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Protein

Ubiquitin carboxyl-terminal hydrolase 16

Gene

usp16

Organism
Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Specifically deubiquitinates 'Lys-120' of histone H2A (H2AK119Ub), a specific tag for epigenetic transcriptional repression, thereby acting as a coactivator. Deubiquitination of histone H2A is a prerequisite for subsequent phosphorylation at 'Ser-11' of histone H3 (H3S10ph), and is required for chromosome segregation when cells enter into mitosis. Regulates Hox gene expression via histone H2A deubiquitination. Prefers nucleosomal substrates. Does not deubiquitinate histone H2B.UniRule annotation

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).UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi21Zinc 1UniRule annotation1
Metal bindingi23Zinc 1UniRule annotation1
Metal bindingi45Zinc 2UniRule annotation1
Metal bindingi48Zinc 2UniRule annotation1
Metal bindingi71Zinc 3UniRule annotation1
Metal bindingi74Zinc 3UniRule annotation1
Metal bindingi79Zinc 2UniRule annotation1
Metal bindingi87Zinc 2UniRule annotation1
Metal bindingi91Zinc 3UniRule annotation1
Metal bindingi100Zinc 3UniRule annotation1
Metal bindingi113Zinc 1UniRule annotation1
Metal bindingi116Zinc 1UniRule annotation1
Active sitei205NucleophileUniRule annotation1
Active sitei798Proton acceptorUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri43 – 122UBP-typeUniRule annotationAdd BLAST80

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Activator, Chromatin regulator, Hydrolase, Protease, Thiol protease

Keywords - Biological processi

Cell cycle, Cell division, Mitosis, Transcription, Transcription regulation, Ubl conjugation pathway

Keywords - Ligandi

Metal-binding, Zinc

Protein family/group databases

MEROPSiC19.021.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin carboxyl-terminal hydrolase 16UniRule annotation (EC:3.4.19.12UniRule annotation)
Alternative name(s):
Deubiquitinating enzyme 16UniRule annotation
Ubiquitin thioesterase 16UniRule annotation
Ubiquitin-specific-processing protease 16UniRule annotation
Gene namesi
Name:usp16
OrganismiXenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Taxonomic identifieri8364 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusSilurana
Proteomesi
  • UP000008143 Componenti: Unassembled WGS sequence

Organism-specific databases

XenbaseiXB-GENE-1007164. usp16.

Subcellular locationi

  • Nucleus UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003675071 – 864Ubiquitin carboxyl-terminal hydrolase 16Add BLAST864

Proteomic databases

PaxDbiQ0VA64.

Expressioni

Gene expression databases

BgeeiENSXETG00000020255.

Interactioni

Subunit structurei

Homotetramer.UniRule annotation

GO - Molecular functioni

Protein-protein interaction databases

STRINGi8364.ENSXETP00000043701.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini196 – 863USPAdd BLAST668

Domaini

The UBP-type zinc finger binds 3 zinc ions that form a pair of cross-braced ring fingers encapsulated within a third zinc finger in the primary structure. It recognizes the C-terminal tail of free ubiquitin.UniRule annotation

Sequence similaritiesi

Belongs to the peptidase C19 family. USP16 subfamily.UniRule annotation
Contains 1 UBP-type zinc finger.UniRule annotation
Contains 1 USP domain.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri43 – 122UBP-typeUniRule annotationAdd BLAST80

