GDT1 putative ribosome biosynthesis protein GDT1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: GDT1
Gene description: putative ribosome biosynthesis protein GDT1
Primary source: FungiDB:YBR187W
Locus tag: YBR187W
See related: SGD:S000000391; AllianceGenome:SGD:S000000391; VEuPathDB:YBR187W
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Summary: Enables calcium ion transmembrane transporter activity and manganese ion transmembrane transporter activity. Involved in cellular metal ion homeostasis and inorganic cation transmembrane transport. Located in Golgi medial cisterna; cis-Golgi network; and fungal-type vacuole. Used to study congenital disorder of glycosylation type II. Human ortholog(s) of this gene implicated in congenital disorder of glycosylation type IIk. Orthologous to human TMEM165 (transmembrane protein 165). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See GDT1 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 1

Sequence:: Chromosome: II; NC_001134.8 (602634..603476)

Chromosome II - NC_001134.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001134.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

obtained first evidence that Gdt1p from yeast directly transports manganese, which strongly reinforces the suggested link between the UPF0016 family and Mn(2+) homeostasis
Title: The yeast protein Gdt1p transports Mn(2+) ions and thereby regulates manganese homeostasis in the Golgi.
Erd1 transports Pi in the opposite direction from XPR1 and other EXS family proteins and facilitates byproduct removal from the Golgi complex together with Gdt1
Title: H(+) and Pi Byproducts of Glycosylation Affect Ca(2+) Homeostasis and Are Retrieved from the Golgi Complex by Homologs of TMEM165 and XPR1.
Gdt1p,to sustain the Golgi glycosylation process, imports Mn(2+) inside the Golgi lumen when Pmr1p exclusively transports Ca(2+). Gdt1p is a Mn(2+)-sensitive protein whose abundance dependents on the kind of the ion transported by Pmr1p. The aspartic residues of the 2 conserved motifs E-x-G-D-[KR], in the cation binding sites of Gdt1p, play a role in Golgi glycosylation and hence in Mn(2+)/Ca(2+)transport.
Title: Investigating the function of Gdt1p in yeast Golgi glycosylation.
Gdt1p controls cellular calcium stores and plays a major role in the calcium response induced by osmotic shock when the Golgi calcium pump, Pmr1p, is absent. Furthermore, in the presence of a high concentration of external calcium, Gdt1p is required for glycosylation of carboxypeptidase Y and the glucanosyltransferase Gas1p.
Title: Yeast Gdt1 is a Golgi-localized calcium transporter required for stress-induced calcium signaling and protein glycosylation.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables antiporter activity	IEA Inferred from Electronic Annotation more info
enables calcium ion transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion transmembrane transporter activity	IDA Inferred from Direct Assay more info	PubMed
enables manganese ion transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables manganese ion transmembrane transporter activity	IDA Inferred from Direct Assay more info	PubMed
enables metal ion transmembrane transporter activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in Golgi calcium ion homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in Golgi calcium ion homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in Golgi calcium ion transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in calcium ion transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in calcium ion transmembrane transport	IDA Inferred from Direct Assay more info	PubMed
involved_in calcium ion transport	IEA Inferred from Electronic Annotation more info
involved_in intracellular calcium ion homeostasis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in intracellular calcium ion homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intracellular manganese ion homeostasis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in intracellular manganese ion homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in manganese ion transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in manganese ion transmembrane transport	IDA Inferred from Direct Assay more info	PubMed
involved_in proton transmembrane transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in Golgi apparatus	IBA Inferred from Biological aspect of Ancestor more info
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in Golgi medial cisterna	IDA Inferred from Direct Assay more info	PubMed
located_in cis-Golgi network	IDA Inferred from Direct Assay more info	PubMed
located_in fungal-type vacuole	HDA more info	PubMed
located_in fungal-type vacuole	IDA Inferred from Direct Assay more info	PubMed
located_in fungal-type vacuole membrane	HDA more info	PubMed
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: putative ribosome biosynthesis protein GDT1

NP_009746.1

Calcium and manganese transporter with higher affinity for Ca2+; involved in Ca2+ and Mn2+ homeostasis; localizes to the cis- and medial-Golgi apparatus; GFP-fusion localizes to the vacuole; required for the Mn2+-dependent function of glycosylation enzymes; TMEM165, a human ortholog linked to Congenital Disorders of Glycosylation, functionally complements the null allele; expression pattern and physical interactions suggest a possible role in ribosome biogenesis; expression regulated by Gcr1p

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NC_001134.8 Reference assembly

Range

602634..603476

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001178535.1 → NP_009746.1 TPA: putative ribosome biosynthesis protein GDT1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_009746.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VQI2, E9PAD4, P38301, Q6Q545

UniProtKB/TrEMBL

A0A8H4BVA3, G2W9I9, N1P8M2

Conserved Domains (1) summary

COG2119
Location:39 → 280

Gdt1; Putative Ca2+/H+ antiporter, TMEM165/GDT1 family [General function prediction only]