Ppm1k protein phosphatase, Mg2+/Mn2+ dependent, 1K [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ppm1kprovided by RGD
Official Full Name: protein phosphatase, Mg2+/Mn2+ dependent, 1Kprovided by RGD
Primary source: RGD:1308501
See related: EnsemblRapid:ENSRNOG00000006893 AllianceGenome:RGD:1308501
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: BDP; BCKDH; RGD1308501
Summary: Predicted to enable manganese ion binding activity and protein serine/threonine phosphatase activity. Predicted to be involved in branched-chain amino acid catabolic process and regulation of mitochondrial membrane permeability involved in apoptotic process. Predicted to be located in mitochondrial matrix. Human ortholog(s) of this gene implicated in maple syrup urine disease. Orthologous to human PPM1K (protein phosphatase, Mg2+/Mn2+ dependent 1K). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Kidney (RPKM 374.0), Heart (RPKM 248.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q24

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (88942226..88969139)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (87612198..87638993)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (88694395..88721374)

Chromosome 4 - NC_086022.1 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?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables manganese ion binding	ISO Inferred from Sequence Orthology more info
enables protein serine/threonine phosphatase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in branched-chain amino acid catabolic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of mitochondrial membrane permeability involved in apoptotic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in mitochondrial matrix	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: protein phosphatase Mn(2+)-dependent 1K

Names: [3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring)]-phosphatase; branched-chain alpha-ketoacid dehydrogenase phosphatase; protein phosphatase 1K (PP2C domain containing); protein phosphatase 1K, mitochondrial; protein phosphatase 2C family member

NP_001101333.1

EC 3.1.3.16

EC 3.1.3.52

XP_006236633.1

EC 3.1.3.16

EC 3.1.3.52

XP_017448105.1

EC 3.1.3.16

EC 3.1.3.52

XP_017448106.1

EC 3.1.3.16

EC 3.1.3.52

XP_017448108.1

EC 3.1.3.16

EC 3.1.3.52

XP_038963489.1

EC 3.1.3.16

EC 3.1.3.52

XP_063142109.1

EC 3.1.3.16

EC 3.1.3.52

XP_063142111.1

EC 3.1.3.16

EC 3.1.3.52

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_001107863.1 → NP_001101333.1 protein phosphatase Mn(2+)-dependent 1K

See identical proteins and their annotated locations for NP_001101333.1

Status: PROVISIONAL

Source sequence(s)

CH474011

UniProtKB/Swiss-Prot

A6K136, D4A7X5

Conserved Domains (1) summary

cd00143
Location:95 → 346

PP2Cc; Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence ...

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086022.1 Reference GRCr8

Range

88942226..88969139

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017592616.3 → XP_017448105.1 protein phosphatase Mn(2+)-dependent 1K isoform X1

UniProtKB/Swiss-Prot

A6K136, D4A7X5

Conserved Domains (1) summary

cd00143
Location:95 → 346

PP2Cc; Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence ...
XM_063286039.1 → XP_063142109.1 protein phosphatase Mn(2+)-dependent 1K isoform X1

UniProtKB/Swiss-Prot

A6K136, D4A7X5
XM_017592617.3 → XP_017448106.1 protein phosphatase Mn(2+)-dependent 1K isoform X1

UniProtKB/Swiss-Prot

A6K136, D4A7X5

Related

ENSRNOP00000009202.5, ENSRNOT00000009202.8

Conserved Domains (1) summary

cd00143
Location:95 → 346

PP2Cc; Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence ...
XM_006236571.5 → XP_006236633.1 protein phosphatase Mn(2+)-dependent 1K isoform X1

See identical proteins and their annotated locations for XP_006236633.1

UniProtKB/Swiss-Prot

A6K136, D4A7X5

Conserved Domains (1) summary

cd00143
Location:95 → 346

PP2Cc; Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence ...
XM_063286041.1 → XP_063142111.1 protein phosphatase Mn(2+)-dependent 1K isoform X1

UniProtKB/Swiss-Prot

A6K136, D4A7X5
XM_017592619.3 → XP_017448108.1 protein phosphatase Mn(2+)-dependent 1K isoform X1

UniProtKB/Swiss-Prot

A6K136, D4A7X5

Conserved Domains (1) summary

cd00143
Location:95 → 346

PP2Cc; Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence ...
XM_039107561.2 → XP_038963489.1 protein phosphatase Mn(2+)-dependent 1K isoform X2

Conserved Domains (1) summary

cd00143
Location:16 → 180

PP2Cc; Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence ...