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Ubiquitin-60S ribosomal protein L40 (Ubiquitin A-52 residue ribosomal protein fusion product 1) [Cleaved into: Ubiquitin; 60S ribosomal protein L40 (CEP52)]

 RL40_BOVIN              Reviewed;         128 AA.
P63048; O97577; P02248; P02249; P02250; P62990; P80169; Q01235;
Q24K23; Q28169; Q28170; Q29120; Q3T0V5; Q3ZCE3; Q862C1; Q862F4;
Q862M4; Q862T5; Q862X8; Q91887; Q91888;
31-AUG-2004, integrated into UniProtKB/Swiss-Prot.
10-AUG-2010, sequence version 2.
27-SEP-2017, entry version 97.
RecName: Full=Ubiquitin-60S ribosomal protein L40;
AltName: Full=Ubiquitin A-52 residue ribosomal protein fusion product 1;
Contains:
RecName: Full=Ubiquitin;
Contains:
RecName: Full=60S ribosomal protein L40;
AltName: Full=CEP52;
Flags: Precursor;
Name=UBA52; Synonyms=UBCEP2;
Bos taurus (Bovine).
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Mammalia; Eutheria; Laurasiatheria; Cetartiodactyla; Ruminantia;
Pecora; Bovidae; Bovinae; Bos.
NCBI_TaxID=9913;
[1]
NUCLEOTIDE SEQUENCE [MRNA].
PubMed=12658628; DOI=10.1002/mrd.10292;
Ishiwata H., Katsuma S., Kizaki K., Patel O.V., Nakano H.,
Takahashi T., Imai K., Hirasawa A., Shiojima S., Ikawa H., Suzuki Y.,
Tsujimoto G., Izaike Y., Todoroki J., Hashizume K.;
"Characterization of gene expression profiles in early bovine
pregnancy using a custom cDNA microarray.";
Mol. Reprod. Dev. 65:9-18(2003).
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
STRAIN=Crossbred X Angus; TISSUE=Ileum, and Liver;
NIH - Mammalian Gene Collection (MGC) project;
Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases.
[3]
PROTEIN SEQUENCE OF 1-74.
PubMed=1170880; DOI=10.1021/bi00681a026;
Schlesinger D.H., Goldstein G., Niall H.D.;
"The complete amino acid sequence of ubiquitin, an adenylate cyclase
stimulating polypeptide probably universal in living cells.";
Biochemistry 14:2214-2218(1975).
[4]
PROTEIN SEQUENCE OF 1-50.
PubMed=6254502; DOI=10.1016/0006-291X(80)91188-2;
Hamilton J.W., Rouse J.B.;
"The biosynthesis of ubiquitin by parathyroid gland.";
Biochem. Biophys. Res. Commun. 96:114-120(1980).
[5]
PROTEIN SEQUENCE OF 1-20.
TISSUE=Brain;
PubMed=1333954; DOI=10.1111/j.1432-1033.1992.tb17446.x;
Zdebska E., Antoniewicz J., Nilsson B., Sandhoff K., Fuerst W.,
Janik P., Koscielak J.;
"Ganglioside binding proteins of calf brain with ubiquitin-like N-
terminals.";
Eur. J. Biochem. 210:483-489(1992).
-!- FUNCTION: Ubiquitin: Exists either covalently attached to another
protein, or free (unanchored). When covalently bound, it is
conjugated to target proteins via an isopeptide bond either as a
monomer (monoubiquitin), a polymer linked via different Lys
residues of the ubiquitin (polyubiquitin chains) or a linear
polymer linked via the initiator Met of the ubiquitin (linear
polyubiquitin chains). Polyubiquitin chains, when attached to a
target protein, have different functions depending on the Lys
residue of the ubiquitin that is linked: Lys-6-linked may be
involved in DNA repair; Lys-11-linked is involved in ERAD
(endoplasmic reticulum-associated degradation) and in cell-cycle
regulation; Lys-29-linked is involved in lysosomal degradation;
Lys-33-linked is involved in kinase modification; Lys-48-linked is
involved in protein degradation via the proteasome; Lys-63-linked
is involved in endocytosis, DNA-damage responses as well as in
signaling processes leading to activation of the transcription
factor NF-kappa-B. Linear polymer chains formed via attachment by
the initiator Met lead to cell signaling. Ubiquitin is usually
conjugated to Lys residues of target proteins, however, in rare
cases, conjugation to Cys or Ser residues has been observed. When
polyubiquitin is free (unanchored-polyubiquitin), it also has
distinct roles, such as in activation of protein kinases, and in
signaling (By similarity). {ECO:0000250}.
