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D3ZJ96 (UBP28_RAT) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 32. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Ubiquitin carboxyl-terminal hydrolase 28

EC=3.4.19.12
Alternative name(s):
Deubiquitinating enzyme 28
Ubiquitin thioesterase 28
Ubiquitin-specific-processing protease 28
Gene names
Name:Usp28
OrganismRattus norvegicus (Rat) [Reference proteome]
Taxonomic identifier10116 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus

Protein attributes

Sequence length1083 AA.
Sequence statusComplete.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

Deubiquitinase involved in DNA damage response checkpoint and MYC proto-oncogene stability. Involved in DNA damage induced apoptosis by specifically deubiquitinating proteins of the DNA damage pathway such as CLSPN. Also involved in G2 DNA damage checkpoint, by deubiquitinating CLSPN, and preventing its degradation by the anaphase promoting complex/cyclosome (APC/C). In contrast, it does not deubiquitinate PLK1. Specifically deubiquitinates MYC in the nucleoplasm, leading to prevent MYC degradation by the proteasome: acts by specifically interacting with FBXW7 (FBW7alpha) in the nucleoplasm and counteracting ubiquitination of MYC by the SCF(FBXW7) complex By similarity.

Catalytic activity

Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).

Subunit structure

Interacts with FBXW7; following DNA damage, dissociates from FBXW7 leading to degradation of MYC.

Subcellular location

Nucleusnucleoplasm By similarity.

Post-translational modification

Degradaded upon nickel ion level or hypoxia exposure By similarity.

Phosphorylated upon DNA damage at Ser-67 and Ser-720, by ATM or ATR By similarity.

Sequence similarities

Belongs to the peptidase C19 family. USP28 subfamily.

Contains 1 UIM (ubiquitin-interacting motif) repeat.

Contains 1 USP domain.

Ontologies

Keywords
   Biological processDNA damage
DNA repair
Ubl conjugation pathway
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
   Molecular functionHydrolase
Protease
Thiol protease
   PTMPhosphoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processDNA damage checkpoint

Inferred from sequence or structural similarity. Source: UniProtKB

DNA repair

Inferred from electronic annotation. Source: UniProtKB-KW

cell proliferation

Inferred from sequence or structural similarity. Source: UniProtKB

cellular response to UV

Inferred from electronic annotation. Source: Ensembl

intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator

Inferred from sequence or structural similarity. Source: UniProtKB

protein deubiquitination

Inferred from sequence or structural similarity. Source: UniProtKB

response to ionizing radiation

Inferred from sequence or structural similarity. Source: UniProtKB

ubiquitin-dependent protein catabolic process

Inferred from electronic annotation. Source: InterPro

   Cellular_componentnucleolus

Inferred from electronic annotation. Source: Ensembl

nucleoplasm

Inferred from sequence or structural similarity. Source: UniProtKB

protein complex

Inferred from electronic annotation. Source: Ensembl

   Molecular_functionubiquitin thiolesterase activity

Inferred from sequence or structural similarity. Source: UniProtKB

ubiquitin-specific protease activity

Inferred from sequence or structural similarity. Source: UniProtKB

Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: D3ZJ96-1)

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.
Isoform 2 (identifier: D3ZJ96-2)

The sequence of this isoform differs from the canonical sequence as follows:
     775-806: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 10831083Ubiquitin carboxyl-terminal hydrolase 28
PRO_0000395809

Regions

Repeat97 – 11620UIM
Domain162 – 656495USP

Sites

Active site1711Nucleophile By similarity
Active site6061Proton acceptor By similarity

Amino acid modifications

Modified residue671Phosphoserine By similarity
Modified residue7201Phosphoserine By similarity

Natural variations

Alternative sequence775 – 80632Missing in isoform 2.
VSP_039547

Experimental info

Sequence conflict731T → S in BAF97608. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified July 13, 2010. Version 2.
Checksum: A0E69DE733BB921E

FASTA1,083122,688
        10         20         30         40         50         60 
MTAELQQDDA AGAADGHGSS CQMLLNQLRE ITGIQDPSFL HEALKASNGD ITQAVSLLTD 

        70         80         90        100        110        120 
QRVKEPSHDT AATEPSEVEE SATSKDLLAK VIDLTHDNKD DLQAAIALSL LESPNIQTDS 

       130        140        150        160        170        180 
RDLNRIHEAN SAETKRSKRK RCEVWGENHN PNNWRRVDGW PVGLKNVGNT CWFSAVIQSL 

       190        200        210        220        230        240 
FQLPEFRRLV LSYSLPQNIL ENCRSHTEKR NIMFMQELQY LFALLLGSNR KFVDPSAALD 

       250        260        270        280        290        300 
LLKGAFRSSE EQQQDVSEFT HKLLDWLEDA FQLAVNVNSN PRTKSENPMV QLFYGTFLTE 

