UFD1/YGR048W Single Page Format

This page provides an alternative format to the SGD Locus Summary Page. Note that additional information may be available on or linked from the standard format SGD Locus Summary page.

Contents
Names and Identifiers

GO Annotations

Pathways

Summary Paragraph

Mutant Phenotypes

Interactions

Homologs

Protein Info (physical properties, transcript info)

PDB Homologs (protein structure info)

Motifs

Genome-wide Expression
(and other large-scale analyses)

Locus History (misc. notes)

Sequence Retrieval and Analysis

Map and Displays

Localization

Community Annotation

Literature Guide

Sequence Coordinates

ChrVII: 589830 to 590915
CDS: 589830 - 590915

Click on map for expanded view

SGD ORF map GBrowse
SGD Locus Page

Names and Identifiers [TOP] [NEXT]
Standard Name Systematic Name Alias Feature Type SGDID

UFD1 YGR048W ORF, Verified S000003280

Description
Protein that interacts with Cdc48p and Npl4p, involved in recognition of polyubiquitinated proteins and their presentation to the 26S proteasome for degradation; involved in transporting proteins from the ER to the cytosol

GO Annotations [TOP] [NEXT]
Molecular Function
Annotation(s) Reference(s) Evidence Assigned By
protein binding Bays NW and Hampton RY (2002) Cdc48-Ufd1-Npl4: stuck in the middle with Ub. Curr Biol 12(10):R366-71
         TAS : Traceable Author Statement
Assigned on 2003-02-22 SGD
Biological Process
Annotation(s) Reference(s) Evidence Assigned By
cell death Huttenhower C and Troyanskaya OG (2009) Prediction of Gene Ontology annotations by integrating high-throughput datasets
   RCA : Reviewed Computational Analysis
Assigned on 2009-08-06 bioPIXIE_MEFIT
modification-dependent protein catabolic process GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping.
     IEA : Inferred from Electronic Annotation with EBI:KW-0833
Assigned on 2009-03-04 UniProtKB
protein transport Ye Y, et al. (2001) The AAA ATPase Cdc48/p97 and its partners transport proteins from the ER into the cytosol. Nature 414(6864):652-6
       IDA : Inferred from Direct Assay
Assigned on 2002-09-06 SGD
proteolysis Huttenhower C and Troyanskaya OG (2009) Prediction of Gene Ontology annotations by integrating high-throughput datasets
   RCA : Reviewed Computational Analysis
Assigned on 2009-08-06 bioPIXIE_MEFIT
response to water Huttenhower C and Troyanskaya OG (2009) Prediction of Gene Ontology annotations by integrating high-throughput datasets
   RCA : Reviewed Computational Analysis
Assigned on 2009-08-06 bioPIXIE_MEFIT
ubiquitin-dependent protein catabolic process Bays NW and Hampton RY (2002) Cdc48-Ufd1-Npl4: stuck in the middle with Ub. Curr Biol 12(10):R366-71
         TAS : Traceable Author Statement
Assigned on 2003-02-22 SGD
DDB, et al. (2001) Gene Ontology annotation through association of InterPro records with GO terms.
     IEA : Inferred from Electronic Annotation with EBI:IPR004854
Assigned on 2009-03-04 UniProtKB
Cellular Component
Annotation(s) Reference(s) Evidence Assigned By
Cdc48p-Npl4p-Ufd1p AAA ATPase complex Schuberth C and Buchberger A (2005) Membrane-bound Ubx2 recruits Cdc48 to ubiquitin ligases and their substrates to ensure efficient ER-associated protein degradation. Nat Cell Biol 7(10):999-1006
       IDA : Inferred from Direct Assay
Assigned on 2008-02-06 SGD
endoplasmic reticulum Ye Y, et al. (2001) The AAA ATPase Cdc48/p97 and its partners transport proteins from the ER into the cytosol. Nature 414(6864):652-6
       IDA : Inferred from Direct Assay
Assigned on 2002-09-06 SGD