-!- FUNCTION: 60S ribosomal protein L40: Component of the 60S subunit
of the ribosome. {ECO:0000250}.
-!- SUBUNIT: Ribosomal protein L40 is part of the 60S ribosomal
subunit. Interacts with UBQLN1 (via UBA domain).
{ECO:0000250|UniProtKB:P62987}.
-!- SUBCELLULAR LOCATION: Ubiquitin: Cytoplasm {ECO:0000250}. Nucleus
{ECO:0000250}.
-!- SUBCELLULAR LOCATION: 60S ribosomal protein L40: Cytoplasm
{ECO:0000250}.
-!- PTM: Ubiquitin: Phosphorylated at Ser-65 by PINK1 during
mitophagy. Phosphorylated ubiquitin specifically binds and
activates parkin (PRKN), triggering mitophagy. Phosphorylation
does not affect E1-mediated E2 charging of ubiquitin but affects
discharging of E2 enzymes to form polyubiquitin chains. It also
affects deubiquitination by deubiquitinase enzymes such as USP30.
{ECO:0000250|UniProtKB:P62987}.
-!- MISCELLANEOUS: Ubiquitin is encoded by 4 different genes. Uba52
and Rps27a genes code for a single copy of ubiquitin fused to the
ribosomal proteins L40 and S27a, respectively. UBB and UBC genes
code for a polyubiquitin precursor with exact head to tail
repeats, the number of repeats differ between species and strains.
-!- SIMILARITY: In the N-terminal section; belongs to the ubiquitin
family. {ECO:0000305}.
-!- SIMILARITY: In the C-terminal section; belongs to the eukaryotic
ribosomal protein eL40 family. {ECO:0000305}.
-!- SEQUENCE CAUTION:
Sequence=BAC56447.1; Type=Frameshift; Positions=96, 116; Evidence={ECO:0000305};
-----------------------------------------------------------------------
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EMBL; AB098957; BAC56447.1; ALT_FRAME; mRNA.
EMBL; BC102248; AAI02249.1; -; mRNA.
RefSeq; NP_001069831.1; NM_001076363.2.
UniGene; Bt.13691; -.
PDB; 4LJO; X-ray; 1.56 A; B=1-76.
PDB; 4LJP; X-ray; 2.15 A; B=1-76.
PDB; 4S22; X-ray; 2.30 A; A/B/C/D=1-76.
PDBsum; 4LJO; -.
PDBsum; 4LJP; -.
PDBsum; 4S22; -.
ProteinModelPortal; P63048; -.
SMR; P63048; -.
STRING; 9913.ENSBTAP00000010176; -.
PaxDb; P63048; -.
PRIDE; P63048; -.
Ensembl; ENSBTAT00000010176; ENSBTAP00000010176; ENSBTAG00000007737.
GeneID; 615199; -.
KEGG; bta:615199; -.
CTD; 7311; -.
eggNOG; KOG0003; Eukaryota.
eggNOG; COG1552; LUCA.
eggNOG; COG5272; LUCA.
GeneTree; ENSGT00870000136502; -.
HOVERGEN; HBG079132; -.
InParanoid; P63048; -.
KO; K02927; -.
OMA; RKTKCGH; -.
OrthoDB; EOG091G178I; -.
TreeFam; TF352129; -.
Reactome; R-BTA-110312; Translesion synthesis by REV1.
