Reviewed, UniProtKB/Swiss-Prot Q13107 (UBP4_HUMAN)

Names and origin

Protein names

Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 4
    EC=3.1.2.15
Alternative name(s):
    Ubiquitin thioesterase 4
    Ubiquitin-specific-processing protease 4
    Deubiquitinating enzyme 4
    Ubiquitous nuclear protein homolog

Gene names

Name:	USP4
Synonyms:	UNP, UNPH

Organism

Homo sapiens (Human) [Complete proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	963 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level.

General annotation (Comments)

Catalytic activity	Ubiquitin C-terminal thioester + H2O = ubiquitin + a thiol.
Subcellular location	Cytoplasm.
Sequence similarities	Belongs to the peptidase C19 family. Contains 1 DUSP domain.

Ontologies

Keywords
Biological process	Ubl conjugation pathway
Cellular component	Cytoplasm
Coding sequence diversity	Alternative splicing Polymorphism
Molecular function	Hydrolase Protease Thiol protease
PTM	Phosphoprotein
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	ubiquitin-dependent protein catabolic process Inferred from electronic annotation. Source: InterPro
Cellular component	lysosome Traceable author statement. Source: ProtInc nucleus Traceable author statement. Source: ProtInc
Molecular function	cysteine-type endopeptidase activity Ref.3 Traceable author statement. Source: ProtInc protein binding Inferred from physical interaction. Source: IntAct ubiquitin thiolesterase activity Inferred from electronic annotation. Source: EC ubiquitin-specific protease activity Ref.3 Traceable author statement. Source: ProtInc
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
TRIM21	P19474	3	EBI-723305,EBI-81290

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform UNPEL (identifier: Q13107-1)

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 UNPES (identifier: Q13107-2)

The sequence of this isoform differs from the canonical sequence as follows:
     232-279: KSSTAPSRNFTTSPKSSASPYSSVSASLIANGDSTSTCGMHSSGVSRG → N

