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Protein

Ubiquitin carboxyl-terminal hydrolase 38

Gene

USP38

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Deubiquitinating enzyme exhibiting a preference towards 'Lys-63'-linked Ubiquitin chains.1 Publication

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).1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei454NucleophilePROSITE-ProRule annotation1
Active sitei857Proton acceptorPROSITE-ProRule annotation1

GO - Molecular functioni

  • thiol-dependent ubiquitin-specific protease activity Source: FlyBase

GO - Biological processi

  • protein deubiquitination Source: FlyBase
  • ubiquitin-dependent protein catabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protease, Thiol protease

Keywords - Biological processi

Ubl conjugation pathway

Enzyme and pathway databases

BioCyciZFISH:HS10080-MONOMER.

Protein family/group databases

MEROPSiC19.056.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin carboxyl-terminal hydrolase 38 (EC:3.4.19.12)
Alternative name(s):
Deubiquitinating enzyme 38
HP43.8KD
Ubiquitin thioesterase 38
Ubiquitin-specific-processing protease 38
Gene namesi
Name:USP38
Synonyms:KIAA1891
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 4

Organism-specific databases

HGNCiHGNC:20067. USP38.

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000170185.
PharmGKBiPA134880611.

Polymorphism and mutation databases

BioMutaiUSP38.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000806681 – 1042Ubiquitin carboxyl-terminal hydrolase 38Add BLAST1042

Proteomic databases

EPDiQ8NB14.
MaxQBiQ8NB14.
PaxDbiQ8NB14.
PeptideAtlasiQ8NB14.
PRIDEiQ8NB14.

PTM databases

iPTMnetiQ8NB14.
PhosphoSitePlusiQ8NB14.

Expressioni

Tissue specificityi

Highly expressed in skeletal muscle. Expressed in adrenal gland.2 Publications

Gene expression databases

BgeeiENSG00000170185.
CleanExiHS_USP38.
ExpressionAtlasiQ8NB14. baseline and differential.
GenevisibleiQ8NB14. HS.

Organism-specific databases

HPAiHPA047948.

Interactioni

Protein-protein interaction databases

BioGridi124165. 11 interactors.
IntActiQ8NB14. 7 interactors.
STRINGi9606.ENSP00000303434.

Structurei

Secondary structure

11042
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi2 – 9Combined sources8
Helixi15 – 28Combined sources14
Helixi35 – 51Combined sources17
Helixi55 – 71Combined sources17
Helixi73 – 79Combined sources7
Helixi82 – 91Combined sources10
Helixi101 – 114Combined sources14
Helixi120 – 136Combined sources17
Helixi141 – 153Combined sources13
Helixi155 – 157Combined sources3
Helixi162 – 175Combined sources14
Helixi185 – 208Combined sources24
Helixi210 – 212Combined sources3
Helixi213 – 224Combined sources12
Helixi235 – 240Combined sources6
Helixi246 – 258Combined sources13
Helixi264 – 276Combined sources13
Helixi277 – 279Combined sources3
Helixi286 – 299Combined sources14
Helixi303 – 319Combined sources17
Helixi320 – 322Combined sources3
Turni324 – 326Combined sources3
Helixi327 – 340Combined sources14
Helixi346 – 351Combined sources6
Helixi352 – 354Combined sources3
Helixi355 – 362Combined sources8
Helixi368 – 387Combined sources20
Helixi392 – 402Combined sources11
Helixi410 – 416Combined sources7

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4RXXX-ray2.06A1-424[»]
ProteinModelPortaliQ8NB14.
SMRiQ8NB14.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini445 – 949USPAdd BLAST505

Sequence similaritiesi

Belongs to the peptidase C19 family.Curated
Contains 1 USP domain.Curated

Phylogenomic databases

eggNOGiKOG1864. Eukaryota.
ENOG410XQ81. LUCA.
GeneTreeiENSGT00850000132276.
HOGENOMiHOG000007432.
HOVERGENiHBG060424.
InParanoidiQ8NB14.
KOiK11854.
OMAiHYYSYAR.
OrthoDBiEOG091G04E6.
PhylomeDBiQ8NB14.
TreeFamiTF324529.

