UBP54_RAT
ID UBP54_RAT Reviewed; 1588 AA.
AC Q6IE24; Q4QQU8;
DT 19-SEP-2006, integrated into UniProtKB/Swiss-Prot.
DT 25-NOV-2008, sequence version 2.
DT 03-AUG-2022, entry version 95.
DE RecName: Full=Inactive ubiquitin carboxyl-terminal hydrolase 54;
DE AltName: Full=Inactive ubiquitin-specific peptidase 54;
GN Name=Usp54;
OS Rattus norvegicus (Rat).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC Murinae; Rattus.
OX NCBI_TaxID=10116;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Brown Norway;
RX PubMed=15057822; DOI=10.1038/nature02426;
RA Gibbs R.A., Weinstock G.M., Metzker M.L., Muzny D.M., Sodergren E.J.,
RA Scherer S., Scott G., Steffen D., Worley K.C., Burch P.E., Okwuonu G.,
RA Hines S., Lewis L., Deramo C., Delgado O., Dugan-Rocha S., Miner G.,
RA Morgan M., Hawes A., Gill R., Holt R.A., Adams M.D., Amanatides P.G.,
RA Baden-Tillson H., Barnstead M., Chin S., Evans C.A., Ferriera S.,
RA Fosler C., Glodek A., Gu Z., Jennings D., Kraft C.L., Nguyen T.,
RA Pfannkoch C.M., Sitter C., Sutton G.G., Venter J.C., Woodage T., Smith D.,
RA Lee H.-M., Gustafson E., Cahill P., Kana A., Doucette-Stamm L.,
RA Weinstock K., Fechtel K., Weiss R.B., Dunn D.M., Green E.D.,
RA Blakesley R.W., Bouffard G.G., De Jong P.J., Osoegawa K., Zhu B., Marra M.,
RA Schein J., Bosdet I., Fjell C., Jones S., Krzywinski M., Mathewson C.,
RA Siddiqui A., Wye N., McPherson J., Zhao S., Fraser C.M., Shetty J.,
RA Shatsman S., Geer K., Chen Y., Abramzon S., Nierman W.C., Havlak P.H.,
RA Chen R., Durbin K.J., Egan A., Ren Y., Song X.-Z., Li B., Liu Y., Qin X.,
RA Cawley S., Cooney A.J., D'Souza L.M., Martin K., Wu J.Q.,
RA Gonzalez-Garay M.L., Jackson A.R., Kalafus K.J., McLeod M.P.,
RA Milosavljevic A., Virk D., Volkov A., Wheeler D.A., Zhang Z., Bailey J.A.,
RA Eichler E.E., Tuzun E., Birney E., Mongin E., Ureta-Vidal A., Woodwark C.,
RA Zdobnov E., Bork P., Suyama M., Torrents D., Alexandersson M., Trask B.J.,
RA Young J.M., Huang H., Wang H., Xing H., Daniels S., Gietzen D., Schmidt J.,
RA Stevens K., Vitt U., Wingrove J., Camara F., Mar Alba M., Abril J.F.,
RA Guigo R., Smit A., Dubchak I., Rubin E.M., Couronne O., Poliakov A.,
RA Huebner N., Ganten D., Goesele C., Hummel O., Kreitler T., Lee Y.-A.,
RA Monti J., Schulz H., Zimdahl H., Himmelbauer H., Lehrach H., Jacob H.J.,
RA Bromberg S., Gullings-Handley J., Jensen-Seaman M.I., Kwitek A.E.,
RA Lazar J., Pasko D., Tonellato P.J., Twigger S., Ponting C.P., Duarte J.M.,
RA Rice S., Goodstadt L., Beatson S.A., Emes R.D., Winter E.E., Webber C.,
RA Brandt P., Nyakatura G., Adetobi M., Chiaromonte F., Elnitski L.,
RA Eswara P., Hardison R.C., Hou M., Kolbe D., Makova K., Miller W.,
RA Nekrutenko A., Riemer C., Schwartz S., Taylor J., Yang S., Zhang Y.,
RA Lindpaintner K., Andrews T.D., Caccamo M., Clamp M., Clarke L., Curwen V.,
RA Durbin R.M., Eyras E., Searle S.M., Cooper G.M., Batzoglou S., Brudno M.,
RA Sidow A., Stone E.A., Payseur B.A., Bourque G., Lopez-Otin C., Puente X.S.,
RA Chakrabarti K., Chatterji S., Dewey C., Pachter L., Bray N., Yap V.B.,
RA Caspi A., Tesler G., Pevzner P.A., Haussler D., Roskin K.M., Baertsch R.,
RA Clawson H., Furey T.S., Hinrichs A.S., Karolchik D., Kent W.J.,
RA Rosenbloom K.R., Trumbower H., Weirauch M., Cooper D.N., Stenson P.D.,
RA Ma B., Brent M., Arumugam M., Shteynberg D., Copley R.R., Taylor M.S.,
RA Riethman H., Mudunuri U., Peterson J., Guyer M., Felsenfeld A., Old S.,
RA Mockrin S., Collins F.S.;
RT "Genome sequence of the Brown Norway rat yields insights into mammalian
RT evolution.";
RL Nature 428:493-521(2004).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1013-1588 (ISOFORM 1).
