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Protein

Polyubiquitin 4

Gene

UBQ4

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, and DNA-damage responses. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling (By similarity).By similarity

GO - Biological processi

  • ubiquitin-dependent protein catabolic process Source: TAIR
Complete GO annotation...

Keywords - Biological processi

Ubl conjugation pathway

Enzyme and pathway databases

ReactomeiR-ATH-110312. Translesion synthesis by REV1.
R-ATH-110314. Recognition of DNA damage by PCNA-containing replication complex.
R-ATH-110320. Translesion Synthesis by POLH.
R-ATH-174184. Cdc20:Phospho-APC/C mediated degradation of Cyclin A.
R-ATH-179409. APC-Cdc20 mediated degradation of Nek2A.
R-ATH-349425. Autodegradation of the E3 ubiquitin ligase COP1.
R-ATH-382556. ABC-family proteins mediated transport.
R-ATH-450302. activated TAK1 mediates p38 MAPK activation.
R-ATH-450321. JNK (c-Jun kinases) phosphorylation and activation mediated by activated human TAK1.
R-ATH-532668. N-glycan trimming in the ER and Calnexin/Calreticulin cycle.
R-ATH-5358346. Hedgehog ligand biogenesis.
R-ATH-5632684. Hedgehog 'on' state.
R-ATH-5655862. Translesion synthesis by POLK.
R-ATH-5656121. Translesion synthesis by POLI.
R-ATH-5656169. Termination of translesion DNA synthesis.
R-ATH-5689603. UCH proteinases.
R-ATH-5689877. Josephin domain DUBs.
R-ATH-5689880. Ub-specific processing proteases.
R-ATH-5689901. Metalloprotease DUBs.
R-ATH-5696394. DNA Damage Recognition in GG-NER.
R-ATH-5696395. Formation of Incision Complex in GG-NER.
R-ATH-5696397. Gap-filling DNA repair synthesis and ligation in GG-NER.
R-ATH-5696400. Dual Incision in GG-NER.
R-ATH-6781823. Formation of TC-NER Pre-Incision Complex.
R-ATH-6782135. Dual incision in TC-NER.
R-ATH-6782210. Gap-filling DNA repair synthesis and ligation in TC-NER.
R-ATH-68949. Orc1 removal from chromatin.
R-ATH-69017. CDK-mediated phosphorylation and removal of Cdc6.
R-ATH-8866652. Synthesis of active ubiquitin: roles of E1 and E2 enzymes.
R-ATH-901032. ER Quality Control Compartment (ERQC).
R-ATH-917729. Endosomal Sorting Complex Required For Transport (ESCRT).
R-ATH-983168. Antigen processing: Ubiquitination & Proteasome degradation.

Names & Taxonomyi

Protein namesi
Recommended name:
Polyubiquitin 4
Cleaved into the following chain:
Gene namesi
Name:UBQ4
Ordered Locus Names:At5g20620
ORF Names:T1M15.20
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

TAIRiAT5G20620.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003968821 – 76UbiquitinAdd BLAST76
ChainiPRO_000039688377 – 152UbiquitinAdd BLAST76
ChainiPRO_0000396884153 – 228UbiquitinAdd BLAST76
ChainiPRO_0000396885229 – 304UbiquitinAdd BLAST76
ChainiPRO_0000396886305 – 380UbiquitinAdd BLAST76
PropeptideiPRO_0000396887381 – 382Curated2

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki76Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins)PROSITE-ProRule annotation

Keywords - PTMi

Isopeptide bond

Proteomic databases

PaxDbiP0CH32.
PRIDEiP0CH32.

Expressioni

Gene expression databases

GenevisibleiP0CH32. AT.

Interactioni

Protein-protein interaction databases

STRINGi3702.AT5G20620.1.

