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D3ZJ96

- UBP28_RAT

UniProt

D3ZJ96 - UBP28_RAT

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Protein
Ubiquitin carboxyl-terminal hydrolase 28
Gene
Usp28
Organism
Rattus norvegicus (Rat)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at transcript leveli

Functioni

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 activityi

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).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei171 – 1711Nucleophile By similarity
Active sitei606 – 6061Proton acceptor By similarity

GO - Molecular functioni

  1. ubiquitin thiolesterase activity Source: UniProtKB
  2. ubiquitin-specific protease activity Source: UniProtKB

GO - Biological processi

  1. DNA damage checkpoint Source: UniProtKB
  2. DNA repair Source: UniProtKB-KW
  3. cell proliferation Source: UniProtKB
  4. cellular response to UV Source: Ensembl
  5. intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator Source: UniProtKB
  6. protein deubiquitination Source: UniProtKB
  7. response to ionizing radiation Source: UniProtKB
  8. ubiquitin-dependent protein catabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protease, Thiol protease

Keywords - Biological processi

DNA damage, DNA repair, Ubl conjugation pathway

Protein family/group databases

MEROPSiC19.054.

Names & Taxonomyi

Protein namesi
Recommended 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 namesi
Name:Usp28
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494: Chromosome 8

Organism-specific databases

RGDi1311555. Usp28.

Subcellular locationi

Nucleusnucleoplasm By similarity

GO - Cellular componenti

  1. nucleolus Source: Ensembl
  2. nucleoplasm Source: UniProtKB
  3. protein complex Source: Ensembl
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 10831083Ubiquitin carboxyl-terminal hydrolase 28
PRO_0000395809Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei67 – 671Phosphoserine By similarity
Modified residuei720 – 7201Phosphoserine By similarity

Post-translational modificationi

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.

Keywords - PTMi

Phosphoprotein

Proteomic databases

PRIDEiD3ZJ96.

Interactioni

Subunit structurei

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

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati97 – 11620UIM
Add
BLAST
Domaini162 – 656495USP
Add
BLAST

Sequence similaritiesi

Contains 1 USP domain.

Phylogenomic databases

GeneTreeiENSGT00390000016082.
HOGENOMiHOG000007956.
KOiK11849.
OMAiCIASTTQ.
OrthoDBiEOG761BSZ.
PhylomeDBiD3ZJ96.
TreeFamiTF329035.

Family and domain databases

InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR009060. UBA-like.
IPR003903. Ubiquitin-int_motif.
IPR028889. UCH/PAN2.
[Graphical view]
PfamiPF00443. UCH. 1 hit.
[Graphical view]
SMARTiSM00726. UIM. 1 hit.
[Graphical view]
SUPFAMiSSF46934. SSF46934. 1 hit.
PROSITEiPS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: D3ZJ96-1) [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

MTAELQQDDA AGAADGHGSS CQMLLNQLRE ITGIQDPSFL HEALKASNGD     50
ITQAVSLLTD QRVKEPSHDT AATEPSEVEE SATSKDLLAK VIDLTHDNKD 100
DLQAAIALSL LESPNIQTDS RDLNRIHEAN SAETKRSKRK RCEVWGENHN 150
PNNWRRVDGW PVGLKNVGNT CWFSAVIQSL FQLPEFRRLV LSYSLPQNIL 200
ENCRSHTEKR NIMFMQELQY LFALLLGSNR KFVDPSAALD LLKGAFRSSE 250
EQQQDVSEFT HKLLDWLEDA FQLAVNVNSN PRTKSENPMV QLFYGTFLTE 300
GVREGKPFCN NETFGQYPLQ VNGYHNLDEC LEGAMVEGDI ALLPSDRSVK 350
YGQERWFTKL PPVLTFELSR FEFNQSLGQP EKIHNKLEFP QVIYMDRYMY 400
KSKELIRSKR ESIRKLKEEI QVLQQKLERY VKYGSGPSRF PLPDMLKYVI 450
EFASTKPASE SCLSGSVEHM TLPLPSVHCP ISDLTAKESS SPKSCSQNAE 500
GSFSSPEDAL PNSEVMNGPF TSPHSSLEMP APPPAPRTVT DEEMNFVKTC 550
LQRWRSEIEQ DIQDLKNCIS STTQAIEQMY CDPLLRQVPY RLHAVLVHEG 600
QASAGHYWAY IYNQPRQIWL KYNDISVTES SWEELERDSY GGLRNVSAYC 650
LMYINDKLPH CSAEAAHGES DQTAEVEALS VELRQYIQED NWRFEQEVEE 700
WEEEQSCKIP QMESSPNSSS QDFSTSQESS AASSHGVRCL SSEHAVIAKE 750
QTAQAIANTA HAYEKSGVEA ALSEVMLSPA MQGVLLAIAK ARQTFDRDGS 800
EAGLIKAFHE EYSRLYQLAK ETPTSHSDPR LQHVLVYFFQ NEAPKRVVER 850
TLLEQFADRN LSYDERSISI MKVAQAKLME IGPEDMNMEE YKRWHEDYSL 900
FRKVSVYLLT GLELFQKGKY QEALSYLVYA YQSNAGLLVK GPRRGVKESV 950
IALYRRKCLL ELNAKAASLF ETNDDHSVTE GINVMNELII PCIHLIINND 1000
ISKDDLDAIE VMRNHWCSYL GKDIAENLQL CLGEFLPRLL DPSAEIIVLK 1050
EPPTIRPNSP YDLCSRFAAV MESIQGVSTV TVK 1083
Length:1,083
Mass (Da):122,688
Last modified:July 13, 2010 - v2
Checksum:iA0E69DE733BB921E
GO
Isoform 2 (identifier: D3ZJ96-2) [UniParc]FASTAAdd to Basket