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG1873. Eukaryota.
COG5560. LUCA.
GeneTreeiENSGT00860000133682.
HOGENOMiHOG000154755.
HOVERGENiHBG062704.
InParanoidiQ0VA64.
KOiK11844.
OMAiGDPGDFE.
OrthoDBiEOG091G01WT.
TreeFamiTF326075.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
HAMAPiMF_03062. UBP16. 1 hit.
InterProiIPR001394. Peptidase_C19_UCH.
IPR030849. UBP16.
IPR018200. USP_CS.
IPR028889. USP_dom.
IPR013083. Znf_RING/FYVE/PHD.
IPR001607. Znf_UBP.
[Graphical view]
PfamiPF00443. UCH. 1 hit.
PF02148. zf-UBP. 1 hit.
[Graphical view]
PROSITEiPS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
PS50271. ZF_UBP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q0VA64-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVKKRGKNLP AQDSLDAEPV CKHLRKALDE GSVKKALVNV EWTVCQECQA
60 70 80 90 100
DNKEKNNSDD ELVEDPSVWL CLKCGHRGCG RNSASQHALN HYNTPRSEPH
110 120 130 140 150
CLVLSVDMWS AWCYLCDNEV PYNRSSRLGQ LVDYLQRKAK AKSKSTDSAA
160 170 180 190 200
LDEEVKAEIV AENEVKIEDQ EEKPKGQAKW DKASSTQNNS TEPTVKGLSN
210 220 230 240 250
LGNTCFFNAV MQNLSQTPAV RELLNEAKTL KKPVTVPLPD SSSPTNVEVH
260 270 280 290 300
LEQQPGPLTL AMWQFLTEMQ ETKKGVVTPK EVFSQVCKKA IRFKGYQQQD
310 320 330 340 350
SQELLRYLLD GMRGEEIQRV SLAMSKSLQN TLDEEEIKKI VKDSEKRRTI
360 370 380 390 400
PNFVDHLFGG ELTSTIMCEE CHTVSLVHEP FLDLSLPVLD DVIVKKNSQK
410 420 430 440 450
SSAPAPERKE EEENDDGYIK ERDEASPGAS KHLQKKAKKA AKKQAKNQRR
460 470 480 490 500
QLKMQGKTVL LTDVAKQECS EDEEEIAPNN TESEANTRPD DEVPIADGLN
510 520 530 540 550
TMKSDLSALE NGSETIESAM ERVTEDTDLD TSGHNTESVE MNAMELVRNM
560 570 580 590 600
ENNNNNNTDV NKTLERTEGS GVDSMEATAA VDNGNADTVC VDDTEAANGL
610 620 630 640 650
LDCSAASMDN ELTNSLNRLK LSSDIEPTQV EIEILPDQQQ PHTQIYEVIN
660 670 680 690 700
EDPKTAFSTL SERKDLPLDG YSVLSCLYQF THKETLTGNN KLLCNVCTRK
710 720 730 740 750
QASRLNNSNK GEKTFVYTNA KKQMLVSDPS PILTLHLKRF QQNGFNLRKI
760 770 780 790 800
NRHIKFPEVL DLAPFCTSKC KNIPAGESRL LYSLYGVIEH SGSMRSGHYT
810 820 830 840 850
AFVKLRRPNQ QLCEMVLKGV IPEVSGSEPG QGSWYHISDS HVQAVSLSRV
860
LSSQAYLLFY ERML
Length:864
Mass (Da):96,666
Last modified:December 11, 2013 - v2
Checksum:i8600F3A72FCAF9C7
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti106V → M in AAI21231 (Ref. 2) Curated1
Sequence conflicti405A → V in AAI21231 (Ref. 2) Curated1
Sequence conflicti452L → Q in AAI21231 (Ref. 2) Curated1
Sequence conflicti495I → T in AAI21231 (Ref. 2) Curated1
Sequence conflicti515T → A in AAI21231 (Ref. 2) Curated1
Sequence conflicti529L → I in AAI21231 (Ref. 2) Curated1
Sequence conflicti548R → G in AAI21231 (Ref. 2) Curated1
Sequence conflicti572V → G in AAI21231 (Ref. 2) Curated1
Sequence conflicti714T → K in AAI21231 (Ref. 2) Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAMC01089338 Genomic DNA. No translation available.
AAMC01089339 Genomic DNA. No translation available.
BC121230 mRNA. Translation: AAI21231.1.
RefSeqiNP_001072158.1. NM_001078690.1.
UniGeneiStr.20151.

Genome annotation databases

EnsembliENSXETT00000043701; ENSXETP00000043701; ENSXETG00000020255.
GeneIDi447956.
KEGGixtr:447956.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAMC01089338 Genomic DNA. No translation available.
AAMC01089339 Genomic DNA. No translation available.
BC121230 mRNA. Translation: AAI21231.1.
RefSeqiNP_001072158.1. NM_001078690.1.
UniGeneiStr.20151.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi8364.ENSXETP00000043701.

Protein family/group databases

MEROPSiC19.021.

Proteomic databases

PaxDbiQ0VA64.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSXETT00000043701; ENSXETP00000043701; ENSXETG00000020255.
GeneIDi447956.
KEGGixtr:447956.

Organism-specific databases

CTDi10600.
XenbaseiXB-GENE-1007164. usp16.

Phylogenomic databases

eggNOGiKOG1873. Eukaryota.
COG5560. LUCA.
GeneTreeiENSGT00860000133682.
HOGENOMiHOG000154755.
HOVERGENiHBG062704.
InParanoidiQ0VA64.
KOiK11844.
OMAiGDPGDFE.
OrthoDBiEOG091G01WT.
TreeFamiTF326075.

Gene expression databases

BgeeiENSXETG00000020255.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
HAMAPiMF_03062. UBP16. 1 hit.
InterProiIPR001394. Peptidase_C19_UCH.
IPR030849. UBP16.
IPR018200. USP_CS.
IPR028889. USP_dom.
IPR013083. Znf_RING/FYVE/PHD.
IPR001607. Znf_UBP.
[Graphical view]
PfamiPF00443. UCH. 1 hit.
PF02148. zf-UBP. 1 hit.
[Graphical view]
PROSITEiPS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
PS50271. ZF_UBP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiUBP16_XENTR
AccessioniPrimary (citable) accession number: Q0VA64
Secondary accession number(s): F7BZB4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: December 11, 2013
Last modified: November 30, 2016
This is version 76 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

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.