vcp.S valosin containing protein S homeolog [Xenopus laevis (African clawed frog)] - Gene

Summary

Official Symbol: vcp.S
Official Full Name: valosin containing protein S homeolog
Primary source: Xenbase:XB-GENE-969578
Locus tag: XELAEV_18011173mg
See related: EnsemblRapid:ENSXLAG00005000154
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Xenopus laevis
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as: vcp
Annotation information: Annotation category: partial on reference assembly
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Genomic context

Location:: chromosome: 1S

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
101	current	Xenopus_laevis_v10.1 (GCF_017654675.1)	1S	NC_054372.1 (199772085..199785649, complement)
100	previous assembly	Xenopus_laevis_v2 (GCF_001663975.1)	1S	NC_030725.1 (179832013..179845543, complement)

Chromosome 1S - NC_054372.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

VCP removes sterically trapped Ku70/80 rings from DNA in double-strand break repair.
Title: VCP/p97 Extracts Sterically Trapped Ku70/80 Rings from DNA in Double-Strand Break Repair.
Findings indicate that p97 plays a conserved role in dismantling the CMG helicase complex during different cellular events, but that distinct regulatory signals ultimately control when and where unloading takes place.
Title: p97 Promotes a Conserved Mechanism of Helicase Unloading during DNA Cross-Link Repair.
CDC-48/p97 coordinates CDT-1 degradation with GINS chromatin dissociation to ensure faithful DNA replication
Title: CDC-48/p97 coordinates CDT-1 degradation with GINS chromatin dissociation to ensure faithful DNA replication.
p97 is an essential regulator of DNA damage-dependent CDT1 destruction
Title: A genome-wide screen identifies p97 as an essential regulator of DNA damage-dependent CDT1 destruction.
data reveal an essential pathway that regulates reformation of the nucleus after mitosis and defines ubiquitin-dependent protein extraction as a common mechanism of Cdc48/p97 activity also during nucleus formation
Title: Cdc48/p97 promotes reformation of the nucleus by extracting the kinase Aurora B from chromatin.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by Xenbase

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	IDA Inferred from Direct Assay more info	PubMed
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables lipid binding	IEA Inferred from Electronic Annotation more info
enables polyubiquitin modification-dependent protein binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within DNA repair	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within ERAD pathway	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within autophagosome maturation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within autophagosome maturation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within autophagy	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within autophagy	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within cellular response to arsenite ion	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within cellular response to heat	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within cellular response to stress	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within double-strand break repair	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within endoplasmic reticulum stress-induced pre-emptive quality control	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within endosome to lysosome transport via multivesicular body sorting pathway	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within interstrand cross-link repair	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within macroautophagy	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within mitotic spindle disassembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within proteasomal protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within protein ubiquitination	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of protein localization to chromatin	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within retrograde protein transport, ER to cytosol	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within stress granule disassembly	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within translesion synthesis	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of VCP-NPL4-UFD1 AAA ATPase complex	IEA Inferred from Electronic Annotation more info
located_in chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic stress granule	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic stress granule	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in site of double-strand break	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: transitional endoplasmic reticulum ATPase

Names: 15S Mg(2+)-ATPase p97 subunit; TER ATPase; p97 ATPase; valosin-containing protein

NP_001095217.1

EC 3.6.4.6

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_001101747.1 → NP_001095217.1 transitional endoplasmic reticulum ATPase

See identical proteins and their annotated locations for NP_001095217.1

Status: PROVISIONAL

Source sequence(s)

X54240

UniProtKB/TrEMBL

A0A974I1Z5

Related

ENSXLAP00005000376.1, ENSXLAT00005000403.1

Conserved Domains (6) summary

smart01072
Location:131 → 191

CDC48_2; Cell division protein 48 (CDC48) domain 2

TIGR01243
Location:25 → 764

CDC48; AAA family ATPase, CDC48 subfamily

pfam00004
Location:241 → 370

AAA; ATPase family associated with various cellular activities (AAA)

pfam02359
Location:25 → 107

CDC48_N; Cell division protein 48 (CDC48), N-terminal domain

pfam09336
Location:718 → 760

Vps4_C; Vps4 C terminal oligomerization domain

cl21455
Location:452 → 534

P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

NC_054372.1 Reference Xenopus_laevis_v10.1 Primary Assembly

Range

199772085..199785649 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)