protein coding gene - cdc48 (SPAC1565.08) - AAA family ATPase involved in ubiquitin-mediated protein degradation Cdc48

Gene summary

Standard name

cdc48

Systematic ID

SPAC1565.08

Product

AAA family ATPase involved in ubiquitin-mediated protein degradation Cdc48

Organism

Schizosaccharomyces pombe (fission yeast)

Synonyms

SPAC6F12.01, dsc6

UniProt ID

Q9P3A7

ORFeome ID

29/29A12

Characterisation status

biological role published

Feature type

mRNA gene

Genomic location

chromosome I: 1306445..1309266 forward strand

Annotation

Protein features

Orthologs

• VCP (HGNC:12666) Homo sapiens
• cdc48 (SJAG_03345) Schizosaccharomyces japonicus
• CDC48 (YDL126C) Saccharomyces cerevisiae

References / Literature

PMID:27274088 - Proximity-dependent biotin labelling in yeast using the engineered ascorbate peroxidase APEX2.

Hwang J et al. Biochem J 2016 Aug 15;473(16):2463-9

PMID:21511999 - Comparative functional genomics of the fission yeasts.

Rhind N et al. Science 2011 May 20;332(6032):930-6

PMID:27655872 - A Golgi rhomboid protease Rbd2 recruits Cdc48 to cleave yeast SREBP.

Hwang J et al. EMBO J 2016 Nov 02;35(21):2332-2349

PMID:21712547 - Mitotic substrates of the kinase aurora with roles in chromatin regulation identified through quantitative phosphoproteomics of fission yeast.

Koch A et al. Sci Signal 2011 Jun 28;4(179):rs6

PMID:25375137 - Systematic analysis of the role of RNA-binding proteins in the regulation of RNA stability.

Hasan A et al. PLoS Genet 2014 Nov;10(11):e1004684

PMID:20976105 - Silencing mediated by the Schizosaccharomyces pombe HIRA complex is dependent upon the Hpc2-like protein, Hip4.

Anderson HE et al. PLoS One 2010 Oct 18;5(10):e13488

PMID:23729666 - Structural requirements for sterol regulatory element-binding protein (SREBP) cleavage in fission yeast.

Chong R et al. J Biol Chem 2013 Jul 12;288(28):20351-60

PMID:25009287 - Megadalton-node assembly by binding of Skb1 to the membrane anchor Slf1.

Deng L et al. Mol Biol Cell 2014 Sep 01;25(17):2660-8

PMID:29153394 - VCP/p97-Mediated Unfolding as a Principle in Protein Homeostasis and Signaling.

van den Boom J et al. Mol Cell 2018 Jan 18;69(2):182-194

PMID:23101633 - Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.

Marguerat S et al. Cell 2012 Oct 26;151(3):671-83

PMID:30726745 - Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex.

Tay YD et al. Cell Rep 2019 Feb 05;26(6):1654-1667.e7

PMID:31064814 - Proximity-dependent biotinylation mediated by TurboID to identify protein-protein interaction networks in yeast.

Larochelle M et al. J Cell Sci 2019 May 31;132(11)

PMID:29352077 - Whole-Genome Sequencing of Suppressor DNA Mixtures Identifies Pathways That Compensate for Chromosome Segregation Defects in Schizosaccharomyces pombe .

Xu X et al. G3 (Bethesda) 2018 Mar 02;8(3):1031-1038

PMID:24713849 - Post-transcriptional regulation of meiotic genes by a nuclear RNA silencing complex.

Egan ED et al. RNA 2014 Jun;20(6):867-81

PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs

PMID:25658828 - Single site suppressors of a fission yeast temperature-sensitive mutant in cdc48 identified by whole genome sequencing.

Marinova IN et al. PLoS One 2015;10(2):e0117779

PMID:26167880 - SR protein kinases promote splicing of nonconsensus introns.

Lipp JJ et al. Nat Struct Mol Biol 2015 Aug;22(8):611-7

PMID:22540037 - Predicting the fission yeast protein interaction network.

Pancaldi V et al. G3 (Bethesda) 2012 Apr;2(4):453-67

PMID:20473289 - Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.

Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623

PMID:20838651 - A global census of fission yeast deubiquitinating enzyme localization and interaction networks reveals distinct compartmentalization profiles and overlapping functions in endocytosis and polarity.

Kouranti I et al. PLoS Biol 2010 Sep 07;8(9)

PMID:37694715 - A ubiquitin-proteasome pathway degrades the inner nuclear membrane protein Bqt4 to maintain nuclear membrane homeostasis.

Le TK et al. J Cell Sci 2023 Oct 01;136(19)

PMID:28218250 - Chromatin remodeller Fun30 Fft3 induces nucleosome disassembly to facilitate RNA polymerase II elongation.

Lee J et al. Nat Commun 2017 Feb 20;8:14527

PMID:22730331 - Dual recruitment of Cdc48 (p97)-Ufd1-Npl4 ubiquitin-selective segregase by small ubiquitin-like modifier protein (SUMO) and ubiquitin in SUMO-targeted ubiquitin ligase-mediated genome stability functions.

Nie M et al. J Biol Chem 2012 Aug 24;287(35):29610-9

PMID:14993272 - Lub1 participates in ubiquitin homeostasis and stress response via maintenance of cellular ubiquitin contents in fission yeast.

Ogiso Y et al. Mol Cell Biol 2004 Mar;24(6):2324-31

PMID:26537787 - Targeting of SUMO substrates to a Cdc48-Ufd1-Npl4 segregase and STUbL pathway in fission yeast.

