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Protein

UBX domain-containing protein 6

Gene

UBXN6

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Acts in a complex with VCP and cooperates with USP7 in promoting MDM2 deubiquitination and stabilization. MDM2 stabilization leads to MDM2-dependent TP53 degradation.1 Publication

Keywords - Biological processi

Ubl conjugation pathway

Names & Taxonomyi

Protein namesi
Recommended name:
UBX domain-containing protein 6
Alternative name(s):
UBX domain-containing protein 1
Gene namesi
Name:UBXN6
Synonyms:UBXD1, UBXDC2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:14928. UBXN6.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: UniProtKB-SubCell
  • extracellular exosome Source: UniProtKB
  • microtubule organizing center Source: UniProtKB-SubCell
  • nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Cytoskeleton, Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA162408446.

Polymorphism and mutation databases

BioMutaiUBXN6.
DMDMi30913412.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 441441UBX domain-containing protein 6PRO_0000211025Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei96 – 961PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ9BZV1.
MaxQBiQ9BZV1.
PaxDbiQ9BZV1.
PRIDEiQ9BZV1.

PTM databases

iPTMnetiQ9BZV1.
PhosphoSiteiQ9BZV1.

Expressioni

Tissue specificityi

Enhanced expression in testis.

Gene expression databases

BgeeiQ9BZV1.
CleanExiHS_UBXN6.
ExpressionAtlasiQ9BZV1. baseline and differential.
GenevisibleiQ9BZV1. HS.

Organism-specific databases

HPAiHPA040906.
HPA041313.

Interactioni

Subunit structurei

Interacts with VCP through the PUB domain (via C-terminus) and VIM motif (via N-terminus). Interacts with SYVN1, HERPUD1, MDM2 and USP7. Interacts with VCPKMT.4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
MAGEA4Q1RN333EBI-1993899,EBI-10194128
TRIM39Q9HCM93EBI-1993899,EBI-739510
VCPP550727EBI-1993899,EBI-355164

Protein-protein interaction databases

BioGridi123263. 46 interactions.
IntActiQ9BZV1. 10 interactions.
MINTiMINT-3064689.
STRINGi9606.ENSP00000301281.

Structurei

3D structure databases

ProteinModelPortaliQ9BZV1.
SMRiQ9BZV1. Positions 330-414.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini175 – 24470PUBAdd
BLAST
Domaini332 – 40877UBXPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni51 – 6313VCP/p97-interacting motif (VIM)1 PublicationAdd
BLAST

Domaini

The UBX domain lacks key residues critical for VCP binding.1 Publication

Sequence similaritiesi

Contains 1 PUB (PUG) domain.Curated
Contains 1 UBX domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG2699. Eukaryota.
ENOG410XQQK. LUCA.
GeneTreeiENSGT00840000129867.
HOGENOMiHOG000043787.
HOVERGENiHBG061370.
InParanoidiQ9BZV1.
KOiK14011.
OMAiCKIRMSN.
PhylomeDBiQ9BZV1.
TreeFamiTF314617.

