Protein Overview: UBX4

General Information:
Name(s) found:	UBX4 / YMR067C [SGD]
Description(s) found: SHOW ONLY BEST	gi\|763014\|emb\|CAA88792.1\| unknown [Saccharomyces cerevisiae] [NCBI NR] gi\|6323712\|ref\|NP_013783.1\| UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p; Ubx4p [Saccharomyces cerevisiae] [NCBI NR] gi\|1730608\|sp\|P54730.1\|UBX4_YEAST RecName: Full=UBX domain-containing protein 4 [NCBI NR] pir\|\|S52827 hypothetical protein YMR067c - yeast (Saccharomyces cerevisiae) [NCBI NR] (P54730) Hypothetical protein YMR067C [Swiss-Prot] UBX domain-containing protein 4 OS=Saccharomyces cerevisiae GN=UBX4 PE=1 SV=1 [Swiss-Prot] UBX4 UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p [mips] UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p [SGD] YMR067C, Chr XIII from 404322-405572, reverse complement [yeast_orfs2] Chr XIII from 404322-405572, reverse complement [yeastorf3.fasta] Chr XIII from 405572-404322, reverse complement [yeastorf5.fasta] UBX4 SGDID:S0004671, Chr XIII from 405572-404322, reverse complement, Uncharacterized ORF [yeastflysequest.fasta] UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p [Saccharomyces cerevisiae]gi\|763014\|emb\|CAA88792.1\| unknown [Saccharomyces cerevisiae]gi\|1730608\|sp\|P54730\|YMV7_YEAST Hypothetical protein YMR067Cgi\|1077996\|pir\|\|S52827 h [nrdb_11152004_Chlamydomonas] UBX4 SGDID:S000004671, Chr XIII from 405572-404322, reverse complement, Uncharacterized ORF, "UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p" [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] UBX4 SGDID:S000004671, Chr XIII from 405572-404322, reverse complement, Verified ORF, "UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p" [SGD_S-cerevisiae_na_08-19-2008_con_reversed.fasta] UBX domain-containing protein 4 [nr-271106-contam.fasta] unknown [Saccharomyces cerevisiae] [nr-271106-contam.fasta] UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p; Ubx4p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] [chemostatdb.fasta] UBX domain-containing protein 4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=UBX4 PE=1 SV=1 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] UBX4 SGDID:S000004671, Chr XIII from 405573-404323, Genome Release 64-1-1, reverse complement, Verified ORF, "UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p" [yeast-030211-contam.fasta] UBX4 SGDID:S000004671, Chr XIII from 405573-404323, Genome Release 64-2-1, reverse complement, Verified ORF, "UBX domain-containing protein that interacts with Cdc48p; involved in degradation of polyubiquitinated proteins via the ERAD (ER-associated degradation) pathway; modulates the Cdc48p-Nplp-Ufd1p AAA ATPase complex during its role in delivery of misfolded proteins to the proteasome; protein abundance increases in response to DNA replication stress" [20141208_orf_trans.fasta] YMR067C SGDID:S000004671, Chr XIII from 405573-404323, Genome Release 64-1-1, reverse complement, Verified ORF, "UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	416 amino acids
Gene Ontology:
Cellular Component:	nucleus [IDA ] cytoplasm [IDA]
Biological Process:	sporulation resulting in formation of a cellular spore [IMP] ubiquitin-dependent protein catabolic process [IMP]
Molecular Function:	molecular_function [ND]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPMVTVKYNF QLFKCKVSLN STLNDVLHQS IQFFQLHTSS NDWSLIHLDK PVPLDLPWRL  60
   61 LNLPTGVNLE LSKSSNFPVA NKTNREDIPF NTIKIRFQIP GRDSVVKEMP SDQPIAPILR 120
  121 QMSGAAGDDF KIQVFSKIIE FKTIKDENLT LENLGIQEPS SVRLIFNNTS HSEGISANSA 180
  181 IHPKQTPPTM TNPETVASLP PHELHKPSVF LPSDEPLAVI KDQIEDEEDY ELTVEQAKKY 240
  241 QKMLSSKAGT LGGPILTKRL REQSANNLPK KNKAISECLL RVKFPDRSHI QIAFKPNEDM 300
  301 RTVYNVVSQF LIDENMPFTL NQSHPFKPLA KDDKKLLDDL EFGSKTMLLF ETNSNSNGPL 360
  361 IKAHLLEDAQ KITHETRTTP SVNTINKSNP QGPSDNATSI KKTLNRVPKW MKLSKK

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Krogan NJ, et al. (2006)		BFA1 CDC48 DOA1 FBP1 MRM1 NDT80 NPL4 OTU1 RDS2 SHP1 TEM1 TUP1 UBX4 UBX5 UBX7 UFD1 UFD2 YDR049W YGL108C YJR098C YNL155W YOR342C

Mass Spectrometry Data

No mass spectrometry results found for this protein.

Yeast Two-Hybrid Data

The following interactions contain this protein:

SHOWING SINGLE HITS. [ Hide Single Hits ]

[View our yeast two-hybrid interpretation guidelines.]

	BAIT	PREY	HITS	PUBLICATION
View Screen	UBC6	UBX4	1	Unpublished Fields Lab Data

Microscopy / Localization Data

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	PROTEIN(S)	PUBLICATION
View Data	UBX4	Huh WK, et al. (2003)

Protein Structure Data

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[View Top Sequence Alignments] [Show Ginzu Version Information]

Domains predicted:

#		Region(s)	Method	Confidence	Match Description
1	View Details	[1..126]	deduced	N/A	No confident structure predictions are available.
2	View Details	[127..225]	MSA	3.117997	View MSA. No confident structure predictions are available.
3	View Details	[226..416]	PSI-BLAST	17.522879	p47

Functions predicted (by domain):

Gene Ontology predictions

Term	Confidence	Notes
binding	2.11588141989606	bayes_pls_golite062009
protein binding	1.75262085947538	bayes_pls_golite062009
small conjugating protein ligase activity	1.64626529520014	bayes_pls_golite062009
ubiquitin-protein ligase activity	1.03640529353043	bayes_pls_golite062009
acid-amino acid ligase activity	0.778769490362734	bayes_pls_golite062009
nucleic acid binding	0.406724367405638	bayes_pls_golite062009
hydrolase activity	0.266557627363523	bayes_pls_golite062009
DNA binding	0.102021710653816	bayes_pls_golite062009
transcription regulator activity	0.0672274772804511	bayes_pls_golite062009

No functions predicted.

Term	Confidence	Notes
binding	2.19381585790185	bayes_pls_golite062009
protein binding	1.89134588490127	bayes_pls_golite062009
small conjugating protein ligase activity	1.83465130904364	bayes_pls_golite062009
ubiquitin-protein ligase activity	1.16468510691469	bayes_pls_golite062009
acid-amino acid ligase activity	0.919595189902044	bayes_pls_golite062009
nucleic acid binding	0.383121378043805	bayes_pls_golite062009
hydrolase activity	0.247201449341942	bayes_pls_golite062009
DNA binding	0.0840213088061073	bayes_pls_golite062009
transcription regulator activity	0.0485636215870291	bayes_pls_golite062009

Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

Philius Transmembrane Prediction:

Protein predicted to be:	GLOBULAR (No transmembrane regions or signal peptide)
Confidence of classification:	0.99

Source: Reynolds et al. (2008)

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2