Pathways [TOP] [NEXT]
No pathways available

Summary Paragraph [TOP] [NEXT]
No summary paragraph available

Basic References [TOP]
BASIC INFORMATION REFERENCES forUFD1/YGR048W for UFD1
1) Ye Y, et al. (2001) The AAA ATPase Cdc48/p97 and its partners transport proteins from the ER into the cytosol. Nature 414(6864):652-6

2) Braun S, et al. (2002) Role of the ubiquitin-selective CDC48(UFD1/NPL4 )chaperone (segregase) in ERAD of OLE1 and other substrates. EMBO J 21(4):615-21

3) Bays NW and Hampton RY (2002) Cdc48-Ufd1-Npl4: stuck in the middle with Ub. Curr Biol 12(10):R366-71

Mutant Phenotypes [TOP] [NEXT]
Phenotype page for UFD1/YGR048W

Interactions: genetic, physical, and other gene-gene links. [TOP] [NEXT]
Interaction page for UFD1/YGR048W

Homologs [TOP] [NEXT]

Comparison Resources

Physical Properties and Transcript Information: predicted from sequence [TOP] [NEXT]
Protein Sequence Calculations
from Predicted Full length Translation

N-term MFSGFSS

C-term PEVIEID

Length(aa) 361

MW(Da) 39,810

pI 6.05

Amino Acid Composition (full length)

GCG tools: PepPlot, Helical Wheel, PepStruct

Transcript Translation Calculations

Codon Bias 0.045

Codon Adaptation Index 0.125

Frequency of Optimal Codons 0.433

Hydropathicity of Protein -0.410

Aromaticity Score 0.086

10 20 30 40 50 | | | | | MFSGFSSFGGGNGFVNMPQTFEEFFRCYPIAMMNDRIRKDDANFGGKIFL PPSALSKLSMLNIRYPMLFKLTANETGRVTHGGVLEFIAEEGRVYLPQWM METLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISDPKAVLENVLRN FSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPPV GYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLGQGSMSTRIDYAGIANS SRNKLSKFVGQGQNISGKAPKAEPKQDIKDMKITFDGEPAKLDLPEGQLF FGFPMVLPKEDEESAAGSKSSEQNFQGQGISLRKSNKRKTKSDHDSSKSK APKSPEVIEID*

Protein Structures from PDB: proteins of known structure with sequence similarity to UFD1/YGR048W, based on Smith-Waterman analysis. [TOP] [NEXT]
PDB protein structure(s) homologous to UFD1 Homolog Source (per PDB) Protein Alignment: UFD1 vs. Homolog External Links
P-Value %Identical %Similar Alignment
1zc1 ( Chain: A)
Ufd1 exhibits the aaa-atpase fold with two distinct ubiquitin interaction sites
PDB_Info
PDB_Structure
Saccharomyces cerevisiae 1.4e-88 100 0 View alignment SCOP
MMDB
CATH
2yuj ( Chain: A)
Solution structure of human ubiquitin fusion degradation protein 1 homolog ufd1
PDB_Info
PDB_Structure
Homo sapiens 3.3e-36 48 32 View alignment SCOP
MMDB
CATH

Genome-wide Expression and Other Large-Scale Analyses [TOP] [NEXT]

Functional Analysis
You can also search multiple datasets simultaneously using Expression Connection for expression studies or Function Junction for other large scale analyses.