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 963	963	Ubiquitin carboxyl-terminal hydrolase 4		PRO_0000080621
Regions
	Domain	11 – 122	112	DUSP
Sites
	Active site	311	1
	Active site	873	1	By similarity
	Active site	881	1	By similarity
Amino acid modifications
	Modified residue	680	1	Phosphoserine By similarity
Natural variations
	Alternative sequence	232 – 279	48	KSSTA…GVSRG → N in isoform UNPES.		VSP_005258
	Natural variant	620	1	Y → C: dbSNP rs9311440.		VAR_028180
Experimental info
	Mutagenesis	311	1	C → A: Loss of activity.
	Sequence conflict	373	1	R → S in AAB72237. Ref.1
	Sequence conflict	744	1	S → R in AAB72237. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Isoform UNPEL [UniParc]. Last modified October 17, 2006. Version 3. Checksum: 63055C9ADFE36713	FASTA	963	108,565
	10 20 30 40 50 60 MAEGGGCRER PDAETQKSEL GPLMRTTLQR GAQWYLIDSR WFKQWKKYVG FDSWDMYNVG 70 80 90 100 110 120 EHNLFPGPID NSGLFSDPES QTLKEHLIDE LDYVLVPTEA WNKLLNWYGC VEGQQPIVRK 130 140 150 160 170 180 VVEHGLFVKH CKVEVYLLEL KLCENSDPTN VLSCHFSKAD TIATIEKEMR KLFNIPAERE 190 200 210 220 230 240 TRLWNKYMSN TYEQLSKLDN TVQDAGLYQG QVLVIEPQNE DGTWPRQTLQ SKSSTAPSRN 250 260 270 280 290 300 FTTSPKSSAS PYSSVSASLI ANGDSTSTCG MHSSGVSRGG SGFSASYNCQ EPPSSHIQPG 310 320 330 340 350 360 LCGLGNLGNT CFMNSALQCL SNTAPLTDYF LKDEYEAEIN RDNPLGMKGE IAEAYAELIK 370 380 390 400 410 420 QMWSGRDAHV APRMFKTQVG RFAPQFSGYQ QQDSQELLAF LLDGLHEDLN RVKKKPYLEL 430 440 450 460 470 480 KDANGRPDAV VAKEAWENHR LRNDSVIVDT FHGLFKSTLV CPECAKVSVT FDPFCYLTLP 490 500 510 520 530 540 LPLKKDRVME VFLVPADPHC RPTQYRVTVP LMGAVSDLCE ALSRLSGIAA ENMVVADVYN 550 560 570 580 590 600 HRFHKIFQMD EGLNHIMPRD DIFVYEVCST SVDGSECVTL PVYFRERKSR PSSTSSASAL 610 620 630 640 650 660 YGQPLLLSVP KHKLTLESLY QAVCDRISRY VKQPLPDEFG SSPLEPGACN GSRNSCEGED 670 680 690 700 710 720 EEEMEHQEEG KEQLSETEGS GEDEPGNDPS ETTQKKIKGQ PCPKRLFTFS LVNSYGTADI 730 740 750 760 770 780 NSLAADGKLL KLNSRSTLAM DWDSETRRLY YDEQESEAYE KHVSMLQPQK KKKTTVALRD 790 800 810 820 830 840 CIELFTTMET LGEHDPWYCP NCKKHQQATK KFDLWSLPKI LVVHLKRFSY NRYWRDKLDT 850 860 870 880 890 900 VVEFPIRGLN MSEFVCNLSA RPYVYDLIAV SNHYGAMGVG HYTAYAKNKL NGKWYYFDDS 910 920 930 940 950 960 NVSLASEDQI VTKAAYVLFY QRRDDEFYKT PSLSSSGSSD GGTRPSSSQQ GFGDDEACSM DTN
	Isoform UNPES. Checksum: 86CBBDE6AA2AB04E	FASTA	916	103,958
	10 20 30 40 50 60 MAEGGGCRER PDAETQKSEL GPLMRTTLQR GAQWYLIDSR WFKQWKKYVG FDSWDMYNVG 70 80 90 100 110 120 EHNLFPGPID NSGLFSDPES QTLKEHLIDE LDYVLVPTEA WNKLLNWYGC VEGQQPIVRK 130 140 150 160 170 180 VVEHGLFVKH CKVEVYLLEL KLCENSDPTN VLSCHFSKAD TIATIEKEMR KLFNIPAERE 190 200 210 220 230 240 TRLWNKYMSN TYEQLSKLDN TVQDAGLYQG QVLVIEPQNE DGTWPRQTLQ SNGSGFSASY 250 260 270 280 290 300 NCQEPPSSHI QPGLCGLGNL GNTCFMNSAL QCLSNTAPLT DYFLKDEYEA EINRDNPLGM 310 320 330 340 350 360 KGEIAEAYAE LIKQMWSGRD AHVAPRMFKT QVGRFAPQFS GYQQQDSQEL LAFLLDGLHE 370 380 390 400 410 420 DLNRVKKKPY LELKDANGRP DAVVAKEAWE NHRLRNDSVI VDTFHGLFKS TLVCPECAKV 430 440 450 460 470 480 SVTFDPFCYL TLPLPLKKDR VMEVFLVPAD PHCRPTQYRV TVPLMGAVSD LCEALSRLSG 490 500 510 520 530 540 IAAENMVVAD VYNHRFHKIF QMDEGLNHIM PRDDIFVYEV CSTSVDGSEC VTLPVYFRER 550 560 570 580 590 600 KSRPSSTSSA SALYGQPLLL SVPKHKLTLE SLYQAVCDRI SRYVKQPLPD EFGSSPLEPG 610 620 630 640 650 660 ACNGSRNSCE GEDEEEMEHQ EEGKEQLSET EGSGEDEPGN DPSETTQKKI KGQPCPKRLF 670 680 690 700 710 720 TFSLVNSYGT ADINSLAADG KLLKLNSRST LAMDWDSETR RLYYDEQESE AYEKHVSMLQ 730 740 750 760 770 780 PQKKKKTTVA LRDCIELFTT METLGEHDPW YCPNCKKHQQ ATKKFDLWSL PKILVVHLKR 790 800 810 820 830 840 FSYNRYWRDK LDTVVEFPIR GLNMSEFVCN LSARPYVYDL IAVSNHYGAM GVGHYTAYAK 850 860 870 880 890 900 NKLNGKWYYF DDSNVSLASE DQIVTKAAYV LFYQRRDDEF YKTPSLSSSG SSDGGTRPSS 910 SQQGFGDDEA CSMDTN