Family and domain databases

CDDicd02664. Peptidase_C19H. 1 hit.
InterProiIPR001394. Peptidase_C19_UCH.
IPR033840. USP38.
IPR018200. USP_CS.
IPR028889. USP_dom.
[Graphical view]
PfamiPF00443. UCH. 1 hit.
[Graphical view]
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. AlignAdd to basket

Isoform 1 (identifier: Q8NB14-1) [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

        10         20         30         40         50
MDKILEGLVS SSHPLPLKRV IVRKVVESAE HWLDEAQCEA MFDLTTRLIL
60 70 80 90 100
EGQDPFQRQV GHQVLEAYAR YHRPEFESFF NKTFVLGLLH QGYHSLDRKD
110 120 130 140 150
VAILDYIHNG LKLIMSCPSV LDLFSLLQVE VLRMVCERPE PQLCARLSDL
160 170 180 190 200
LTDFVQCIPK GKLSITFCQQ LVRTIGHFQC VSTQERELRE YVSQVTKVSN
210 220 230 240 250
LLQNIWKAEP ATLLPSLQEV FASISSTDAS FEPSVALASL VQHIPLQMIT
260 270 280 290 300
VLIRSLTTDP NVKDASMTQA LCRMIDWLSW PLAQHVDTWV IALLKGLAAV
310 320 330 340 350
QKFTILIDVT LLKIELVFNR LWFPLVRPGA LAVLSHMLLS FQHSPEAFHL
360 370 380 390 400
IVPHVVNLVH SFKNDGLPSS TAFLVQLTEL IHCMMYHYSG FPDLYEPILE
410 420 430 440 450
AIKDFPKPSE EKIKLILNQS AWTSQSNSLA SCLSRLSGKS ETGKTGLINL
460 470 480 490 500
GNTCYMNSVI QALFMATDFR RQVLSLNLNG CNSLMKKLQH LFAFLAHTQR
510 520 530 540 550
EAYAPRIFFE ASRPPWFTPR SQQDCSEYLR FLLDRLHEEE KILKVQASHK
560 570 580 590 600
PSEILECSET SLQEVASKAA VLTETPRTSD GEKTLIEKMF GGKLRTHIRC
610 620 630 640 650
LNCRSTSQKV EAFTDLSLAF CPSSSLENMS VQDPASSPSI QDGGLMQASV
660 670 680 690 700
PGPSEEPVVY NPTTAAFICD SLVNEKTIGS PPNEFYCSEN TSVPNESNKI
710 720 730 740 750
LVNKDVPQKP GGETTPSVTD LLNYFLAPEI LTGDNQYYCE NCASLQNAEK
760 770 780 790 800
TMQITEEPEY LILTLLRFSY DQKYHVRRKI LDNVSLPLVL ELPVKRITSF
810 820 830 840 850
SSLSESWSVD VDFTDLSENL AKKLKPSGTD EASCTKLVPY LLSSVVVHSG
860 870 880 890 900
ISSESGHYYS YARNITSTDS SYQMYHQSEA LALASSQSHL LGRDSPSAVF
910 920 930 940 950
EQDLENKEMS KEWFLFNDSR VTFTSFQSVQ KITSRFPKDT AYVLLYKKQH
960 970 980 990 1000
STNGLSGNNP TSGLWINGDP PLQKELMDAI TKDNKLYLQE QELNARARAL
1010 1020 1030 1040
QAASASCSFR PNGFDDNDPP GSCGPTGGGG GGGFNTVGRL VF
Length:1,042
Mass (Da):116,546
Last modified:October 10, 2003 - v2
Checksum:iD888D4F44C6E7251
GO
Isoform 2 (identifier: Q8NB14-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     990-1042: EQELNARARALQAASASCSFRPNGFDDNDPPGSCGPTGGGGGGGFNTVGRLVF → VSWKYKLYLLKILNN

Note: No experimental confirmation available.
Show »
Length:1,004
Mass (Da):113,157
Checksum:i89960B24E70287A4
GO

Sequence cautioni

The sequence AAK26248 differs from that shown. Reason: Erroneous initiation.Curated
The sequence BAB71627 differs from that shown. Reason: Erroneous initiation.Curated
The sequence BAC03730 differs from that shown. The absence of the residues from Tyr-840 to Ser-871 is not the result of an alternative splicing.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti646M → V in BAC03730 (PubMed:14702039).Curated1
Sequence conflicti919S → G in BAB71627 (PubMed:14702039).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_054486990 – 1042EQELN…GRLVF → VSWKYKLYLLKILNN in isoform 2. 1 PublicationAdd BLAST53

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK057992 mRNA. Translation: BAB71627.1. Different initiation.
AK091712 mRNA. Translation: BAC03730.1. Sequence problems.
AK126943 mRNA. Translation: BAG54405.1.
AL833976 mRNA. Translation: CAD38820.1.
AC099549 Genomic DNA. No translation available.
AC116175 Genomic DNA. No translation available.
CH471056 Genomic DNA. Translation: EAX05075.1.
CH471056 Genomic DNA. Translation: EAX05076.1.
BC039115 mRNA. Translation: AAH39115.1.
BC068975 mRNA. Translation: AAH68975.1.
AB067478 mRNA. Translation: BAB67784.1.
AF211481 mRNA. Translation: AAK26248.1. Different initiation.
CCDSiCCDS3758.1. [Q8NB14-1]
CCDS77964.1. [Q8NB14-2]
RefSeqiNP_001277254.1. NM_001290325.1. [Q8NB14-2]
NP_001277255.1. NM_001290326.1.
NP_115946.2. NM_032557.6. [Q8NB14-1]
UniGeneiHs.480848.