Køhler JB et al. Nat Commun 2015 Nov 05;6:8827

PMID:33313903 - Ribosome profiling reveals ribosome stalling on tryptophan codons and ribosome queuing upon oxidative stress in fission yeast.

Rubio A et al. Nucleic Acids Res 2021 Jan 11;49(1):383-399

PMID:35320724 - Cdc48 influence on separase levels is independent of mitosis and suggests translational sensitivity of separase.

Vijayakumari D et al. Cell Rep 2022 Mar 22;38(12):110554

PMID:38526189 - Cdc48 and its co-factor Ufd1 extract CENP-A from centromeric chromatin and can induce chromosome elimination in the fission yeast Schizosaccharomyces pombe.

Nakase Y et al. Biol Open 2024 Mar 25;

PMID:23697806 - A genome-wide resource of cell cycle and cell shape genes of fission yeast.

Hayles J et al. Open Biol 2013 May 22;3(5):130053

PMID:16823372 - ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.

Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7

PMID:16537923 - Sterol regulatory element binding protein is a principal regulator of anaerobic gene expression in fission yeast.

Todd BL et al. Mol Cell Biol 2006 Apr;26(7):2817-31

GO_REF:0000111 - Gene Ontology annotations Inferred by Curator (IC) using at least one Inferred by Sequence Similarity (ISS) annotation to support the inference

PMID:20016281 - Int6 and Moe1 interact with Cdc48 to regulate ERAD and proper chromosome segregation.

Otero JH et al. Cell Cycle 2010 Jan 01;9(1):147-61

GO_REF:0000033 - Annotation inferences using phylogenetic trees

PMID:25002536 - A novel histone deacetylase complex in the control of transcription and genome stability.

Zilio N et al. Mol Cell Biol 2014 Sep 15;34(18):3500-14

GO_REF:0000002 - Comments

PMID:31563844 - The roles of fission yeast exonuclease 5 in nuclear and mitochondrial genome stability.

Sparks JL et al. DNA Repair (Amst) 2019 Nov;83:102720

PMID:23760507 - Subunit architecture of the Golgi Dsc E3 ligase required for sterol regulatory element-binding protein (SREBP) cleavage in fission yeast.

Lloyd SJ et al. J Biol Chem 2013 Jul 19;288(29):21043-21054

PMID:26152728 - A Two-step Protein Quality Control Pathway for a Misfolded DJ-1 Variant in Fission Yeast.

Mathiassen SG et al. J Biol Chem 2015 Aug 21;290(34):21141-21153

PMID:15120077 - The Ubx2 and Ubx3 cofactors direct Cdc48 activity to proteolytic and nonproteolytic ubiquitin-dependent processes.

Hartmann-Petersen R et al. Curr Biol 2004 May 04;14(9):824-8

PMID:25720772 - Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.

Kettenbach AN et al. Mol Cell Proteomics 2015 May;14(5):1275-87

PMID:34496258 - Transcription and chromatin-based surveillance mechanism controls suppression of cryptic antisense transcription.

Heo DH et al. Cell Rep 2021 Sep 07;36(10):109671

PMID:28821619 - Dsc E3 ligase localization to the Golgi requires the ATPase Cdc48 and cofactor Ufd1 for activation of sterol regulatory element-binding protein in fission yeast.

Burr R et al. J Biol Chem 2017 Sep 29;292(39):16333-16350

PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.

Strachan J et al. J Cell Sci 2023 Dec 01;136(23)

PMID:16904908 - Cdc48 is required for the stability of Cut1/separase in mitotic anaphase.

Ikai N et al. J Struct Biol 2006 Oct;156(1):50-61

PMID:24265825 - Concerted action of the ubiquitin-fusion degradation protein 1 (Ufd1) and Sumo-targeted ubiquitin ligases (STUbLs) in the DNA-damage response.

Køhler JB et al. PLoS One 2013;8(11):e80442

PMID:26412298 - A Degenerate Cohort of Yeast Membrane Trafficking DUBs Mediates Cell Polarity and Survival.

Beckley JR et al. Mol Cell Proteomics 2015 Dec;14(12):3132-41

PMID:28552615 - SUMO-Targeted DNA Translocase Rrp2 Protects the Genome from Top2-Induced DNA Damage.

Wei Y et al. Mol Cell 2017 Jun 01;66(5):581-596.e6

GO_REF:0000024 - Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.

PMID:24763107 - Absolute proteome and phosphoproteome dynamics during the cell cycle of Schizosaccharomyces pombe (Fission Yeast).

Carpy A et al. Mol Cell Proteomics 2014 Aug;13(8):1925-36

PMID:15507118 - An interactive gene network for securin-separase, condensin, cohesin, Dis1/Mtc1 and histones constructed by mass transformation.

Yuasa T et al. Genes Cells 2004 Nov;9(11):1069-82

PMID:21652630 - Characterization of Mug33 reveals complementary roles for actin cable-dependent transport and exocyst regulators in fission yeast exocytosis.

Snaith HA et al. J Cell Sci 2011 Jul 01;124(Pt 13):2187-99

PMID:22086920 - Yeast sterol regulatory element-binding protein (SREBP) cleavage requires Cdc48 and Dsc5, a ubiquitin regulatory X domain-containing subunit of the Golgi Dsc E3 ligase.

Stewart EV et al. J Biol Chem 2012 Jan 02;287(1):672-681