Structurei

3D structure databases

ProteinModelPortaliP0CH32.
SMRiP0CH32.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini1 – 76Ubiquitin-like 1PROSITE-ProRule annotationAdd BLAST76
Domaini77 – 152Ubiquitin-like 2PROSITE-ProRule annotationAdd BLAST76
Domaini153 – 228Ubiquitin-like 3PROSITE-ProRule annotationAdd BLAST76
Domaini229 – 304Ubiquitin-like 4PROSITE-ProRule annotationAdd BLAST76
Domaini305 – 380Ubiquitin-like 5PROSITE-ProRule annotationAdd BLAST76

Sequence similaritiesi

Belongs to the ubiquitin family.Curated
Contains 5 ubiquitin-like domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0001. Eukaryota.
COG5272. LUCA.
InParanoidiP0CH32.
KOiK08770.
OMAiVHENTRR.

Family and domain databases

InterProiIPR019956. Ubiquitin.
IPR029071. Ubiquitin-rel_dom.
IPR019954. Ubiquitin_CS.
IPR000626. Ubiquitin_dom.
[Graphical view]
PfamiPF00240. ubiquitin. 5 hits.
[Graphical view]
PRINTSiPR00348. UBIQUITIN.
SMARTiSM00213. UBQ. 5 hits.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 5 hits.
PROSITEiPS00299. UBIQUITIN_1. 5 hits.
PS50053. UBIQUITIN_2. 5 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P0CH32-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQIFVKTLTG KTITLEVESS DTIDNVKAKI QDKEGIPPDQ QRLIFAGKQL
60 70 80 90 100
EDGRTLADYN IQKESTLHLV LRLRGGMQIF VKTLTGKTIT LEVESSDTID
110 120 130 140 150
NVKAKIQDKE GIPPDQQRLI FAGKQLEDGR TLADYNIQKE STLHLVLRLR
160 170 180 190 200
GGMQIFVKTL TGKTITLEVE SSDTIDNVKA KIQDKEGIPP DQQRLIFAGK
210 220 230 240 250
QLEDGRTLAD YNIQKESTLH LVLRLRGGMQ IFVKTLTGKT ITLEVESSDT
260 270 280 290 300
IDNVKAKIQD KEGIPPDQQR LIFAGKQLED GRTLADYNIQ KESTLHLVLR
310 320 330 340 350
LRGGMQIFVK TLTGKTITLE VESSDTIDNV KAKIQDKEGI PPDQQRLIFA
360 370 380
GKQLEDGRTL ADYNIQKEST LHLVLRLRGG SF
Length:382
Mass (Da):42,786
Last modified:August 10, 2010 - v1
Checksum:i13C8C4CB1176707C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X12853 Genomic DNA. Translation: CAA31331.1.
U33014 Genomic DNA. Translation: AAB53929.1.
AF296832 Genomic DNA. No translation available.
CP002688 Genomic DNA. Translation: AED92867.1.
PIRiS01425. UQMUM.
RefSeqiNP_568397.1. NM_122069.4.
UniGeneiAt.26012.
At.46169.
At.71604.

Genome annotation databases

EnsemblPlantsiAT5G20620.1; AT5G20620.1; AT5G20620.
GeneIDi832184.
GrameneiAT5G20620.1; AT5G20620.1; AT5G20620.
KEGGiath:AT5G20620.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X12853 Genomic DNA. Translation: CAA31331.1.
U33014 Genomic DNA. Translation: AAB53929.1.
AF296832 Genomic DNA. No translation available.
CP002688 Genomic DNA. Translation: AED92867.1.
PIRiS01425. UQMUM.
RefSeqiNP_568397.1. NM_122069.4.
UniGeneiAt.26012.
At.46169.
At.71604.

3D structure databases

ProteinModelPortaliP0CH32.
SMRiP0CH32.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT5G20620.1.

Proteomic databases

PaxDbiP0CH32.
PRIDEiP0CH32.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G20620.1; AT5G20620.1; AT5G20620.
GeneIDi832184.
GrameneiAT5G20620.1; AT5G20620.1; AT5G20620.
KEGGiath:AT5G20620.

Organism-specific databases

TAIRiAT5G20620.

Phylogenomic databases

eggNOGiKOG0001. Eukaryota.
COG5272. LUCA.
InParanoidiP0CH32.
KOiK08770.
OMAiVHENTRR.