Family and domain databases

InterProiIPR018997. PUB_domain.
IPR029071. Ubiquitin-rel_dom.
IPR001012. UBX_dom.
[Graphical view]
PfamiPF09409. PUB. 1 hit.
PF00789. UBX. 1 hit.
[Graphical view]
SMARTiSM00580. PUG. 1 hit.
SM00166. UBX. 1 hit.
[Graphical view]
SUPFAMiSSF143503. SSF143503. 1 hit.
SSF54236. SSF54236. 1 hit.
PROSITEiPS50033. UBX. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9BZV1-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MKKFFQEFKA DIKFKSAGPG QKLKESVGEK AHKEKPNQPA PRPPRQGPTN
60 70 80 90 100
EAQMAAAAAL ARLEQKQSRA WGPTSQDTIR NQVRKELQAE ATVSGSPEAP
110 120 130 140 150
GTNVVSEPRE EGSAHLAVPG VYFTCPLTGA TLRKDQRDAC IKEAILLHFS
160 170 180 190 200
TDPVAASIMK IYTFNKDQDR VKLGVDTIAK YLDNIHLHPE EEKYRKIKLQ
210 220 230 240 250
NKVFQERINC LEGTHEFFEA IGFQKVLLPA QDQEDPEEFY VLSETTLAQP
260 270 280 290 300
QSLERHKEQL LAAEPVRAKL DRQRRVFQPS PLASQFELPG DFFNLTAEEI
310 320 330 340 350
KREQRLRSEA VERLSVLRTK AMREKEEQRG LRKYNYTLLR VRLPDGCLLQ
360 370 380 390 400
GTFYARERLG AVYGFVREAL QSDWLPFELL ASGGQKLSED ENLALNECGL
410 420 430 440
VPSALLTFSW DMAVLEDIKA AGAEPDSILK PELLSAIEKL L
Length:441
Mass (Da):49,754
Last modified:June 1, 2001 - v1
Checksum:iFC06E6ADA1A1036C
GO
Isoform 2 (identifier: Q9BZV1-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-53: Missing.

Show »
Length:388
Mass (Da):43,809
Checksum:i072249F3D9C6FAD8
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti31 – 311A → T.
Corresponds to variant rs1127888 [ dbSNP | Ensembl ].
VAR_061924
Natural varianti425 – 4251P → L.
Corresponds to variant rs35436704 [ dbSNP | Ensembl ].
VAR_047821

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 5353Missing in isoform 2. 2 PublicationsVSP_007453Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF272893 mRNA. Translation: AAK13257.1.
AF272894 mRNA. Translation: AAK13258.1.
CH471139 Genomic DNA. Translation: EAW69219.1.
CH471139 Genomic DNA. Translation: EAW69222.1.
BC007414 mRNA. Translation: AAH07414.2.
BC008288 mRNA. Translation: AAH08288.1.
BC017113 mRNA. Translation: AAH17113.1.
CCDSiCCDS12129.1. [Q9BZV1-1]
CCDS54201.1. [Q9BZV1-2]
RefSeqiNP_001164562.1. NM_001171091.1. [Q9BZV1-2]
NP_079517.1. NM_025241.2. [Q9BZV1-1]
UniGeneiHs.435255.

Genome annotation databases

EnsembliENST00000301281; ENSP00000301281; ENSG00000167671. [Q9BZV1-1]
ENST00000394765; ENSP00000378246; ENSG00000167671. [Q9BZV1-2]
GeneIDi80700.
KEGGihsa:80700.
UCSCiuc002mam.3. human. [Q9BZV1-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF272893 mRNA. Translation: AAK13257.1.
AF272894 mRNA. Translation: AAK13258.1.
CH471139 Genomic DNA. Translation: EAW69219.1.
CH471139 Genomic DNA. Translation: EAW69222.1.
BC007414 mRNA. Translation: AAH07414.2.
BC008288 mRNA. Translation: AAH08288.1.
BC017113 mRNA. Translation: AAH17113.1.
CCDSiCCDS12129.1. [Q9BZV1-1]
CCDS54201.1. [Q9BZV1-2]
RefSeqiNP_001164562.1. NM_001171091.1. [Q9BZV1-2]
NP_079517.1. NM_025241.2. [Q9BZV1-1]
UniGeneiHs.435255.

3D structure databases

ProteinModelPortaliQ9BZV1.
SMRiQ9BZV1. Positions 330-414.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi123263. 46 interactions.
IntActiQ9BZV1. 10 interactions.
MINTiMINT-3064689.
STRINGi9606.ENSP00000301281.

PTM databases

iPTMnetiQ9BZV1.
PhosphoSiteiQ9BZV1.

Polymorphism and mutation databases

BioMutaiUBXN6.
DMDMi30913412.