RC TISSUE=Placenta;
RX PubMed=15489334; DOI=10.1101/gr.2596504;
RG The MGC Project Team;
RT "The status, quality, and expansion of the NIH full-length cDNA project:
RT the Mammalian Gene Collection (MGC).";
RL Genome Res. 14:2121-2127(2004).
RN [3]
RP IDENTIFICATION (ISOFORM 2).
RX PubMed=15060002; DOI=10.1101/gr.1946304;
RA Puente X.S., Lopez-Otin C.;
RT "A genomic analysis of rat proteases and protease inhibitors.";
RL Genome Res. 14:609-622(2004).
RN [4]
RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-424 AND SER-1138, AND
RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RX PubMed=22673903; DOI=10.1038/ncomms1871;
RA Lundby A., Secher A., Lage K., Nordsborg N.B., Dmytriyev A., Lundby C.,
RA Olsen J.V.;
RT "Quantitative maps of protein phosphorylation sites across 14 different rat
RT organs and tissues.";
RL Nat. Commun. 3:876-876(2012).
CC -!- FUNCTION: Has no peptidase activity. {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q6IE24-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q6IE24-2; Sequence=VSP_035681, VSP_035682;
CC -!- SIMILARITY: Belongs to the peptidase C19 family. {ECO:0000305}.
CC -!- CAUTION: Although the active site residues are conserved, lacks the
CC conserved His residue which is normally found 9 residues before the
CC catalytic His. {ECO:0000305}.
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DR EMBL; AABR03094963; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; BC097982; AAH97982.1; -; mRNA.
DR EMBL; BN000369; CAE51895.1; -; mRNA.
DR RefSeq; NP_001008863.2; NM_001008863.3. [Q6IE24-1]
DR AlphaFoldDB; Q6IE24; -.
DR STRING; 10116.ENSRNOP00000038767; -.
DR MEROPS; C19.080; -.
DR iPTMnet; Q6IE24; -.
DR PhosphoSitePlus; Q6IE24; -.
DR PaxDb; Q6IE24; -.
DR PRIDE; Q6IE24; -.
DR Ensembl; ENSRNOT00000029615; ENSRNOP00000038767; ENSRNOG00000027012. [Q6IE24-1]
DR Ensembl; ENSRNOT00000099921; ENSRNOP00000097777; ENSRNOG00000027012. [Q6IE24-2]
DR GeneID; 408223; -.
DR KEGG; rno:408223; -.
DR UCSC; RGD:1303206; rat. [Q6IE24-1]
DR CTD; 159195; -.
DR RGD; 1303206; Usp54.
DR eggNOG; KOG1887; Eukaryota.
DR GeneTree; ENSGT00940000155571; -.
DR InParanoid; Q6IE24; -.
DR PhylomeDB; Q6IE24; -.
DR TreeFam; TF336130; -.
DR PRO; PR:Q6IE24; -.
DR Proteomes; UP000002494; Chromosome 15.
DR Bgee; ENSRNOG00000027012; Expressed in cerebellum and 20 other tissues.
DR ExpressionAtlas; Q6IE24; baseline and differential.
DR Genevisible; Q6IE24; RN.
DR GO; GO:0004843; F:cysteine-type deubiquitinase activity; IEA:InterPro.
DR GO; GO:0016579; P:protein deubiquitination; IEA:InterPro.
DR InterPro; IPR038765; Papain-like_cys_pep_sf.
DR InterPro; IPR001394; Peptidase_C19_UCH.
DR InterPro; IPR040142; USP54.
DR InterPro; IPR028889; USP_dom.
DR PANTHER; PTHR22975:SF5; PTHR22975:SF5; 3.
DR Pfam; PF00443; UCH; 1.
DR SUPFAM; SSF54001; SSF54001; 1.
DR PROSITE; PS50235; USP_3; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Coiled coil; Methylation; Phosphoprotein;
KW Reference proteome.