Enzyme and pathway databases

ReactomeiR-ATH-110312. Translesion synthesis by REV1.
R-ATH-110314. Recognition of DNA damage by PCNA-containing replication complex.
R-ATH-110320. Translesion Synthesis by POLH.
R-ATH-174184. Cdc20:Phospho-APC/C mediated degradation of Cyclin A.
R-ATH-179409. APC-Cdc20 mediated degradation of Nek2A.
R-ATH-349425. Autodegradation of the E3 ubiquitin ligase COP1.
R-ATH-382556. ABC-family proteins mediated transport.
R-ATH-450302. activated TAK1 mediates p38 MAPK activation.
R-ATH-450321. JNK (c-Jun kinases) phosphorylation and activation mediated by activated human TAK1.
R-ATH-532668. N-glycan trimming in the ER and Calnexin/Calreticulin cycle.
R-ATH-5358346. Hedgehog ligand biogenesis.
R-ATH-5632684. Hedgehog 'on' state.
R-ATH-5655862. Translesion synthesis by POLK.
R-ATH-5656121. Translesion synthesis by POLI.
R-ATH-5656169. Termination of translesion DNA synthesis.
R-ATH-5689603. UCH proteinases.
R-ATH-5689877. Josephin domain DUBs.
R-ATH-5689880. Ub-specific processing proteases.
R-ATH-5689901. Metalloprotease DUBs.
R-ATH-5696394. DNA Damage Recognition in GG-NER.
R-ATH-5696395. Formation of Incision Complex in GG-NER.
R-ATH-5696397. Gap-filling DNA repair synthesis and ligation in GG-NER.
R-ATH-5696400. Dual Incision in GG-NER.
R-ATH-6781823. Formation of TC-NER Pre-Incision Complex.
R-ATH-6782135. Dual incision in TC-NER.
R-ATH-6782210. Gap-filling DNA repair synthesis and ligation in TC-NER.
R-ATH-68949. Orc1 removal from chromatin.
R-ATH-69017. CDK-mediated phosphorylation and removal of Cdc6.
R-ATH-8866652. Synthesis of active ubiquitin: roles of E1 and E2 enzymes.
R-ATH-901032. ER Quality Control Compartment (ERQC).
R-ATH-917729. Endosomal Sorting Complex Required For Transport (ESCRT).
R-ATH-983168. Antigen processing: Ubiquitination & Proteasome degradation.

Miscellaneous databases

PROiP0CH32.

Gene expression databases

GenevisibleiP0CH32. AT.

Family and domain databases

InterProiIPR019956. Ubiquitin.
IPR029071. Ubiquitin-rel_dom.
IPR019954. Ubiquitin_CS.
IPR000626. Ubiquitin_dom.
[Graphical view]
PfamiPF00240. ubiquitin. 5 hits.
[Graphical view]
PRINTSiPR00348. UBIQUITIN.
SMARTiSM00213. UBQ. 5 hits.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 5 hits.
PROSITEiPS00299. UBIQUITIN_1. 5 hits.
PS50053. UBIQUITIN_2. 5 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiUBQ4_ARATH
AccessioniPrimary (citable) accession number: P0CH32
Secondary accession number(s): O80715
, P59263, Q38875, Q9LDJ2, Q9LYW1, Q9M0W3, Q9M1P9, Q9S7X3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 10, 2010
Last sequence update: August 10, 2010
Last modified: November 30, 2016
This is version 44 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

Ubiquitin is encoded by 16 different genes. Ubiquitin is generally synthesized as a polyubiquitin precursor with tandem head to tail repeats. Often, there is one to three additional amino acids after the last repeat, removed in the mature protein. Alternatively, ubiquitin extension protein is synthesized as a single copy of ubiquitin fused to a ribosomal protein (either L40 or S27A) or to a ubiquitin-related protein (either RUB1 or RUB2). Following translation, extension protein is cleaved from ubiquitin.
For the sake of clarity sequence features are annotated only for the first chain, and are not repeated for each of the following chains.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. 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.