Locus History (misc. notes) [TOP] [NEXT]
Nomenclature History
Standard Name Reference
UFD1 SGD (2007) Information without a citation in SGD

Mapping Notes
Date Note
1997-10-20 Edition 14: UFD1 has also been called PIP3, not to be confused with MEC3 which has also been called PIP3
Cherry JM, et al. (1997) Genetic and physical maps of Saccharomyces cerevisiae. Nature 387(6632 Suppl):67-73

Standard Name	Reference
UFD1	SGD (2007) Information without a citation in SGD

Date	Note
1997-10-20	Edition 14: UFD1 has also been called PIP3, not to be confused with MEC3 which has also been called PIP3 *Cherry JM, et al.* (1997)** Genetic and physical maps of Saccharomyces cerevisiae. Nature 387(6632 Suppl):67-73

Sequence Retrieval [TOP] [NEXT]
Sequence Type Output Format

Genomic DNA GCG | FASTA | NoHeader

Genomic DNA with 1 kb up and downstream GCG | FASTA | NoHeader

DNA coding sequence
(without introns, without flanking regions) GCG | FASTA | NoHeader

Protein Translation of ORF GCG | FASTA | NoHeader

6-Frame Translation(with Restriction Map) GCG

Restriction Fragment Sizes GCG

Sequence Analysis Tools
Sequence from other databases

Sequence ID Source

YGR048W SGD Systematic Sequence

852939 NCBI: Gene ID

NP_011562.1 NCBI: RefSeq protein version ID

NP_011562.1 NCBI: RefSeq protein version ID

6321485 NCBI: NCBI protein GI

Sequence from other databases
Sequence ID	Source
YGR048W	SGD Systematic Sequence
852939	NCBI: Gene ID
NP_011562.1	NCBI: RefSeq protein version ID
NP_011562.1	NCBI: RefSeq protein version ID
6321485	NCBI: NCBI protein GI

Map and Displays [TOP] [NEXT]
Physical, Genetic Maps: Chromosomal Feature Map GBrowse Combined Physical and Genetic Map Genetic Distance vs. Physical Distance Ratios
Similarity Viewers: Synteny Viewer Genomic Stripe View SAGE Results Map

Localization [TOP] [NEXT]

Localization Resources

Community Annotation [TOP] [NEXT]
No community annotation available.