Reactome; R-BTA-110314; Recognition of DNA damage by PCNA-containing replication complex.
Reactome; R-BTA-110320; Translesion Synthesis by POLH.
Reactome; R-BTA-1169091; Activation of NF-kappaB in B cells.
Reactome; R-BTA-1234176; Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha.
Reactome; R-BTA-1253288; Downregulation of ERBB4 signaling.
Reactome; R-BTA-1295596; Spry regulation of FGF signaling.
Reactome; R-BTA-1358803; Downregulation of ERBB2:ERBB3 signaling.
Reactome; R-BTA-156827; L13a-mediated translational silencing of Ceruloplasmin expression.
Reactome; R-BTA-168638; NOD1/2 Signaling Pathway.
Reactome; R-BTA-174048; APC/C:Cdc20 mediated degradation of Cyclin B.
Reactome; R-BTA-174084; Autodegradation of Cdh1 by Cdh1:APC/C.
Reactome; R-BTA-174113; SCF-beta-TrCP mediated degradation of Emi1.
Reactome; R-BTA-174154; APC/C:Cdc20 mediated degradation of Securin.
Reactome; R-BTA-174178; APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1.
Reactome; R-BTA-174184; Cdc20:Phospho-APC/C mediated degradation of Cyclin A.
Reactome; R-BTA-179409; APC-Cdc20 mediated degradation of Nek2A.
Reactome; R-BTA-1799339; SRP-dependent cotranslational protein targeting to membrane.
Reactome; R-BTA-182971; EGFR downregulation.
Reactome; R-BTA-187577; SCF(Skp2)-mediated degradation of p27/p21.
Reactome; R-BTA-195253; Degradation of beta-catenin by the destruction complex.
Reactome; R-BTA-201681; TCF dependent signaling in response to WNT.
Reactome; R-BTA-202424; Downstream TCR signaling.
Reactome; R-BTA-205043; NRIF signals cell death from the nucleus.
Reactome; R-BTA-209543; p75NTR recruits signalling complexes.
Reactome; R-BTA-209560; NF-kB is activated and signals survival.
Reactome; R-BTA-2122948; Activated NOTCH1 Transmits Signal to the Nucleus.
Reactome; R-BTA-2173788; Downregulation of TGF-beta receptor signaling.
Reactome; R-BTA-2173791; TGF-beta receptor signaling in EMT (epithelial to mesenchymal transition).
Reactome; R-BTA-2173795; Downregulation of SMAD2/3:SMAD4 transcriptional activity.
Reactome; R-BTA-2173796; SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription.
Reactome; R-BTA-2467813; Separation of Sister Chromatids.
Reactome; R-BTA-2559580; Oxidative Stress Induced Senescence.
Reactome; R-BTA-2559582; Senescence-Associated Secretory Phenotype (SASP).
Reactome; R-BTA-2559585; Oncogene Induced Senescence.
Reactome; R-BTA-2565942; Regulation of PLK1 Activity at G2/M Transition.
Reactome; R-BTA-2672351; Stimuli-sensing channels.
Reactome; R-BTA-2871837; FCERI mediated NF-kB activation.
Reactome; R-BTA-3134975; Regulation of innate immune responses to cytosolic DNA.
Reactome; R-BTA-3322077; Glycogen synthesis.
Reactome; R-BTA-349425; Autodegradation of the E3 ubiquitin ligase COP1.
Reactome; R-BTA-3769402; Deactivation of the beta-catenin transactivating complex.
Reactome; R-BTA-382556; ABC-family proteins mediated transport.
Reactome; R-BTA-445989; TAK1 activates NFkB by phosphorylation and activation of IKKs complex.
Reactome; R-BTA-446652; Interleukin-1 family signaling.
Reactome; R-BTA-450302; activated TAK1 mediates p38 MAPK activation.
Reactome; R-BTA-450321; JNK (c-Jun kinases) phosphorylation and activation mediated by activated human TAK1.