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Elevated expression of Unph, a proto-oncogene at 3p21.3, in human lung tumors." Gray D.A., Inazawa J., Gupta K., Wong A., Ueda R., Takahashi T. Oncogene 10:2179-2183(1995) [PubMed: 7784062] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Brain cortex.
[2]	Gray D.A. Submitted (OCT-1997) to the EMBL/GenBank/DDBJ databases Cited for: SEQUENCE REVISION.
[3]	"The human UNP locus at 3p21.31 encodes two tissue-selective, cytoplasmic isoforms with deubiquitinating activity that have reduced expression in small cell lung carcinoma cell lines." Frederick A., Rolfe M., Chiu M.I. Oncogene 16:153-165(1998) [PubMed: 9464533] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], ALTERNATIVE SPLICING.
[4]	"Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S. Nat. Genet. 36:40-45(2004) [PubMed: 14702039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM UNPEL). Tissue: Placenta.
[5]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
[6]	Colinge J., Superti-Furga G., Bennett K.L. Submitted (OCT-2008) to UniProtKB Cited for: IDENTIFICATION [LARGE SCALE ANALYSIS], MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U20657 mRNA. Translation: AAB72237.1. AF017305 mRNA. Translation: AAC27355.1. AF017306 mRNA. Translation: AAC27356.1. AK291795 mRNA. Translation: BAF84484.1. BC125130 mRNA. Translation: AAI25131.1.
IPI	IPI00011836. IPI00216257.
PIR	T09478.
RefSeq	NP_003354.2. NP_955475.1.
UniGene	Hs.403828 Hs.714416 Hs.77500
3D structure databases
SMR	Q13107. Positions 1-124.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q13107. 2 interactions.
STRING	Q13107.
Protein family/group databases
MEROPS	C19.010.
PTM databases
PhosphoSite	Q13107.
Proteomic databases
PRIDE	Q13107.
Genome annotation databases
Ensembl	ENST00000265560; ENSP00000265560; ENSG00000114316; Homo sapiens. [Genome view]
GeneID	7375.
KEGG	hsa:7375.
UCSC	uc003cwq.1. human. uc003cwr.1. human.
Organism-specific databases
CTD	7375.
GeneCards	GC03M049290.
H-InvDB	HIX0022014.
HGNC	HGNC:12627. USP4.
HPA	HPA018499.
MIM	603486. gene.
PharmGKB	PA27527.
GenAtlas	Search...
Phylogenomic databases
eggNOG	prNOG11241.
HOGENOM	HBG318284.
HOVERGEN	Q13107.
InParanoid	Q13107.
OMA	CRPTQYR.
OrthoDB	EOG9HX7K9.
PhylomeDB	Q13107.
Enzyme and pathway databases
BRENDA	3.1.2.15. 247.
Gene expression databases
ArrayExpress	Q13107.
Bgee	Q13107.
CleanEx	HS_USP4.
Genevestigator	Q13107.
GermOnline	ENSG00000114316. Homo sapiens.
Family and domain databases
InterPro	IPR006615. Pept_C19_DUSP. IPR018200. Pept_C19ubi-hydrolase_C_CS. IPR001394. Peptidase_C19. [Graphical view]
Pfam	PF00443. UCH. 1 hit. [Graphical view]
SMART	SM00695. DUSP. 1 hit. [Graphical view]
PROSITE	PS51283. DUSP. 1 hit. PS00972. UCH_2_1. 1 hit. PS00973. UCH_2_2. 1 hit. PS50235. UCH_2_3. 1 hit. [Graphical view]
ProtoNet	Search...
Other Resources
NextBio	28880.
SOURCE	Search...

Entry information

Entry name

UBP4_HUMAN

Accession

Primary (citable) accession number: Q13107
Secondary accession number(s): A8K6Y0 , O43452, O43453, Q08AK8

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	October 17, 2006
Last modified:	February 9, 2010
This is version 95 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)

Disclaimer

Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.