       310        320        330        340        350        360 
GVREGKPFCN NETFGQYPLQ VNGYHNLDEC LEGAMVEGDI ALLPSDRSVK YGQERWFTKL 

       370        380        390        400        410        420 
PPVLTFELSR FEFNQSLGQP EKIHNKLEFP QVIYMDRYMY KSKELIRSKR ESIRKLKEEI 

       430        440        450        460        470        480 
QVLQQKLERY VKYGSGPSRF PLPDMLKYVI EFASTKPASE SCLSGSVEHM TLPLPSVHCP 

       490        500        510        520        530        540 
ISDLTAKESS SPKSCSQNAE GSFSSPEDAL PNSEVMNGPF TSPHSSLEMP APPPAPRTVT 

       550        560        570        580        590        600 
DEEMNFVKTC LQRWRSEIEQ DIQDLKNCIS STTQAIEQMY CDPLLRQVPY RLHAVLVHEG 

       610        620        630        640        650        660 
QASAGHYWAY IYNQPRQIWL KYNDISVTES SWEELERDSY GGLRNVSAYC LMYINDKLPH 

       670        680        690        700        710        720 
CSAEAAHGES DQTAEVEALS VELRQYIQED NWRFEQEVEE WEEEQSCKIP QMESSPNSSS 

       730        740        750        760        770        780 
QDFSTSQESS AASSHGVRCL SSEHAVIAKE QTAQAIANTA HAYEKSGVEA ALSEVMLSPA 

       790        800        810        820        830        840 
MQGVLLAIAK ARQTFDRDGS EAGLIKAFHE EYSRLYQLAK ETPTSHSDPR LQHVLVYFFQ 

       850        860        870        880        890        900 
NEAPKRVVER TLLEQFADRN LSYDERSISI MKVAQAKLME IGPEDMNMEE YKRWHEDYSL 

       910        920        930        940        950        960 
FRKVSVYLLT GLELFQKGKY QEALSYLVYA YQSNAGLLVK GPRRGVKESV IALYRRKCLL 

       970        980        990       1000       1010       1020 
ELNAKAASLF ETNDDHSVTE GINVMNELII PCIHLIINND ISKDDLDAIE VMRNHWCSYL 

      1030       1040       1050       1060       1070       1080 
GKDIAENLQL CLGEFLPRLL DPSAEIIVLK EPPTIRPNSP YDLCSRFAAV MESIQGVSTV 


TVK 

« Hide

Isoform 2 [UniParc].

Checksum: BBEE038814F4BB46
Show »

FASTA1,051119,318

References

« Hide 'large scale' references
[1]"Expression of deubiquitination enzyme (USP28) in rat spermatogenic cell. Immunocytochemical analysis."
Haraguchi C.M., Mabuchi T., Yokota S.
Submitted (NOV-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
Tissue: Testis.
[2]Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: Brown Norway.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AB240643 mRNA. Translation: BAF97608.1.
CH473975 Genomic DNA. Translation: EDL95433.1.
RefSeqNP_001101614.1. NM_001108144.1.
XP_006243070.1. XM_006243008.1. [D3ZJ96-1]
XP_006243073.1. XM_006243011.1. [D3ZJ96-2]
UniGeneRn.6599.

3D structure databases

ModBaseSearch...
MobiDBSearch...

Protein family/group databases

MEROPSC19.054.

Proteomic databases

PRIDED3ZJ96.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSRNOT00000009724; ENSRNOP00000009724; ENSRNOG00000007325. [D3ZJ96-2]
ENSRNOT00000067420; ENSRNOP00000060005; ENSRNOG00000007325. [D3ZJ96-1]
GeneID315639.
KEGGrno:315639.
UCSCRGD:1311555. rat. [D3ZJ96-1]

Organism-specific databases

CTD57646.
RGD1311555. Usp28.

Phylogenomic databases

GeneTreeENSGT00390000016082.
HOGENOMHOG000007956.
KOK11849.
OMACIASTTQ.
OrthoDBEOG761BSZ.
PhylomeDBD3ZJ96.
TreeFamTF329035.

Family and domain databases

InterProIPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR009060. UBA-like.
IPR003903. Ubiquitin-int_motif.
IPR028889. UCH/PAN2.
[Graphical view]
PfamPF00443. UCH. 1 hit.
[Graphical view]
SMARTSM00726. UIM. 1 hit.
[Graphical view]
SUPFAMSSF46934. SSF46934. 1 hit.
PROSITEPS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio669544.
PROD3ZJ96.

Entry information

Entry nameUBP28_RAT
AccessionPrimary (citable) accession number: D3ZJ96
Secondary accession number(s): D2Y8W6
Entry history
Integrated into UniProtKB/Swiss-Prot: July 13, 2010
Last sequence update: July 13, 2010
Last modified: May 14, 2014
This is version 32 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Peptidase families

Classification of peptidase families and list of entries