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A8HAL1

- UBP16_DANRE

UniProt

A8HAL1 - UBP16_DANRE

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Protein

Ubiquitin carboxyl-terminal hydrolase 16

Gene

usp16

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi

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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi24 – 241Zinc 1UniRule annotation
Metal bindingi26 – 261Zinc 1UniRule annotation
Metal bindingi48 – 481Zinc 2UniRule annotation
Metal bindingi51 – 511Zinc 2UniRule annotation
Metal bindingi76 – 761Zinc 3UniRule annotation
Metal bindingi79 – 791Zinc 3UniRule annotation
Metal bindingi84 – 841Zinc 2UniRule annotation
Metal bindingi91 – 911Zinc 2UniRule annotation
Metal bindingi95 – 951Zinc 3UniRule annotation
Metal bindingi104 – 1041Zinc 3UniRule annotation
Metal bindingi117 – 1171Zinc 1UniRule annotation
Metal bindingi120 – 1201Zinc 1UniRule annotation
Active sitei217 – 2171NucleophileUniRule annotation
Active sitei752 – 7521Proton acceptorUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri46 – 12681UBP-typeUniRule annotationAdd
BLAST

GO - Molecular functioni

  1. cysteine-type endopeptidase activity Source: UniProtKB
  2. histone binding Source: UniProtKB
  3. transcription coactivator activity Source: UniProtKB
  4. ubiquitin binding Source: UniProtKB
  5. ubiquitin-specific protease activity Source: UniProtKB
  6. ubiquitin thiolesterase activity Source: UniProtKB
  7. zinc ion binding Source: UniProtKB

GO - Biological processi

  1. cellular response to DNA damage stimulus Source: UniProtKB
  2. histone deubiquitination Source: UniProtKB
  3. histone H2A K63-linked deubiquitination Source: UniProtKB
  4. mitotic nuclear division Source: UniProtKB
  5. positive regulation of transcription, DNA-templated Source: UniProtKB
  6. positive regulation of translational elongation Source: UniProtKB
  7. protein homotetramerization Source: UniProtKB
  8. transcription, DNA-templated Source: UniProtKB-KW
  9. ubiquitin-dependent protein catabolic process Source: InterPro
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

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
ORF Names:si:dkey-121n8.2
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
ProteomesiUP000000437: Chromosome 15

Subcellular locationi

Nucleus UniRule annotation

GO - Cellular componenti

  1. nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 815815Ubiquitin carboxyl-terminal hydrolase 16PRO_0000367505Add
BLAST

Expressioni

Gene expression databases

BgeeiA8HAL1.

Interactioni

Subunit structurei

Homotetramer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliA8HAL1.
SMRiA8HAL1. Positions 22-142.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini208 – 814607USPAdd
BLAST

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)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri46 – 12681UBP-typeUniRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiCOG5560.
GeneTreeiENSGT00670000097750.
HOGENOMiHOG000154755.
HOVERGENiHBG062704.
InParanoidiA8HAL1.
KOiK11844.
OMAiECSIQHC.
OrthoDBiEOG7J9VNZ.
PhylomeDBiA8HAL1.
TreeFamiTF326075.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
HAMAPiMF_03062. UBP16.
InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR028889. UCH/PAN2.
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.