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

Show »
Length:1,051
Mass (Da):119,318
Checksum:iBBEE038814F4BB46
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei775 – 80632Missing in isoform 2.
VSP_039547Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti73 – 731T → S in BAF97608. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AB240643 mRNA. Translation: BAF97608.1.
CH473975 Genomic DNA. Translation: EDL95433.1.
RefSeqiNP_001101614.1. NM_001108144.1.
XP_006243070.1. XM_006243008.1. [D3ZJ96-1]
XP_006243073.1. XM_006243011.1. [D3ZJ96-2]
UniGeneiRn.6599.

Genome annotation databases

EnsembliENSRNOT00000009724; ENSRNOP00000009724; ENSRNOG00000007325. [D3ZJ96-2]
ENSRNOT00000067420; ENSRNOP00000060005; ENSRNOG00000007325. [D3ZJ96-1]
GeneIDi315639.
KEGGirno:315639.
UCSCiRGD:1311555. rat. [D3ZJ96-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AB240643 mRNA. Translation: BAF97608.1 .
CH473975 Genomic DNA. Translation: EDL95433.1 .
RefSeqi NP_001101614.1. NM_001108144.1.
XP_006243070.1. XM_006243008.1. [D3ZJ96-1 ]
XP_006243073.1. XM_006243011.1. [D3ZJ96-2 ]
UniGenei Rn.6599.

3D structure databases

ModBasei Search...
MobiDBi Search...

Protein family/group databases

MEROPSi C19.054.

Proteomic databases

PRIDEi D3ZJ96.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSRNOT00000009724 ; ENSRNOP00000009724 ; ENSRNOG00000007325 . [D3ZJ96-2 ]
ENSRNOT00000067420 ; ENSRNOP00000060005 ; ENSRNOG00000007325 . [D3ZJ96-1 ]
GeneIDi 315639.
KEGGi rno:315639.
UCSCi RGD:1311555. rat. [D3ZJ96-1 ]

Organism-specific databases

CTDi 57646.
RGDi 1311555. Usp28.

Phylogenomic databases

GeneTreei ENSGT00390000016082.
HOGENOMi HOG000007956.
KOi K11849.
OMAi CIASTTQ.
OrthoDBi EOG761BSZ.
PhylomeDBi D3ZJ96.
TreeFami TF329035.

Miscellaneous databases

NextBioi 669544.
PROi D3ZJ96.

Family and domain databases

InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR009060. UBA-like.
IPR003903. Ubiquitin-int_motif.
IPR028889. UCH/PAN2.
[Graphical view ]
Pfami PF00443. UCH. 1 hit.
[Graphical view ]
SMARTi SM00726. UIM. 1 hit.
[Graphical view ]
SUPFAMi SSF46934. SSF46934. 1 hit.
PROSITEi PS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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.

Entry informationi

Entry nameiUBP28_RAT
AccessioniPrimary (citable) accession number: D3ZJ96
Secondary accession number(s): D2Y8W6
Entry historyi
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 statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Peptidase families
    Classification of peptidase families and list of entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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