SDO1 guanine nucleotide exchange factor SDO1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: SDO1
Official Full Name: guanine nucleotide exchange factor SDO1
Primary source: SGD:S000004012
Locus tag: YLR022C
See related: AllianceGenome:SGD:S000004012; FungiDB:YLR022C; VEuPathDB:YLR022C
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 guanyl-nucleotide exchange factor activity and rRNA binding activity. Involved in cytosolic ribosome assembly. Located in cytoplasm and nucleus. Used to study Shwachman-Diamond syndrome and neuronal ceroid lipofuscinosis 3. Human ortholog(s) of this gene implicated in Shwachman-Diamond syndrome and aplastic anemia. Orthologous to human SBDS (SBDS ribosome maturation factor). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See SDO1 in Genome Data Viewer

Location:: chromosome: XII

Exon count:: 1

Sequence:: Chromosome: XII; NC_001144.5 (184174..184926, complement)

Chromosome XII - NC_001144.5 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001144.5

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The mutual effects of Sdo1 and nucleotides on Efl1 modulate in a very specific and robust way the complex conformational landscape of Efl1, resembling the behavior observed with other GTPases and their cofactors.
Title: Cooperative energetic effects elicited by the yeast Shwachman-Diamond syndrome protein (Sdo1) and guanine nucleotides modulate the complex conformational landscape of the elongation factor-like 1 (Efl1) GTPase.
data support a conformational signal-relay cascade during late-stage 60S maturation, involving uL16, Sdo1p, and Efl1p, which interrogates the functional P-site to control the departure of the anti-association factor eIF6.
Title: Structural dynamics of the yeast Shwachman-Diamond syndrome protein (Sdo1) on the ribosome and its implication in the 60S subunit maturation.
Cells lacking Sdo1 exhibit reduced tolerance to various stress conditions.
Title: Deletion of Mitochondrial Porin Alleviates Stress Sensitivity in the Yeast Model of Shwachman-Diamond Syndrome.
Sdo1 protein acts as a nucleotide exchange factor that stabilizes binding to GTP for yeast GTPase.
Title: Guanine nucleotide exchange in the ribosomal GTPase EFL1 is modulated by the protein mutated in the Shwachman-Diamond syndrome.
Sdo1p binds RNA directly, suggesting that it may associate with the ribosomal subunits also through RNA interaction.
Title: Sdo1p, the yeast orthologue of Shwachman-Bodian-Diamond syndrome protein, binds RNA and interacts with nuclear rRNA-processing factors.
The yeast SBDS orthologue is required for the release and recycling of Tif6 from late cytoplasmic 60S subunits.
Title: The Shwachman-Bodian-Diamond syndrome protein mediates translational activation of ribosomes in yeast.
Sdo1 appears to function within a pathway containing elongation factor-like 1, and together they control translational activation of ribosomes.
Title: The Shwachman-Bodian-Diamond syndrome protein mediates translational activation of ribosomes in yeast.

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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 5.8S rRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables guanyl-nucleotide exchange factor activity	IDA Inferred from Direct Assay more info	PubMed
enables large ribosomal subunit rRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables rRNA primary transcript binding	IDA Inferred from Direct Assay more info	PubMed
enables small ribosomal subunit rRNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in cytosolic ribosome assembly	IEA Inferred from Electronic Annotation more info
involved_in cytosolic ribosome assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in ribosome biogenesis	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	HDA more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleus	HDA more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: guanine nucleotide exchange factor SDO1

NP_013122.1

Guanine nucleotide exchange factor (GEF) for Ria1p; essential protein involved in ribosome maturation; with Ria1p, promotes release of Tif6p from 60S ribosomal subunits in the cytoplasm so that they can assemble with 40S subunits to generate mature ribosomes; ortholog of the human protein (SBDS) responsible for autosomal recessive Shwachman-Bodian-Diamond Syndrome; highly conserved across archaea and eukaryotes

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_001144.5 Reference assembly

Range

184174..184926 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001181909.1 → NP_013122.1 TPA: guanine nucleotide exchange factor SDO1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_013122.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VY24, Q07953

UniProtKB/TrEMBL

A7A0S7, B3LSZ5, B5VMW1, C7GXG8, C8ZCZ4, G2WIL6, N1P236

Conserved Domains (1) summary

TIGR00291
Location:9 → 244

RNA_SBDS; rRNA metabolism protein, SBDS family