Sds serine dehydratase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sdsprovided by RGD
Official Full Name: serine dehydrataseprovided by RGD
Primary source: RGD:67376
See related: Ensembl:ENSRNOG00000001388 AllianceGenome:RGD:67376
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: Predicted to enable ammonia-lyase activity; protein homodimerization activity; and pyridoxal phosphate binding activity. Involved in protein-containing complex assembly; response to amino acid; and response to cobalamin. Predicted to be located in cytosol and mitochondrion. Orthologous to human SDS (serine dehydratase). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Liver (RPKM 90.4) and Kidney (RPKM 25.4) See more
Orthologs: human mouse all
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Genomic context

Location:: 12q16

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (41743796..41751108, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (36083226..36090540, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (41620429..41627741, complement)

Chromosome 12 - NC_086030.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Angiotensin receptor blockade recovers hepatic UCP2 expression and aconitase and SDH activities and ameliorates hepatic oxidative damage in insulin resistant rats
Title: Angiotensin receptor blockade recovers hepatic UCP2 expression and aconitase and SDH activities and ameliorates hepatic oxidative damage in insulin resistant rats.
Excess leucine intake induces Sdh in rat liver.
Title: Excess leucine intake induces serine dehydratase in rat liver.
quantity as well as quality of dietary protein has an influence on serine dehydratase gene expression
Title: Quantity as well as quality of dietary protein affects serine dehydratase gene expression in rat liver.
results clearly confirm that rat liver SDH is a dimer
Title: Evidence for a dimeric structure of rat liver serine dehydratase.
A detailed catalytic mechanism of SDH is proposed based on the crystal structures of apo-SDH and pyridoxal 5'-phosphate-O-methylserine aldimine-bound SDH.
Title: Crystal structure of serine dehydratase from rat liver.
The changes found in SerDH expression are part of an overall metabolic response of liver to maintain acid-base homeostasis during acidosis.
Title: Downregulation in the expression of the serine dehydratase in the rat liver during chronic metabolic acidosis.

Submit: New GeneRIF Correction

General gene information

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Markers

D12Wox17 (e-PCR)
- UniSTS:518677

D12Arb7 (e-PCR), detects polymorphism
- UniSTS:226440

RH141130 (e-PCR)
- UniSTS:223126

D12Wox15 (e-PCR)
- UniSTS:517789

D12Arb16 (e-PCR)
- UniSTS:240634

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables L-serine ammonia-lyase activity	IBA Inferred from Biological aspect of Ancestor more info
enables L-serine ammonia-lyase activity	IEA Inferred from Electronic Annotation more info
enables L-serine ammonia-lyase activity	ISO Inferred from Sequence Orthology more info
enables L-serine ammonia-lyase activity	TAS Traceable Author Statement more info	PubMed
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables pyridoxal phosphate binding	IEA Inferred from Electronic Annotation more info
enables pyridoxal phosphate binding	ISO Inferred from Sequence Orthology more info
enables threonine deaminase activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in L-serine catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in L-serine catabolic process	IEA Inferred from Electronic Annotation more info
involved_in L-serine catabolic process	ISO Inferred from Sequence Orthology more info
involved_in gluconeogenesis	IEA Inferred from Electronic Annotation more info
involved_in gluconeogenesis	TAS Traceable Author Statement more info	PubMed
involved_in isoleucine biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in lipid metabolic process	IEA Inferred from Electronic Annotation more info
involved_in protein-containing complex assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in pyruvate biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in pyruvate biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in response to amino acid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to cobalamin	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient levels	IEP Inferred from Expression Pattern more info	PubMed
involved_in threonine catabolic process	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: L-serine dehydratase/L-threonine deaminase

Names: L-serine deaminase; L-threonine dehydratase

NP_446414.3

EC 4.3.1.17

EC 4.3.1.19

XP_063127146.1

EC 4.3.1.17

EC 4.3.1.19

NCBI Reference Sequences (RefSeq)

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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)

NM_053962.3 → NP_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, Q5M8C4

UniProtKB/TrEMBL

A6J1J3

Related

ENSRNOP00000001875.3, ENSRNOT00000001875.5

Conserved Domains (1) summary

cd06448
Location:10 → 320

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.