Literature Guide: papers categorized by topic. [TOP]
Topics Reference Other Genes Addressed
59 curated references; 0 references not yet curated
Function/Process
Regulatory Role
Strains/Constructs
Bhattacharya S, et al. (2009) Identification of lysines within membrane-anchored Mga2p120 that are targets of Rsp5p ubiquitination and mediate mobilization of tethered Mga2p90. J Mol Biol 385(3):718-25
       |CDC48 |MGA2 |NPL4 |OLE1 |RSP5 |SPT23
Genetic Interactions
Mutants/Phenotypes
Strains/Constructs
Bosis E, et al. (2009) Ssz1 Restores ERAD in Cells Expressing Defective Cdc48-Ufd1-Npl4 Complex by Upregulating Cdc48. Genetics
     |CDC48 |HMG2 |HRD1 |NPL4 |PDR1 |RPN4 |RPT1 |SSZ1
RNA Levels and Processing
Metzger MB and Michaelis S (2009) Analysis of quality control substrates in distinct cellular compartments reveals a unique role for Rpn4p in tolerating misfolded membrane proteins. Mol Biol Cell 20(3):1006-19
       |ADE17 |ALF1 |CCT3 |CIK1 |DGK1 |ECM29 |GET3 |HAC1 |HRD1 |IDH1 |ITR1 |KAR2 |MAG1 |MIA40 |MORE
Genetic Interactions
Mutants/Phenotypes
Strains/Constructs
Morgan J, et al. (2009) Altering sphingolipid metabolism in Saccharomyces cerevisiae cells lacking the amphiphysin ortholog Rvs161 reinitiates sugar transporter endocytosis. Eukaryot Cell 8(5):779-89
       |CDC48 |DOA1 |DOA4 |GAL2 |HXT1 |HXT2 |HXT3 |HXT4 |MAL61 |RSP5 |RVS161 |SHP1 |SUC2 |SUR4
Non-Fungal Related Genes/Proteins
Spork S, et al. (2009) An unusual ERAD-like complex is targeted to the apicoplast of Plasmodium falciparum. Eukaryot Cell 8(8):1134-45
       |CDC48 |DER1 |HRD1 |HRD3 |NPL4 |RPL40A |RPL40B |RPS31 |UBA1 |UBA2 |UBC4 |UBI4
Function/Process
Mutants/Phenotypes
Strains/Constructs
Wang Y, et al. (2009) Abnormal proteins can form aggresome in yeast: aggresome-targeting signals and components of the machinery. FASEB J 23(2):451-63
       |ADH1 |ATP2 |BMH1 |CDC48 |DSK2 |ENO2 |FBA1 |HSP42 |HSP60 |HSP82 |ILV5 |IPP1 |MDR1 |NOG2 |MORE
Mutants/Phenotypes
Strains/Constructs
Breslow DK, et al. (2008) A comprehensive strategy enabling high-resolution functional analysis of the yeast genome. Nat Methods 5(8):711-8
       |AAR2 |ABD1 |ABF1 |ACC1 |ACP1 |ADE13 |AFG2 |ALA1 |ALG1 |ALG13 |ALG14 |ALG2 |ALG7 |ALR1 |MORE
Cellular Location
Mutants/Phenotypes
Non-Fungal Related Genes/Proteins
Strains/Constructs
Duennwald ML and Lindquist S (2008) Impaired ERAD and ER stress are early and specific events in polyglutamine toxicity. Genes Dev 22(23):3308-3319
       |CDC48 |CUE1 |HAC1 |IRE1 |NPL4 |OLE1 |PMR1 |PRC1 |PRE1 |PRE2 |PRE9 |RAD6 |RPN2 |SEC22 |MORE
Protein-protein Interactions
Goder V, et al. (2008) The ER-associated degradation component Der1p and its homolog Dfm1p are contained in complexes with distinct cofactors of the ATPase Cdc48p. FEBS Lett 582(11):1575-80
       |CDC48 |DER1 |DFM1 |HRD1 |HRD3 |KAR2 |NPL4 |SHP1 |UBX2 |UBX7 |USA1 |YOS9
Function/Process
Mutants/Phenotypes
Strains/Constructs
Kohlmann S, et al. (2008) Ubiquitin Ligase Hul5 Is Required for Fragment-specific Substrate Degradation in Endoplasmic Reticulum-associated Degradation. J Biol Chem 283(24):16374-83
       |CDC48 |HRD1 |HUL5
Mutants/Phenotypes
Strains/Constructs
Medicherla B and Goldberg AL (2008) Heat shock and oxygen radicals stimulate ubiquitin-dependent degradation mainly of newly synthesized proteins. J Cell Biol 182(4):663-73
       |CDC48 |NPL4 |RPN10 |SOD1 |SOD2 |UBC4 |UBC5 |UBC7 |UFD4
Protein-protein Interactions
Meednu N, et al. (2008) The Spindle Positioning Protein Kar9p Interacts With the Sumoylation Machinery in Saccharomyces cerevisiae. Genetics 180(4):2033-55