Reactome; R-BTA-450408; AUF1 (hnRNP D0) binds and destabilizes mRNA.
Reactome; R-BTA-4608870; Asymmetric localization of PCP proteins.
Reactome; R-BTA-4641257; Degradation of AXIN.
Reactome; R-BTA-4641258; Degradation of DVL.
Reactome; R-BTA-4641263; Regulation of FZD by ubiquitination.
Reactome; R-BTA-5205685; Pink/Parkin Mediated Mitophagy.
Reactome; R-BTA-532668; N-glycan trimming in the ER and Calnexin/Calreticulin cycle.
Reactome; R-BTA-5357905; Regulation of TNFR1 signaling.
Reactome; R-BTA-5357956; TNFR1-induced NFkappaB signaling pathway.
Reactome; R-BTA-5358346; Hedgehog ligand biogenesis.
Reactome; R-BTA-5607761; Dectin-1 mediated noncanonical NF-kB signaling.
Reactome; R-BTA-5607764; CLEC7A (Dectin-1) signaling.
Reactome; R-BTA-5610780; Degradation of GLI1 by the proteasome.
Reactome; R-BTA-5610785; GLI3 is processed to GLI3R by the proteasome.
Reactome; R-BTA-5632684; Hedgehog 'on' state.
Reactome; R-BTA-5654726; Negative regulation of FGFR1 signaling.
Reactome; R-BTA-5654727; Negative regulation of FGFR2 signaling.
Reactome; R-BTA-5654732; Negative regulation of FGFR3 signaling.
Reactome; R-BTA-5654733; Negative regulation of FGFR4 signaling.
Reactome; R-BTA-5655862; Translesion synthesis by POLK.
Reactome; R-BTA-5656121; Translesion synthesis by POLI.
Reactome; R-BTA-5656169; Termination of translesion DNA synthesis.
Reactome; R-BTA-5658442; Regulation of RAS by GAPs.
Reactome; R-BTA-5668541; TNFR2 non-canonical NF-kB pathway.
Reactome; R-BTA-5675221; Negative regulation of MAPK pathway.
Reactome; R-BTA-5675482; Regulation of necroptotic cell death.
Reactome; R-BTA-5676590; NIK-->noncanonical NF-kB signaling.
Reactome; R-BTA-5684264; MAP3K8 (TPL2)-dependent MAPK1/3 activation.
Reactome; R-BTA-5685942; HDR through Homologous Recombination (HRR).
Reactome; R-BTA-5687128; MAPK6/MAPK4 signaling.
Reactome; R-BTA-5689603; UCH proteinases.
Reactome; R-BTA-5689877; Josephin domain DUBs.
Reactome; R-BTA-5689880; Ub-specific processing proteases.
Reactome; R-BTA-5689896; Ovarian tumor domain proteases.
Reactome; R-BTA-5689901; Metalloprotease DUBs.
Reactome; R-BTA-5693565; Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks.
Reactome; R-BTA-5693607; Processing of DNA double-strand break ends.
Reactome; R-BTA-5696394; DNA Damage Recognition in GG-NER.
Reactome; R-BTA-5696395; Formation of Incision Complex in GG-NER.
Reactome; R-BTA-5696397; Gap-filling DNA repair synthesis and ligation in GG-NER.
Reactome; R-BTA-5696400; Dual Incision in GG-NER.
Reactome; R-BTA-6781823; Formation of TC-NER Pre-Incision Complex.
Reactome; R-BTA-6782135; Dual incision in TC-NER.
Reactome; R-BTA-6782210; Gap-filling DNA repair synthesis and ligation in TC-NER.
Reactome; R-BTA-6783310; Fanconi Anemia Pathway.
Reactome; R-BTA-6791226; Major pathway of rRNA processing in the nucleolus and cytosol.
Reactome; R-BTA-6804756; Regulation of TP53 Activity through Phosphorylation.
Reactome; R-BTA-6804757; Regulation of TP53 Degradation.
