism, organism-specific biosystem (from KEGG)
    Carbon metabolism, organism-specific biosystemCarbon metabolism is the most basic aspect of life. This map presents an overall view of central carbon metabolism, where the number of carbons is shown for each compound denoted by a circle, excludi...
  • Carbon metabolism, conserved biosystem (from KEGG)
    Carbon metabolism, conserved biosystemCarbon metabolism is the most basic aspect of life. This map presents an overall view of central carbon metabolism, where the number of carbons is shown for each compound denoted by a circle, excludi...
  • Cysteine and methionine metabolism, organism-specific biosystem (from KEGG)
    Cysteine and methionine metabolism, organism-specific biosystemCysteine and methionine are sulfur-containing amino acids. Cysteine is synthesized from serine through different pathways in different organism groups. In bacteria and plants, cysteine is converted f...
  • Cysteine and methionine metabolism, conserved biosystem (from KEGG)
    Cysteine and methionine metabolism, conserved biosystemCysteine and methionine are sulfur-containing amino acids. Cysteine is synthesized from serine through different pathways in different organism groups. In bacteria and plants, cysteine is converted f...
  • Glycine, serine and threonine metabolism, organism-specific biosystem (from KEGG)
    Glycine, serine and threonine metabolism, organism-specific biosystemSerine is derived from 3-phospho-D-glycerate, an intermediate of glycolysis [MD:M00020], and glycine is derived from serine. Threonine is an essential amino acid, which animals cannot synthesize. In ...
  • Glycine, serine and threonine metabolism, conserved biosystem (from KEGG)
    Glycine, serine and threonine metabolism, conserved biosystemSerine is derived from 3-phospho-D-glycerate, an intermediate of glycolysis [MD:M00020], and glycine is derived from serine. Threonine is an essential amino acid, which animals cannot synthesize. In ...
  • Metabolic pathways, organism-specific biosystem (from KEGG)
    Metabolic pathways, organism-specific biosystem
    Metabolic pathways
  • Valine, leucine and isoleucine biosynthesis, organism-specific biosystem (from KEGG)
    Valine, leucine and isoleucine biosynthesis, organism-specific biosystem
    Valine, leucine and isoleucine biosynthesis
  • Valine, leucine and isoleucine biosynthesis, conserved biosystem (from KEGG)
    Valine, leucine and isoleucine biosynthesis, conserved biosystem
    Valine, leucine and isoleucine biosynthesis

General gene information

Markers

Homology

Clone Names

  • MGC108581

Gene Ontology Provided by RGD

Function Evidence Code Pubs
L-serine ammonia-lyase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
L-serine ammonia-lyase activity IEA
Inferred from Electronic Annotation
more info
 
L-serine ammonia-lyase activity ISO
Inferred from Sequence Orthology
more info
PubMed 
L-serine ammonia-lyase activity TAS
Traceable Author Statement
more info
PubMed 
L-threonine ammonia-lyase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein dimerization activity IDA
Inferred from Direct Assay
more info
PubMed 
protein homodimerization activity IEA
Inferred from Electronic Annotation
more info
 
protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
PubMed 
pyridoxal phosphate binding IEA
Inferred from Electronic Annotation
more info
 
pyridoxal phosphate binding ISO
Inferred from Sequence Orthology
more info
PubMed 
Process Evidence Code Pubs
L-serine catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
L-serine catabolic process IEA
Inferred from Electronic Annotation
more info
 
L-serine catabolic process ISO
Inferred from Sequence Orthology
more info
PubMed 
gluconeogenesis IEA
Inferred from Electronic Annotation
more info
 
gluconeogenesis TAS
Traceable Author Statement
more info
PubMed 
pyruvate biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
pyruvate biosynthetic process ISO
Inferred from Sequence Orthology
more info
PubMed 
response to amino acid IEP
Inferred from Expression Pattern
more info
PubMed 
response to cobalamin IEP
Inferred from Expression Pattern
more info
PubMed 
response to nutrient levels IEP
Inferred from Expression Pattern
more info
PubMed 
threonine catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
cytosol IEA
Inferred from Electronic Annotation
more info
 
cytosol ISO
Inferred from Sequence Orthology
more info
 
mitochondrion IEA
Inferred from Electronic Annotation
more info
 
mitochondrion ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
L-serine dehydratase/L-threonine deaminase
Names
L-serine deaminase
L-threonine dehydratase
NP_446414.3

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_053962.3NP_446414.3  L-serine dehydratase/L-threonine deaminase

    See identical proteins and their annotated locations for NP_446414.3

    Status: PROVISIONAL

    Source sequence(s)
    BC088110
    UniProtKB/Swiss-Prot
    P09367
    Related
    ENSRNOP00000001875.3, ENSRNOT00000001875.4
    Conserved Domains (2) summary
    cd06448
    Location:10320
    L-Ser-dehyd; Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- , D-serine, or L-threonine to pyruvate/ketobutyrate and ammonia.
    pfam00291
    Location:10304
    PALP; Pyridoxal-phosphate dependent enzyme

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005111.4 Reference Rnor_6.0 Primary Assembly

    Range
    41620429..41627741 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000080.1 Alternate Rn_Celera

    Range
    37743289..37750601 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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