       |BIK1 |BIM1 |CST9 |DYN1 |KAR9 |MYO2 |NFI1 |NIS1 |SIZ1 |SMT3 |STU2 |UBC9 |ULS1 |WSS1
Function/Process
Mutants/Phenotypes
Substrates/Ligands/Cofactors
Metzger MB, et al. (2008) Degradation of a Cytosolic Protein Requires Endoplasmic Reticulum-associated Degradation Machinery. J Biol Chem 283(47):32302-16
       |CDC48 |CUE1 |HLJ1 |NPL4 |SSA1 |SSM4 |UBC4 |UBC5 |UBC6 |UBC7 |URA3 |YDJ1
RNA Levels and Processing
Trott A, et al. (2008) Activation of Heat Shock and Antioxidant Responses by the Natural Product Celastrol: Transcriptional Signatures of a Thiol-targeted Molecule. Mol Biol Cell 19(3):1104-12
       |AAD14 |AAD15 |AAD16 |AAD3 |AAD4 |AAD6 |ADH5 |ADH6 |AHP1 |ALD3 |ALD4 |ALD6 |ARI1 |ATR1 |MORE
Genetic Interactions
Mutants/Phenotypes
Strains/Constructs
Braun S and Jentsch S (2007) SM-protein-controlled ER-associated degradation discriminates between different SNAREs. EMBO Rep 8(12):1176-82
       |CDC48 |SED5 |SLY1 |UBC6 |UBC7 |UFE1
Protein-protein Interactions
Regulation of
Strains/Constructs
Shcherbik N and Haines DS (2007) Cdc48p(Npl4p/Ufd1p) binds and segregates membrane-anchored/tethered complexes via a polyubiquitin signal present on the anchors. Mol Cell 25(3):385-97
         |CDC48 |MGA2 |NPL4 |RSP5 |SPT23
Other Features
Regulation of
Transcription
Auld KL, et al. (2006) The Conserved ATPase Get3/Arr4 Modulates the Activity of Membrane-Associated Proteins in Saccharomyces cerevisiae. Genetics 174(1):215-27
         |CDC48 |GET1 |GET2 |GET3 |NPL4
Mutants/Phenotypes
Heiligenstein S, et al. (2006) Retrotranslocation of a viral A/B toxin from the yeast endoplasmic reticulum is independent of ubiquitination and ERAD. EMBO J 25(20):4717-27
       |CDC48 |DSK2 |HRD1 |JEM1 |KAR2 |NPL4 |PDI1 |PMR1 |RAD23 |RSP5 |SCJ1 |SPF1 |UBC1 |UBC4 |MORE
Function/Process
Mutants/Phenotypes
Strains/Constructs
Liao M, et al. (2006) Endoplasmic reticulum-associated degradation of cytochrome P450 CYP3A4 in Saccharomyces cerevisiae: further characterization of cellular participants and structural determinants. Mol Pharmacol 69(6):1897-904
       |CDC48 |CUE1 |HRD1 |HRD3 |NPL4 |PEP4 |RPN1 |RSP5 |SSM4 |UBC6 |UBC7
Protein Processing/Modification/Regulation
Mirzaei H and Regnier F (2006) Enrichment of carbonylated peptides using Girard P reagent and strong cation exchange chromatography. Anal Chem 78(3):770-8
       |ALA1 |ATP1 |AVL9 |AVO1 |AYT1 |CAF16 |CBS2 |CCT3 |CHO1 |CIN8 |DOA4 |ERV1 |GCN5 |HSH49 |MORE
Reviews
Pety de Thozee C and Ghislain M (2006) ER-associated degradation of membrane proteins in yeast. ScientificWorldJournal 6:967-83
       |CDC48 |NPL4 |SAR1
Mutants/Phenotypes
Ravid T, et al. (2006) Membrane and soluble substrates of the Doa10 ubiquitin ligase are degraded by distinct pathways. EMBO J 25(3):533-43
       |CBF2 |CDC48 |CUE1 |MATALPHA2 |MPS2 |NPL4 |QRI1 |SSM4 |UBC6
Non-Fungal Related Genes/Proteins
Reviews
Romisch K (2006) Cdc48p is UBX-linked to ER ubiquitin ligases. Trends Biochem Sci 31(1):24-5
       |CDC48 |DER1 |HRD1 |NPL4 |UBX2
Reviews
Sobko A (2006) Systems biology of AGC kinases in fungi. Sci STKE 2006(352):re9
       |CDC48 |HSF1 |HSP82 |HTB1 |PAB1 |PDC2 |PKH1 |PKH2 |SCH9 |SHP1 |SSE1 |SUP35 |YPK1 |YPK2
Function/Process
Mutants/Phenotypes
Strains/Constructs
Altmann K and Westermann B (2005) Role of essential genes in mitochondrial morphogenesis in Saccharomyces cerevisiae. Mol Biol Cell 16(11):5410-7
           |ARC35 |ARC40 |ARP2 |BFR2 |CCT4 |CCT6 |CDC34 |CDC53 |COF1 |DSL1 |ERG1 |ERG10 |ERG12 |ERG13 |MORE
Reviews
Bazirgan OA and Hampton RY (2005) Cdc48-Ufd2-Rad23: the road less ubiquitinated? Nat Cell Biol 7(3):207-9