Reactome; R-BTA-6804760; Regulation of TP53 Activity through Methylation.
Reactome; R-BTA-6807004; Negative regulation of MET activity.
Reactome; R-BTA-68827; CDT1 association with the CDC6:ORC:origin complex.
Reactome; R-BTA-69017; CDK-mediated phosphorylation and removal of Cdc6.
Reactome; R-BTA-69229; Ubiquitin-dependent degradation of Cyclin D1.
Reactome; R-BTA-69231; Cyclin D associated events in G1.
Reactome; R-BTA-69298; Association of licensing factors with the pre-replicative complex.
Reactome; R-BTA-69481; G2/M Checkpoints.
Reactome; R-BTA-69541; Stabilization of p53.
Reactome; R-BTA-69601; Ubiquitin Mediated Degradation of Phosphorylated Cdc25A.
Reactome; R-BTA-72689; Formation of a pool of free 40S subunits.
Reactome; R-BTA-72706; GTP hydrolysis and joining of the 60S ribosomal subunit.
Reactome; R-BTA-8849469; PTK6 Regulates RTKs and Their Effectors AKT1 and DOK1.
Reactome; R-BTA-8852276; The role of GTSE1 in G2/M progression after G2 checkpoint.
Reactome; R-BTA-8854050; FBXL7 down-regulates AURKA during mitotic entry and in early mitosis.
Reactome; R-BTA-8856825; Cargo recognition for clathrin-mediated endocytosis.
Reactome; R-BTA-8856828; Clathrin-mediated endocytosis.
Reactome; R-BTA-8863795; Downregulation of ERBB2 signaling.
Reactome; R-BTA-8866652; Synthesis of active ubiquitin: roles of E1 and E2 enzymes.
Reactome; R-BTA-8866654; E3 ubiquitin ligases ubiquitinate target proteins.
Reactome; R-BTA-8939236; RUNX1 regulates transcription of genes involved in differentiation of HSCs.
Reactome; R-BTA-8941858; Regulation of RUNX3 expression and activity.
Reactome; R-BTA-8948747; Regulation of PTEN localization.
Reactome; R-BTA-8948751; Regulation of PTEN stability and activity.
Reactome; R-BTA-8951664; Neddylation.
Reactome; R-BTA-901032; ER Quality Control Compartment (ERQC).
Reactome; R-BTA-912631; Regulation of signaling by CBL.
Reactome; R-BTA-917729; Endosomal Sorting Complex Required For Transport (ESCRT).
Reactome; R-BTA-917937; Iron uptake and transport.
Reactome; R-BTA-936440; Negative regulators of DDX58/IFIH1 signaling.
Reactome; R-BTA-937039; IRAK1 recruits IKK complex.
Reactome; R-BTA-937042; IRAK2 mediated activation of TAK1 complex.
Reactome; R-BTA-937072; TRAF6 mediated induction of TAK1 complex.
Reactome; R-BTA-975110; TRAF6 mediated IRF7 activation in TLR7/8 or 9 signaling.
Reactome; R-BTA-975144; IRAK1 recruits IKK complex upon TLR7/8 or 9 stimulation.
Reactome; R-BTA-975163; IRAK2 mediated activation of TAK1 complex upon TLR7/8 or 9 stimulation.
Reactome; R-BTA-975956; Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
Reactome; R-BTA-975957; Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
Reactome; R-BTA-983168; Antigen processing: Ubiquitination & Proteasome degradation.
Proteomes; UP000009136; Chromosome 7.
Bgee; ENSBTAG00000007737; -.
GO; GO:0005829; C:cytosol; IEA:Ensembl.
GO; GO:0005783; C:endoplasmic reticulum; IEA:Ensembl.
GO; GO:0070062; C:extracellular exosome; IEA:Ensembl.
GO; GO:0005765; C:lysosomal membrane; IEA:Ensembl.
GO; GO:0005654; C:nucleoplasm; IEA:Ensembl.
GO; GO:0005886; C:plasma membrane; IEA:Ensembl.
