SEC13 GTPase-activating protein SEC13 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: SEC13
Gene description: GTPase-activating protein SEC13
Primary source: FungiDB:YLR208W
Locus tag: YLR208W
See related: SGD:S000004198; AllianceGenome:SGD:S000004198; VEuPathDB:YLR208W
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: ANU3
Summary: Enables structural molecule activity. Involved in several processes, including nuclear pore localization; positive regulation of TORC1 signaling; and ubiquitin-dependent ERAD pathway. Located in cell periphery. Part of COPII vesicle coat; Seh1-associated complex; and nuclear pore outer ring. Orthologous to human SEC13 (SEC13 homolog, nuclear pore and COPII coat complex component). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See SEC13 in Genome Data Viewer

Location:: chromosome: XII

Exon count:: 1

Sequence:: Chromosome: XII; NC_001144.5 (559551..560444)

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?

Sec13p may rigidify the COPII cage and increase its membrane-bending capacity
Title: ER cargo properties specify a requirement for COPII coat rigidity mediated by Sec13p.
Here, we identify the Seh1-associated protein complex in yeast that contains the nucleoporins Seh1 and Sec13
Title: A conserved coatomer-related complex containing Sec13 and Seh1 dynamically associates with the vacuole in Saccharomyces cerevisiae.
crystal structure of the heterotrimeric Sec13 x Nup145C x Nup84 complex, centerpiece of the heptamer, at 3.2-A resolution. Nup84 forms a U-shaped alpha-helical solenoid domain, topologically similar to two other members of the heptamer, Nup145C and Nup85
Title: Structure of a trimeric nucleoporin complex reveals alternate oligomerization states.
The heterotypic ACE1 interaction of Nup84 and Nup145C is analogous to the homotypic ACE1 interaction of Sec31 that forms COPII lattice edge elements and is inconsistent with the alternative 'fence-like' NPC model.
Title: Molecular architecture of the Nup84-Nup145C-Sec13 edge element in the nuclear pore complex lattice.

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Pathways from PubChem

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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 structural molecule activity	IBA Inferred from Biological aspect of Ancestor more info
enables structural molecule activity	IDA Inferred from Direct Assay more info	PubMed
enables structural molecule activity	IEA Inferred from Electronic Annotation more info
enables structural molecule activity	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in COPII-coated vesicle budding	IBA Inferred from Biological aspect of Ancestor more info
involved_in COPII-coated vesicle budding	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in ERAD pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA transport	IEA Inferred from Electronic Annotation more info
involved_in nuclear pore localization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of TOR signaling	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of TORC1 signaling	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein exit from endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein import into nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of COPII vesicle coat	IBA Inferred from Biological aspect of Ancestor more info
part_of COPII vesicle coat	IDA Inferred from Direct Assay more info	PubMed
located_in ER to Golgi transport vesicle membrane	IEA Inferred from Electronic Annotation more info
part_of Seh1-associated complex	IDA Inferred from Direct Assay more info	PubMed
located_in cell periphery	HDA more info	PubMed
located_in cytoplasmic vesicle	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
part_of nuclear pore	IEA Inferred from Electronic Annotation more info
part_of nuclear pore outer ring	IBA Inferred from Biological aspect of Ancestor more info
part_of nuclear pore outer ring	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in vacuolar membrane	IEA Inferred from Electronic Annotation more info
located_in vacuole	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: GTPase-activating protein SEC13

NP_013309.1

Structural component of 3 complexes; subunit of the Nup84p nuclear pore subcomplex that contributes to nucleocytoplasmic transport and NPC biogenesis; subunit of the COPII vesicle coat required for ER-to-Golgi transport; subunit of SEACAT, a subcomplex of the coatomer-related, vacuolar-associated SEA complex, that inhibits the TORC1 inhibitory role of SEACIT (Iml1p-Npr2p-Npr3p), a GAP for Gtr1p, thereby resulting in activation of TORC1 signaling; human SEC13 homolog

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

559551..560444

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001182095.1 → NP_013309.1 TPA: GTPase-activating protein SEC13 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_013309.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VYK9, Q04491

UniProtKB/TrEMBL

A0A6A5PUS3, A7A196, B3RH97, B5VNC6, C7GIT7, C8ZDH2, G2WJ38, N1NZT9

Conserved Domains (2) summary

sd00039
Location:57 → 97

7WD40; WD40 repeat [structural motif]

cl29593
Location:8 → 282

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...