Proteomic databases

EPDiQ9BZV1.
MaxQBiQ9BZV1.
PaxDbiQ9BZV1.
PRIDEiQ9BZV1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000301281; ENSP00000301281; ENSG00000167671. [Q9BZV1-1]
ENST00000394765; ENSP00000378246; ENSG00000167671. [Q9BZV1-2]
GeneIDi80700.
KEGGihsa:80700.
UCSCiuc002mam.3. human. [Q9BZV1-1]

Organism-specific databases

CTDi80700.
GeneCardsiUBXN6.
HGNCiHGNC:14928. UBXN6.
HPAiHPA040906.
HPA041313.
MIMi611946. gene.
neXtProtiNX_Q9BZV1.
PharmGKBiPA162408446.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2699. Eukaryota.
ENOG410XQQK. LUCA.
GeneTreeiENSGT00840000129867.
HOGENOMiHOG000043787.
HOVERGENiHBG061370.
InParanoidiQ9BZV1.
KOiK14011.
OMAiCKIRMSN.
PhylomeDBiQ9BZV1.
TreeFamiTF314617.

Miscellaneous databases

ChiTaRSiUBXN6. human.
GeneWikiiUBXN6.
GenomeRNAii80700.
NextBioi70993.
PROiQ9BZV1.
SOURCEiSearch...

Gene expression databases

BgeeiQ9BZV1.
CleanExiHS_UBXN6.
ExpressionAtlasiQ9BZV1. baseline and differential.
GenevisibleiQ9BZV1. HS.

Family and domain databases

InterProiIPR018997. PUB_domain.
IPR029071. Ubiquitin-rel_dom.
IPR001012. UBX_dom.
[Graphical view]
PfamiPF09409. PUB. 1 hit.
PF00789. UBX. 1 hit.
[Graphical view]
SMARTiSM00580. PUG. 1 hit.
SM00166. UBX. 1 hit.
[Graphical view]
SUPFAMiSSF143503. SSF143503. 1 hit.
SSF54236. SSF54236. 1 hit.
PROSITEiPS50033. UBX. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Identification and characterization of UBXD1, a novel UBX domain-containing gene on human chromosome 19p13, and its mouse ortholog."
    Carim-Todd L., Escarceller M., Estivill X., Sumoy L.
    Biochim. Biophys. Acta 1517:298-301(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2).
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Skin and Uterus.
  4. Cited for: INTERACTION WITH VCP; SYVN1 AND HERPUD1, SUBCELLULAR LOCATION.
  5. "AAA ATPase p97 and adaptor UBXD1 suppress MDM2 ubiquitination and degradation and promote constitutive p53 turnover."
    Zweitzig D.R., Shcherbik N., Haines D.S.
    Mol. Biol. Cell 19:5029-5029(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH VCP; MDM2 AND USP7.
  6. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-96, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  7. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  8. "The general definition of the p97/valosin-containing protein (VCP)-interacting motif (VIM) delineates a new family of p97 cofactors."
    Stapf C., Cartwright E., Bycroft M., Hofmann K., Buchberger A.
    J. Biol. Chem. 286:38670-38678(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH VCP, VIM MOTIF.
  9. "A newly uncovered group of distantly related lysine methyltransferases preferentially interact with molecular chaperones to regulate their activity."
    Cloutier P., Lavallee-Adam M., Faubert D., Blanchette M., Coulombe B.
    PLoS Genet. 9:E1003210-E1003210(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH VCPKMT.
  10. "An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome."
    Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D., Wang L., Ye M., Zou H.
    J. Proteomics 96:253-262(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.

Entry informationi

Entry nameiUBXN6_HUMAN
AccessioniPrimary (citable) accession number: Q9BZV1
Secondary accession number(s): D6W626
, Q96AH1, Q96IK9, Q9BZV0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 16, 2003
Last sequence update: June 1, 2001
Last modified: May 11, 2016
This is version 119 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.