GO; GO:0005840; C:ribosome; IEA:UniProtKB-KW.
GO; GO:0003735; F:structural constituent of ribosome; IEA:InterPro.
GO; GO:0006412; P:translation; IEA:InterPro.
InterPro; IPR001975; Ribosomal_L40e.
InterPro; IPR019956; Ubiquitin.
InterPro; IPR029071; Ubiquitin-rel_dom.
InterPro; IPR019954; Ubiquitin_CS.
InterPro; IPR000626; Ubiquitin_dom.
Pfam; PF01020; Ribosomal_L40e; 1.
Pfam; PF00240; ubiquitin; 1.
PRINTS; PR00348; UBIQUITIN.
SMART; SM01377; Ribosomal_L40e; 1.
SMART; SM00213; UBQ; 1.
SUPFAM; SSF54236; SSF54236; 1.
PROSITE; PS00299; UBIQUITIN_1; 1.
PROSITE; PS50053; UBIQUITIN_2; 1.
1: Evidence at protein level;
3D-structure; Complete proteome; Cytoplasm; Direct protein sequencing;
Isopeptide bond; Methylation; Nucleus; Phosphoprotein;
Reference proteome; Ribonucleoprotein; Ribosomal protein;
Ubl conjugation.
CHAIN 1 76 Ubiquitin.
/FTId=PRO_0000396432.
CHAIN 77 128 60S ribosomal protein L40.
/FTId=PRO_0000138748.
DOMAIN 1 76 Ubiquitin-like. {ECO:0000255|PROSITE-
ProRule:PRU00214}.
BINDING 54 54 Activating enzyme.
BINDING 72 72 Activating enzyme.
SITE 68 68 Essential for function.
MOD_RES 65 65 Phosphoserine; by PINK1.
{ECO:0000250|UniProtKB:P62987}.
MOD_RES 98 98 N6,N6,N6-trimethyllysine.
{ECO:0000250|UniProtKB:P62986}.
CROSSLNK 6 6 Glycyl lysine isopeptide (Lys-Gly)
(interchain with G-Cter in ubiquitin).
{ECO:0000250|UniProtKB:P62987}.
CROSSLNK 11 11 Glycyl lysine isopeptide (Lys-Gly)
(interchain with G-Cter in ubiquitin).
{ECO:0000250|UniProtKB:P62987}.
CROSSLNK 29 29 Glycyl lysine isopeptide (Lys-Gly)
(interchain with G-Cter in ubiquitin).
{ECO:0000250|UniProtKB:P62987}.
CROSSLNK 48 48 Glycyl lysine isopeptide (Lys-Gly)
(interchain with G-Cter in ubiquitin).
{ECO:0000250|UniProtKB:P62987}.
CROSSLNK 63 63 Glycyl lysine isopeptide (Lys-Gly)
(interchain with G-Cter in ubiquitin).
{ECO:0000250|UniProtKB:P62987}.
CROSSLNK 76 76 Glycyl lysine isopeptide (Gly-Lys)
(interchain with K-? in acceptor
proteins).
STRAND 2 6 {ECO:0000244|PDB:4LJO}.
STRAND 12 16 {ECO:0000244|PDB:4LJO}.
HELIX 23 34 {ECO:0000244|PDB:4LJO}.
HELIX 38 40 {ECO:0000244|PDB:4LJO}.
STRAND 41 45 {ECO:0000244|PDB:4LJO}.
HELIX 57 59 {ECO:0000244|PDB:4LJO}.
STRAND 66 71 {ECO:0000244|PDB:4LJO}.
SEQUENCE 128 AA; 14728 MW; 7BCB602ABEFAD02A CRC64;
MQIFVKTLTG KTITLEVEPS DTIENVKAKI QDKEGIPPDQ QRLIFAGKQL EDGRTLSDYN
IQKESTLHLV LRLRGGIIEP SLRQLAQKYN CDKMICRKCY ARLHPRAVNC RKKKCGHTNN
LRPKKKVK


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