       |CDC48 |DSK2 |NPL4 |RAD23 |UFD2
Reviews
Lord JM, et al. (2005) Quality control: another player joins the ERAD cast. Curr Biol 15(23):R963-4
       |CDC48 |DER1 |HRD1 |NPL4 |SSM4 |UBX2
Function/Process
Protein Sequence Features
Protein-protein Interactions
Protein/Nucleic Acid Structure
Strains/Constructs
Park S, et al. (2005) Ufd1 exhibits the AAA-ATPase fold with two distinct ubiquitin interaction sites. Structure 13(7):995-1005
       |UBI4
Function/Process
Mutants/Phenotypes
Protein Sequence Features
Protein-protein Interactions
Strains/Constructs
Richly H, et al. (2005) A series of ubiquitin binding factors connects CDC48/p97 to substrate multiubiquitylation and proteasomal targeting. Cell 120(1):73-84
           |CDC48 |DSK2 |NPL4 |RAD23 |RPN10 |SPT23 |UFD2
Cellular Location
Mutants/Phenotypes
Protein-protein Interactions
Strains/Constructs
Schuberth C and Buchberger A (2005) Membrane-bound Ubx2 recruits Cdc48 to ubiquitin ligases and their substrates to ensure efficient ER-associated protein degradation. Nat Cell Biol 7(10):999-1006
       |CDC48 |HRD1 |SSM4 |UBX2
Protein-protein Interactions
Archambault V, et al. (2004) Targeted proteomic study of the cyclin-Cdk module. Mol Cell 14(6):699-711
             |ACE2 |ACM1 |BEM3 |BIK1 |BMH2 |BUD3 |CBK1 |CDC25 |CDC28 |CDC4 |CDC48 |CDC53 |CDC6 |CDH1 |MORE
Reviews
Cao K and Zheng Y (2004) The Cdc48/p97-Ufd1-Npl4 complex: its potential role in coordinating cellular morphogenesis during the M-G1 transition. Cell Cycle 3(4):422-4
       |CDC48 |NPL4
Reviews
Cheeseman IM and Desai A (2004) Cell division: AAAtacking the mitotic spindle. Curr Biol 14(2):R70-2
     |ASE1 |CDC48 |NPL4
Function/Process
Strains/Constructs
Decottignies A, et al. (2004) Binding of Cdc48p to a ubiquitin-related UBX domain from novel yeast proteins involved in intracellular proteolysis and sporulation. Yeast 21(2):127-39
       |CDC48 |DOA1 |UBX4 |UBX6 |UBX7
Function/Process
Gnann A, et al. (2004) Cystic fibrosis transmembrane conductance regulator degradation depends on the lectins Htm1p/EDEM and the Cdc48 protein complex in yeast. Mol Biol Cell 15(9):4125-35
       |CDC48 |HRD1 |MNL1 |NPL4 |SSM4
Protein-protein Interactions
Mangus DA, et al. (2004) Identification of factors regulating poly(A) tail synthesis and maturation. Mol Cell Biol 24(10):4196-206
       |DIG1 |FIR1 |PAB1 |PAN2 |PAN3 |PBP1 |PBP2 |PBP4 |REF2
Function/Process
Genetic Interactions
Mutants/Phenotypes
Protein-protein Interactions
Strains/Constructs
Medicherla B, et al. (2004) A genomic screen identifies Dsk2p and Rad23p as essential components of ER-associated degradation. EMBO Rep 5(7):692-7
       |CDC48 |DSK2 |NPL4 |RAD23
Regulation of
Transcription
Schade B, et al. (2004) Cold adaptation in budding yeast. Mol Biol Cell 15(12):5492-502
             |DBP2 |DED1 |GLC3 |GLK1 |GPD1 |GPH1 |GPX1 |GTT2 |HAP5 |HRP1 |HSP10 |HSP104 |HSP12 |HSP26 |MORE
Function/Process
Genetic Interactions
Mutants/Phenotypes
Strains/Constructs
Schuberth C, et al. (2004) Shp1 and Ubx2 are adaptors of Cdc48 involved in ubiquitin-dependent protein degradation. EMBO Rep 5(8):818-24
       |CDC48 |NPL4 |RPN10 |SHP1 |UBX2 |UBX3 |UBX4 |UBX5 |UBX6 |UBX7
Non-Fungal Related Genes/Proteins
Cao K, et al. (2003) The AAA-ATPase Cdc48/p97 regulates spindle disassembly at the end of mitosis. Cell 115(3):355-67
       |ASE1 |CDC48 |CDC5 |CLB2 |NPL4
Fungal Related Genes/Proteins
Naula N, et al. (2003) Cordycepin in Schizosaccharomyces pombe: effects on the wild type and phenotypes of mutants resistant to the drug. Curr Genet 43(6):400-6

