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F6V6I0

- UBP13_XENTR

UniProt

F6V6I0 - UBP13_XENTR

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Protein

Ubiquitin carboxyl-terminal hydrolase 13

Gene

usp13

Organism
Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi

Functioni

Deubiquitinase that mediates deubiquitination of target proteins and is involved in various processes such as autophagy and endoplasmic reticulum-associated degradation (ERAD).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).

Enzyme regulationi

Specifically inhibited by spautin-1 (specific and potent autophagy inhibitor-1), a derivative of MBCQ that binds to usp13 and inhibits deubiquitinase activity.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei806 – 8061Proton acceptorPROSITE-ProRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri190 – 26273UBP-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. cysteine-type endopeptidase activity Source: UniProtKB
  2. omega peptidase activity Source: InterPro
  3. ubiquitin binding Source: UniProtKB
  4. ubiquitin-specific protease activity Source: UniProtKB
  5. ubiquitin thiolesterase activity Source: UniProtKB
  6. zinc ion binding Source: InterPro

GO - Biological processi

  1. autophagy Source: UniProtKB-KW
  2. cell proliferation Source: UniProtKB
  3. protein K63-linked deubiquitination Source: UniProtKB
  4. protein stabilization Source: UniProtKB
  5. regulation of autophagy Source: UniProtKB
  6. regulation of transcription, DNA-templated Source: UniProtKB
  7. ubiquitin-dependent protein catabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protease, Thiol protease

Keywords - Biological processi

Autophagy, Ubl conjugation pathway

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin carboxyl-terminal hydrolase 13 (EC:3.4.19.12)
Alternative name(s):
Deubiquitinating enzyme 13
Ubiquitin thioesterase 13
Ubiquitin-specific-processing protease 13
Gene namesi
Name:usp13
OrganismiXenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Taxonomic identifieri8364 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusSilurana
ProteomesiUP000008143: Unplaced

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 846846Ubiquitin carboxyl-terminal hydrolase 13PRO_0000418014Add
BLAST

Expressioni

Gene expression databases

ExpressionAtlasiF6V6I0. baseline.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini317 – 844528USPAdd
BLAST
Domaini633 – 67644UBA 1PROSITE-ProRule annotationAdd
BLAST
Domaini708 – 74841UBA 2PROSITE-ProRule annotationAdd
BLAST

Domaini

The UBP-type zinc finger has lost its ability to bind ubiquitin and usp13 is not activated by unanchored ubiquitin.By similarity
The UBA domains mediate binding to ubiquitin.By similarity

Sequence similaritiesi

Belongs to the peptidase C19 family.Curated
Contains 2 UBA domains.PROSITE-ProRule annotation
Contains 1 UBP-type zinc finger.PROSITE-ProRule annotation
Contains 1 USP domain.Curated

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri190 – 26273UBP-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

InParanoidiF6V6I0.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR015940. UBA/transl_elong_EF1B_N_euk.
IPR000449. UBA/Ts_N.
IPR016652. Ubiquitinyl_hydrolase.
IPR028889. UCH/PAN2.
IPR013083. Znf_RING/FYVE/PHD.
IPR001607. Znf_UBP.
[Graphical view]
PfamiPF00627. UBA. 1 hit.
PF00443. UCH. 1 hit.
PF02148. zf-UBP. 1 hit.
[Graphical view]
PIRSFiPIRSF016308. UBP. 1 hit.
SMARTiSM00165. UBA. 1 hit.
SM00290. ZnF_UBP. 1 hit.
[Graphical view]
PROSITEiPS50030. UBA. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
PS50271. ZF_UBP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