A8HAL1-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MGKKKVKDRS AGTDSSSETA GPSCTHIRKG TENSVLKKAC LNEHWSSCQD
60 70 80 90 100
CEQDKPEEKQ ILEDQTDGES PAVWMCLKCG HRGCGRSGNQ HAIKHYETPR
110 120 130 140 150
SEPHCLVLSL DVWSVWCYIC DDEVQYSSTG QLAQLITNIR KQVLTAPDKR
160 170 180 190 200
NASKKSWKED ISVMNSAEQT QDEEKGKKGK QKSSSKQEDS PKSHQSAAAG
210 220 230 240 250
SSAVVSVRGL SNLGNTCFFN AVVQSLSQTQ YLRELLKQIA EEKSSFSITP
260 270 280 290 300
ALSSELDPLQ IQLERPGSLT LAMCQLMNEI QETKKGVVTP KELFTQVCKK
310 320 330 340 350
APRFKGFQQQ DSQELLRYLL DGMRAEEAKR VNSGILEALK SSGKNFEAEQ
360 370 380 390 400
TKKIVKEYEK DGAPKNFVDR VFGGAMSSTV MCKECKTVSL VTEMFLDLSL
410 420 430 440 450
PVADEAYRKK NQKKAVQHRH SVSDDGDQDT SSLANGNEDM PTGTGSKYQQ
460 470 480 490 500
KKAKKQAKKQ AKNQRRQQKQ GGKVTLDAIT NQSSTDPADS SMQTQTVSVN
510 520 530 540 550
GSADAQPADT NQEDLSLEKH NEDQDDEEPE QEQAASVNNR FTALSEDQTT
560 570 580 590 600
EDIAEQVNED EDEIEQNCAE EEELVEELNT MSLTTPSEGD VENGEDTLED
610 620 630 640 650
VKEYTVVNRD PELAFRALAS RTAPVKQECS VESCLYQFTE VEHLTENNRL
660 670 680 690 700
MCVTCTKQQP GYKDGCKKAV YRDALKQMLI SDPPVVLTLH LKRFQQVAYS
710 720 730 740 750
VCKVNRHVQF PQILDLAPFC SLNCTGVKEG ETQVLYSLYG IVEHSGTMRS
760 770 780 790 800
GHYTAYVKSR PSTHNCVQNG TAAASGDAEA SKGSWFHISD SSVHPVPEAK
810
VQSSQAYLLF YEKIS
Length:815
Mass (Da):90,450
Last modified:November 13, 2007 - v1
Checksum:i50CF71DC500EE191
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CR854897 Genomic DNA. Translation: CAP09451.1.
RefSeqiNP_001139569.1. NM_001146097.1.
UniGeneiDr.24329.
Dr.99665.

Genome annotation databases

EnsembliENSDART00000085645; ENSDARP00000080080; ENSDARG00000060633.
GeneIDi569700.
KEGGidre:569700.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CR854897 Genomic DNA. Translation: CAP09451.1 .
RefSeqi NP_001139569.1. NM_001146097.1.
UniGenei Dr.24329.
Dr.99665.

3D structure databases

ProteinModelPortali A8HAL1.
SMRi A8HAL1. Positions 22-142.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSDART00000085645 ; ENSDARP00000080080 ; ENSDARG00000060633 .
GeneIDi 569700.
KEGGi dre:569700.

Organism-specific databases

CTDi 10600.

Phylogenomic databases

eggNOGi COG5560.
GeneTreei ENSGT00670000097750.
HOGENOMi HOG000154755.
HOVERGENi HBG062704.
InParanoidi A8HAL1.
KOi K11844.
OMAi ECSIQHC.
OrthoDBi EOG7J9VNZ.
PhylomeDBi A8HAL1.
TreeFami TF326075.

Miscellaneous databases

NextBioi 20889807.
PROi A8HAL1.

Gene expression databases

Bgeei A8HAL1.

Family and domain databases

Gene3Di 3.30.40.10. 1 hit.
HAMAPi MF_03062. UBP16.
InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR028889. UCH/PAN2.
IPR013083. Znf_RING/FYVE/PHD.
IPR001607. Znf_UBP.
[Graphical view ]
Pfami PF00443. UCH. 1 hit.
PF02148. zf-UBP. 1 hit.
[Graphical view ]
PROSITEi PS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
PS50271. ZF_UBP. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "The zebrafish reference genome sequence and its relationship to the human genome."
    Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M., Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I., Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.
    , White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y., Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B., Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S., Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M., Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J., Clee C., Oliver K., Clark R., Riddle C., Eliott D., Threadgold G., Harden G., Ware D., Mortimer B., Kerry G., Heath P., Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S., Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J., Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J., Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D., McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S., Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E., Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A., Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P., Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J., Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E., Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C., Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C., Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M., Oberlander M., Rudolph-Geiger S., Teucke M., Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M., Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M., de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C., Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.
    Nature 496:498-503(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Tuebingen.

Entry informationi

Entry nameiUBP16_DANRE
AccessioniPrimary (citable) accession number: A8HAL1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: November 13, 2007
Last modified: November 26, 2014
This is version 61 of the entry and version 1 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