FT CHAIN 1..1588
FT /note="Inactive ubiquitin carboxyl-terminal hydrolase 54"
FT /id="PRO_0000249532"
FT DOMAIN 31..352
FT /note="USP"
FT REGION 380..447
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 459..519
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 601..620
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 801..839
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 856..895
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 950..969
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1093..1172
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1525..1562
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COILED 678..712
FT /evidence="ECO:0000255"
FT COMPBIAS 380..418
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 459..474
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 495..515
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 603..617
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 874..895
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1093..1119
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 12
FT /note="Omega-N-methylarginine"
FT /evidence="ECO:0000250|UniProtKB:Q8BL06"
FT MOD_RES 424
FT /note="Phosphoserine"
FT /evidence="ECO:0007744|PubMed:22673903"
FT MOD_RES 574
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q70EL1"
FT MOD_RES 613
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q70EL1"
FT MOD_RES 616
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q8BL06"
FT MOD_RES 1138
FT /note="Phosphoserine"
FT /evidence="ECO:0007744|PubMed:22673903"
FT VAR_SEQ 383..446
FT /note="HLTDSECNQKHTTKKGPLVERRRGSGRIRRKADAPQASGYHSEGETLKEKQA
FT PRNASKSSSTSR -> EQLSSPATPYSPMVGSHTQVSTELGERGSVTVREKGQPVCTQL
FT IPIRLVFLCFQSVLLKSAGLK (in isoform 2)"
FT /evidence="ECO:0000305"
FT /id="VSP_035681"
FT VAR_SEQ 447..1588
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000305"
FT /id="VSP_035682"
FT CONFLICT 1502
FT /note="S -> F (in Ref. 2; AAH97982)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 1588 AA; 176155 MW; 582B9DD5DE9B6916 CRC64;
MSWKRNYFSG GRGSVQGMFA PRSSMSIAPS KGLSNEPGQN SCFLNSALQV LWHLDIFRRS
FRQLTSHKCM GDSCIFCALK GIFKQFQCSS EKVLPSDTLR SALAKTFQDE QRFQLGIMDD
AAECFENLLM RIHFHIADET KEDICTAPHC ISHQKFAMTL FEQCVCTSCG ATSDPLPFIQ
MVHYISTTSL CNQAICMLEK REKPSPGMFG ELLQNASTMG DLRDCPSNCG ERIRIRRVLM
NAPQIITIGL VWDSDHSDLA EDVIHSLGTC LKLGDLFFRV TDDRAKQSEL YLVGMICYYG
KHYSTFFFQT KIRKWMYFDD AHVKEIGPKW KDVVTKCIKG HYQPLLLLYA DPQGTPVSAQ
DLPPHAQLLS HTKTCYDSED SGHLTDSECN QKHTTKKGPL VERRRGSGRI RRKADAPQAS
GYHSEGETLK EKQAPRNASK SSSTSRLKDF KETVSNMIHS RPSLASQTNA ASPCVGRAGD
QPDKIPARNL PLHSRGWETE STSSEARSSS SSKYRPTWRP KRESLNIDSI FSKDKRKHCG
YTQLKTFPED AAKEFAQDEV SNPVANDIKD GGPSSQHKLW GTARPGSHLL EQHPRLIQRM
ESGYESSERN SSSPVSLDAA PPECLNVYRD QSTKRAVGFV PSWRHIPKSH SSSILEVDST
APVTGWTETQ PFSDGEITSK SELDELQEEV ARRAQEQELR KKREKELEAA KGFNPHPSRY
MDLDELQNQG RSDGFERSLQ EANSVFEESL HLEQEGDCAA ALALCNEAIS KLRLTLHDAS
SSTHSRALVD KKLQISIRKA RSLQDRMQQQ PPSQQPVQPS ASLPSQGGGL PQPTSEQSVP
LQVLLSQQTQ LEPCKDSELG ATSPFFHSPA SCPEPHSSLV SPSPAQSVSQ HSPPGTSALK
LLKSFEVDIV NHSAFHRQDL PKATGRTEMN SQHECLPFDA LEDRLQGHRE DNSCCSKFPP
QEGRDTTQDQ LLEGRKTPVD ISMGMPWSHS AGGATSERVM HSLNSPSSPS AQPAVPPYGA
CHPIMSAAAS PVLHAADPMQ KLNQHLQAQS LQTSLASKVV RGSEEPYRPE FPSTKGLVRS
LAEQFQKIRN TSTRDVIGSQ DRSLPNGLRK SSSPSDFMLP LSQGPEKEHC RWVNQPPSPD
GRERQPCWEE PAGHPSVSID SGLPNGEASR RRQPRLAEAD IYQGKLPQVT DTRPTELGSS
VSLGTSLPLD SWVNVTRLCD SQVKHRAPGL GVKSSSHDSR TCVTYPERNP ILLHPHWNQD
TEQETSELES LYQASLQASS HTGYSDWRSQ DVAWQPLSLT GSADGMGRRL HSAPGLDLSK
TPTAEMERIL YEPSTVPVSQ DSSNVRKKTL ETGHHCSSSS SLPVIHDPPV FLLDPKLYPP
QPQFLSPDVL MPSMAGEPYR SPGTSRSVQQ FLAMCDRDET PQGVKYTGRT LNYRSLPHRS
RTDASWGPGT ETNQHIGARV LTAPACKPQL TYTATLPERH QGLQVPHAQS WGNLFHLPSH
PSAVHPGSPP SSSLHVLHRS SWNSGSVLGS RTPGPRRIDV PPDDDGRQSQ YPSQYRHRSA
GEERVRFALS NTAGTEQSRV RLLQHSRW
