gldc glycine dehydrogenase (decarboxylating) [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: gldcprovided by ZNC
Official Full Name: glycine dehydrogenase (decarboxylating)provided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-340
See related: AllianceGenome:ZFIN:ZDB-GENE-030131-340
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: fb23b05; zgc:66198; wu:fb23b05
Summary: Predicted to enable glycine dehydrogenase (decarboxylating) activity. Acts upstream of or within cartilage development; cloaca development; and pronephric nephron tubule development. Is expressed in central nervous system; digestive system; and pronephros. Used to study glycine encephalopathy. Human ortholog(s) of this gene implicated in glycine encephalopathy. Orthologous to human GLDC (glycine decarboxylase). [provided by Alliance of Genome Resources, Nov 2024]
Annotation information: Annotation category: suggests misassembly; Annotation category: partial on reference assembly
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: chromosome: 5

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	5	NC_007116.7 (66170397..66203088)
105	previous assembly	GRCz10 (GCF_000002035.5)	5	NC_007116.6 (65491292..65523983)

Chromosome 5 - NC_007116.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

fj99a03.x1 (e-PCR)
- UniSTS:200460

fb23b05.x1 (e-PCR)
- UniSTS:190317

fb23b05.x1 (e-PCR)
- UniSTS:190318

fc19g12.x1 (e-PCR)
- UniSTS:192956

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables glycine binding	IBA Inferred from Biological aspect of Ancestor more info
enables glycine dehydrogenase (decarboxylating) activity	IBA Inferred from Biological aspect of Ancestor more info
enables glycine dehydrogenase (decarboxylating) activity	IEA Inferred from Electronic Annotation more info
enables oxidoreductase activity	IEA Inferred from Electronic Annotation more info
enables pyridoxal phosphate binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cartilage development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cloaca development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within glycine catabolic process	IEA Inferred from Electronic Annotation more info
involved_in glycine decarboxylation via glycine cleavage system	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within pronephric nephron tubule development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of glycine cleavage complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in mitochondrion	IBA Inferred from Biological aspect of Ancestor more info

General protein information

Go to the top of the page Help

Preferred Names: glycine dehydrogenase (decarboxylating), mitochondrial

Names: glycine dehydrogenase (decarboxylating; glycine decarboxylase, glycine cleavage system protein P)

NP_955848.1

EC 1.4.4.2

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_199554.1 → NP_955848.1 glycine dehydrogenase (decarboxylating), mitochondrial

See identical proteins and their annotated locations for NP_955848.1

Status: PROVISIONAL

Source sequence(s)

BC057478

UniProtKB/TrEMBL

Q6PFN9

Conserved Domains (3) summary

PRK05367
Location:64 → 974

PRK05367; glycine dehydrogenase; Provisional

pfam02347
Location:72 → 495

GDC-P; Glycine cleavage system P-protein

cl18945
Location:498 → 942

AAT_I; Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the ...