Genome annotation databases

EnsembliENST00000307017; ENSP00000303434; ENSG00000170185. [Q8NB14-1]
ENST00000510377; ENSP00000427647; ENSG00000170185. [Q8NB14-2]
GeneIDi84640.
KEGGihsa:84640.
UCSCiuc003ija.5. human. [Q8NB14-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK057992 mRNA. Translation: BAB71627.1. Different initiation.
AK091712 mRNA. Translation: BAC03730.1. Sequence problems.
AK126943 mRNA. Translation: BAG54405.1.
AL833976 mRNA. Translation: CAD38820.1.
AC099549 Genomic DNA. No translation available.
AC116175 Genomic DNA. No translation available.
CH471056 Genomic DNA. Translation: EAX05075.1.
CH471056 Genomic DNA. Translation: EAX05076.1.
BC039115 mRNA. Translation: AAH39115.1.
BC068975 mRNA. Translation: AAH68975.1.
AB067478 mRNA. Translation: BAB67784.1.
AF211481 mRNA. Translation: AAK26248.1. Different initiation.
CCDSiCCDS3758.1. [Q8NB14-1]
CCDS77964.1. [Q8NB14-2]
RefSeqiNP_001277254.1. NM_001290325.1. [Q8NB14-2]
NP_001277255.1. NM_001290326.1.
NP_115946.2. NM_032557.6. [Q8NB14-1]
UniGeneiHs.480848.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4RXXX-ray2.06A1-424[»]
ProteinModelPortaliQ8NB14.
SMRiQ8NB14.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi124165. 11 interactors.
IntActiQ8NB14. 7 interactors.
STRINGi9606.ENSP00000303434.

Protein family/group databases

MEROPSiC19.056.

PTM databases

iPTMnetiQ8NB14.
PhosphoSitePlusiQ8NB14.

Polymorphism and mutation databases

BioMutaiUSP38.

Proteomic databases

EPDiQ8NB14.
MaxQBiQ8NB14.
PaxDbiQ8NB14.
PeptideAtlasiQ8NB14.
PRIDEiQ8NB14.

Protocols and materials databases

DNASUi84640.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000307017; ENSP00000303434; ENSG00000170185. [Q8NB14-1]
ENST00000510377; ENSP00000427647; ENSG00000170185. [Q8NB14-2]
GeneIDi84640.
KEGGihsa:84640.
UCSCiuc003ija.5. human. [Q8NB14-1]

Organism-specific databases

CTDi84640.
GeneCardsiUSP38.
HGNCiHGNC:20067. USP38.
HPAiHPA047948.
neXtProtiNX_Q8NB14.
OpenTargetsiENSG00000170185.
PharmGKBiPA134880611.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1864. Eukaryota.
ENOG410XQ81. LUCA.
GeneTreeiENSGT00850000132276.
HOGENOMiHOG000007432.
HOVERGENiHBG060424.
InParanoidiQ8NB14.
KOiK11854.
OMAiHYYSYAR.
OrthoDBiEOG091G04E6.
PhylomeDBiQ8NB14.
TreeFamiTF324529.

Enzyme and pathway databases

BioCyciZFISH:HS10080-MONOMER.

Miscellaneous databases

ChiTaRSiUSP38. human.
GenomeRNAii84640.
PROiQ8NB14.

Gene expression databases

BgeeiENSG00000170185.
CleanExiHS_USP38.
ExpressionAtlasiQ8NB14. baseline and differential.
GenevisibleiQ8NB14. HS.

Family and domain databases

CDDicd02664. Peptidase_C19H. 1 hit.
InterProiIPR001394. Peptidase_C19_UCH.
IPR033840. USP38.
IPR018200. USP_CS.
IPR028889. USP_dom.
[Graphical view]
PfamiPF00443. UCH. 1 hit.
[Graphical view]
PROSITEiPS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiUBP38_HUMAN
AccessioniPrimary (citable) accession number: Q8NB14
Secondary accession number(s): B3KX93
, Q3ZCV1, Q8NDF5, Q96DK6, Q96PZ6, Q9BY55
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 10, 2003
Last sequence update: October 10, 2003
Last modified: November 30, 2016
This is version 124 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 4
    Human chromosome 4: entries, gene names and cross-references to MIM
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. Peptidase families
    Classification of peptidase families and list of entries
  4. 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.