cyk-3 Ubiquitin carboxyl-terminal hydrolase cyk-3 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: cyk-3
Official Full Name: Ubiquitin carboxyl-terminal hydrolase cyk-3
Primary source: WormBase:WBGene00000874
Locus tag: CELE_ZK328.1
See related: AllianceGenome:WB:WBGene00000874
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Enables cysteine-type deubiquitinase activity. Involved in several processes, including intracellular water homeostasis; mitotic cleavage furrow formation; and positive regulation of TORC1 signaling. Located in cytoplasm and microtubule organizing center. Is expressed in coelomocyte; excretory cell; head neurons; hypodermis; and pharynx. Orthologous to several human genes including USP32 (ubiquitin specific peptidase 32). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See cyk-3 in Genome Data Viewer

Location:: chromosome: III

Exon count:: 14

Sequence:: Chromosome: III; NC_003281.10 (6020159..6024985)

Chromosome III - NC_003281.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003281.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

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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Markers

ZK328.1 (e-PCR)
- UniSTS:310466

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables cysteine-type deubiquitinase activity	IDA Inferred from Direct Assay more info	PubMed
enables cysteine-type deubiquitinase activity	IEA Inferred from Electronic Annotation more info
enables cysteine-type peptidase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in embryo development ending in birth or egg hatching	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in establishment of cell polarity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intracellular water homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in microtubule organizing center organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitotic cleavage furrow formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of TORC1 signaling	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein deubiquitination	IEA Inferred from Electronic Annotation more info
involved_in proteolysis	IEA Inferred from Electronic Annotation more info
involved_in regulation of asymmetric protein localization involved in cell fate determination	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in microtubule organizing center	IDA Inferred from Direct Assay more info	PubMed
located_in microtubule organizing center	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Ubiquitin carboxyl-terminal hydrolase cyk-3

NP_001022992.1

Confirmed by transcript evidence

NP_498311.2

Confirmed by transcript evidence

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_003281.10 Reference assembly

Range

6020159..6024985

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001027821.6 → NP_001022992.1 Ubiquitin carboxyl-terminal hydrolase cyk-3 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001022992.1

Status: REVIEWED

UniProtKB/Swiss-Prot

G5EDU8, Q8WT44

Conserved Domains (3) summary

pfam13499
Location:177 → 241

EF-hand_7; EF-hand domain pair

cl02553
Location:322 → 1175

Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...

cl25352
Location:23 → 201

EFh_PEF; The penta-EF hand (PEF) family
NM_065910.7 → NP_498311.2 Ubiquitin carboxyl-terminal hydrolase cyk-3 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_498311.2

Status: REVIEWED

UniProtKB/TrEMBL

G5EDU8

Conserved Domains (7) summary

smart00695
Location:312 → 411

DUSP; Domain in ubiquitin-specific proteases

COG5126
Location:23 → 201

FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]

COG5560
Location:322 → 1172

UBP12; Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

cd02674
Location:1021 → 1170

Peptidase_C19R; A subfamily of peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

cl02553
Location:568 → 772

Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...

pfam13499
Location:180 → 240

EF-hand_7; EF-hand domain pair

cl08302
Location:179 → 241

EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...