Reviews
Schnell JD and Hicke L (2003) Non-traditional functions of ubiquitin and ubiquitin-binding proteins. J Biol Chem 278(38):35857-60
       |CDC48 |CUE1 |MMS2 |NPL4 |RPN10 |RSP5 |STP2 |UBI4
Function/Process
Mutants/Phenotypes
Strains/Constructs
Substrates/Ligands/Cofactors
Taxis C, et al. (2003) Use of modular substrates demonstrates mechanistic diversity and reveals differences in chaperone requirement of ERAD. J Biol Chem 278(38):35903-13
     |CDC48 |CWC23 |DER1 |HLJ1 |HRD1 |HRD3 |HSP104 |JID1 |KAR2 |NPL4 |SSA1 |SSA2 |SSA3 |SSA4 |MORE
Non-Fungal Related Genes/Proteins
Reviews
Woodman PG (2003) p97, a protein coping with multiple identities. J Cell Sci 116(Pt 21):4283-90
       |CDC48 |NPL4 |VPS4
Function/Process
Non-Fungal Related Genes/Proteins
Protein-protein Interactions
Protein/Nucleic Acid Structure
Strains/Constructs
Substrates/Ligands/Cofactors
Ye Y, et al. (2003) Function of the p97-Ufd1-Npl4 complex in retrotranslocation from the ER to the cytosol: dual recognition of nonubiquitinated polypeptide segments and polyubiquitin chains. J Cell Biol 162(1):71-84
     |CDC48 |NPL4
Function/Process
Protein-protein Interactions
Reviews
Substrates/Ligands/Cofactors
Bays NW and Hampton RY (2002) Cdc48-Ufd1-Npl4: stuck in the middle with Ub. Curr Biol 12(10):R366-71
         |CDC48 |NPL4
Function/Process
Protein-protein Interactions
Substrates/Ligands/Cofactors
Braun S, et al. (2002) Role of the ubiquitin-selective CDC48(UFD1/NPL4 )chaperone (segregase) in ERAD of OLE1 and other substrates. EMBO J 21(4):615-21
       |CDC48 |NPL4 |OLE1
Cellular Location
Function/Process
Protein-protein Interactions
Substrates/Ligands/Cofactors
Bays NW, et al. (2001) HRD4/NPL4 is required for the proteasomal processing of ubiquitinated ER proteins. Mol Biol Cell 12(12):4114-28
       |CDC48 |NPL4
Function/Process
Non-Fungal Related Genes/Proteins
Botta A, et al. (2001) Cloning and characterization of the gene encoding human NPL4, a protein interacting with the ubiquitin fusion-degradation protein (UFD1L). Gene 275(1):39-46
         |NPL4
Cellular Location
Function/Process
Protein-protein Interactions
Hetzer M, et al. (2001) Distinct AAA-ATPase p97 complexes function in discrete steps of nuclear assembly. Nat Cell Biol 3(12):1086-91
       |NPL4
Cellular Location
Function/Process
Mutants/Phenotypes
Protein-protein Interactions
Regulatory Role
Strains/Constructs
Substrates/Ligands/Cofactors
Hitchcock AL, et al. (2001) The conserved npl4 protein complex mediates proteasome-dependent membrane-bound transcription factor activation. Mol Biol Cell 12(10):3226-41
       |CDC48 |MGA2 |NPL4 |OLE1 |SPT23
Cellular Location
Function/Process
Protein-protein Interactions
Strains/Constructs
Substrates/Ligands/Cofactors
Rape M, et al. (2001) Mobilization of processed, membrane-tethered SPT23 transcription factor by CDC48(UFD1/NPL4), a ubiquitin-selective chaperone. Cell 107(5):667-77
           |CDC48 |NPL4 |OLE1 |SPT23
Disease Gene Related
Non-Fungal Related Genes/Proteins
Ratti A, et al. (2001) Cloning and molecular characterization of three ubiquitin fusion degradation 1 (Ufd1) ortholog genes from Xenopus laevis, Gallus gallus and Drosophila melanogaster. Cytogenet Cell Genet 92(3-4):279-82