F6V6I0-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MAEDLGELLV PYMPTIRVPK SGDRVYKTEC AFSYDSPESD GGLYVCMSTF
60 70 80 90 100
LGFGREHVER HYRKTGQSVY MHLKRHIRLK ATGASGGAFP KRINGRLFLD
110 120 130 140 150
LENNTEMNTE DYEYEDEAKL VIFPDHFEIA LPNIEELPAL VTIACDAVLN
160 170 180 190 200
SKSPYRKLDQ ESWEEELQVS KFANNLVQID NGVKIPPSGW KCSKCDLQEN
210 220 230 240 250
LWLNLTDGSI MCGRWFCSGS GGNGHALEHH KQMGYPLAVR LGSITPDGAD
260 270 280 290 300
VYSFDEEEAV IDPHLAKHLA HFGIDMLQMQ GSENGVLDNE VKPRVNEWEV
310 320 330 340 350
IQETGLKLKP MFGSGYTGIK NLGNSSYLTT VMQVIFSIPE FQRAYVGNLT
360 370 380 390 400
RIFDYAPLDP TQDFSTQMAK LGHGLLSGQF SKPPMKSELI EQVMKEEHKP
410 420 430 440 450
QPKGINTRMF KALMSKGHTE FSSNRQQDAE EFFLHFINLV ERNSIGAENP
460 470 480 490 500
SDVFRFLVEE RTQCCQSRKV RYTERVDYIM QLPVPMETAT NKEELIAYDL
510 520 530 540 550
KRREAESAKR PPPELVRAKI PFSACLQAFT EPENVPDFWS SALQAKSAGV
560 570 580 590 600
KTSRFASFPE YLVVQIKKFT FGLDWVPKKL DVSIDMPDLL DINHLRATGL
610 620 630 640 650
KSGEEELPDI APPIIIPDDP NGRMAESLLS GSGSNVNSSF KGAQPLNLPF
660 670 680 690 700
GKKEAKLLRY MERMVEKFGF KFSVRLSVEI DFAEPLIIPG CGTVTSTSSH
710 720 730 740 750
GQNALLNQPP EEIVALICSM GFPRNHALQA LRATNNNLER ALDWMFSHPE
760 770 780 790 800
SEEGADNVSG CVDTENNPNG IITDSEQEGP RIKDGNGRYE LFGIISHAGT
810 820 830 840
STMSGHYVCH IKKEGRWVIY NDHKVSASER PPKELGYIYF YHRISC
Length:846
Mass (Da):95,089
Last modified:June 13, 2012 - v2
Checksum:i139B256C047BE39A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAMC01001929 Genomic DNA. No translation available.
AAMC01001930 Genomic DNA. No translation available.
AAMC01001931 Genomic DNA. No translation available.
AAMC01001932 Genomic DNA. No translation available.
AAMC01001933 Genomic DNA. No translation available.
AAMC01001934 Genomic DNA. No translation available.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAMC01001929 Genomic DNA. No translation available.
AAMC01001930 Genomic DNA. No translation available.
AAMC01001931 Genomic DNA. No translation available.
AAMC01001932 Genomic DNA. No translation available.
AAMC01001933 Genomic DNA. No translation available.
AAMC01001934 Genomic DNA. No translation available.

3D structure databases

ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Phylogenomic databases

InParanoidi F6V6I0.

Gene expression databases

ExpressionAtlasi F6V6I0. baseline.

Family and domain databases

Gene3Di 3.30.40.10. 1 hit.
InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR015940. UBA/transl_elong_EF1B_N_euk.
IPR000449. UBA/Ts_N.
IPR016652. Ubiquitinyl_hydrolase.
IPR028889. UCH/PAN2.
IPR013083. Znf_RING/FYVE/PHD.
IPR001607. Znf_UBP.
[Graphical view ]
Pfami PF00627. UBA. 1 hit.
PF00443. UCH. 1 hit.
PF02148. zf-UBP. 1 hit.
[Graphical view ]
PIRSFi PIRSF016308. UBP. 1 hit.
SMARTi SM00165. UBA. 1 hit.
SM00290. ZnF_UBP. 1 hit.
[Graphical view ]
PROSITEi PS50030. UBA. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
PS50271. ZF_UBP. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Entry informationi

Entry nameiUBP13_XENTR
AccessioniPrimary (citable) accession number: F6V6I0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 13, 2012
Last sequence update: June 13, 2012
Last modified: October 29, 2014
This is version 24 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