Cellular Location
Function/Process
Protein-protein Interactions
Substrates/Ligands/Cofactors
Ye Y, et al. (2001) The AAA ATPase Cdc48/p97 and its partners transport proteins from the ER into the cytosol. Nature 414(6864):652-6
       |CDC48 |NPL4
Function/Process
Genetic Interactions
Mutants/Phenotypes
Strains/Constructs
Hoppe T, et al. (2000) Activation of a membrane-bound transcription factor by regulated ubiquitin/proteasome-dependent processing. Cell 102(5):577-86
       |CDC48 |MGA2 |NPL4 |OLE1 |RSP5 |SPT23
Mutants/Phenotypes
Strains/Constructs
Entian KD, et al. (1999) Functional analysis of 150 deletion mutants in Saccharomyces cerevisiae by a systematic approach. Mol Gen Genet 262(4-5):683-702
     |ABM1 |AIM3 |ALT1 |AMN1 |APD1 |APL2 |AVT3 |BIO3 |BIO4 |BIO5 |BNA3 |BUD4 |CFD1 |CHA4 |MORE
Function/Process
Mutants/Phenotypes
Strains/Constructs
Hammerle M, et al. (1998) Proteins of newly isolated mutants and the amino-terminal proline are essential for ubiquitin-proteasome-catalyzed catabolite degradation of fructose-1,6-bisphosphatase of Saccharomyces cerevisiae. J Biol Chem 273(39):25000-5
       |DOA1 |FBP1 |ICL1 |MDH2 |PCK1 |RMD5 |RPN4 |UBC8 |UFD2 |UFD4 |VID30
Function/Process
Mutants/Phenotypes
Protein-protein Interactions
del Olmo M, et al. (1997) The Uba2 and Ufd1 proteins of Saccharomyces cerevisiae interact with poly(A) polymerase and affect the polyadenylation activity of cell extracts. Mol Gen Genet 255(2):209-18
     |PAP1 |UBA2
DNA/RNA Sequence Features
Function/Process
Fungal Related Genes/Proteins
Protein Sequence Features
Strains/Constructs
Johnson ES, et al. (1995) A proteolytic pathway that recognizes ubiquitin as a degradation signal. J Biol Chem 270(29):17442-56
       |DOA1 |RPN4 |SEC63 |UFD2 |UFD4

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