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Protein

Ubiquitin-60S ribosomal protein L40

Gene

RpL40

Organism
Drosophila melanogaster (Fruit fly)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

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-48-linked is involved in protein degradation via the proteasome. 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).By similarity
60S ribosomal protein L40: component of the 60S subunit of the ribosome.By similarity

Miscellaneous

In Drosophila ubiquitin is encoded by 3 different genes. RpL40 and RpS27A genes code for a single copy of ubiquitin fused to the ribosomal proteins L40 and S27a, respectively. Ubi-p63E gene codes for a polyubiquitin precursor with 10 exact head to tail repeats.
For a better understanding, features related to ubiquitin are only indicated for the first chain.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei54Activating enzyme1
Sitei68Essential for function1
Binding sitei72Activating enzyme1

GO - Molecular functioni

  • protein tag Source: FlyBase
  • structural constituent of ribosome Source: FlyBase

GO - Biological processi

  • cellular protein modification process Source: FlyBase
  • cytoplasmic translation Source: FlyBase
  • protein ubiquitination Source: FlyBase
  • translation Source: FlyBase
  • ubiquitin-dependent protein catabolic process Source: FlyBase

Keywordsi

Molecular functionRibonucleoprotein, Ribosomal protein

Enzyme and pathway databases

ReactomeiR-DME-110312 Translesion synthesis by REV1
R-DME-110314 Recognition of DNA damage by PCNA-containing replication complex
R-DME-110320 Translesion Synthesis by POLH
R-DME-1169091 Activation of NF-kappaB in B cells
R-DME-1234176 Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha
R-DME-1253288 Downregulation of ERBB4 signaling
R-DME-1295596 Spry regulation of FGF signaling
R-DME-1358803 Downregulation of ERBB2:ERBB3 signaling
R-DME-156827 L13a-mediated translational silencing of Ceruloplasmin expression
R-DME-174048 APC/C:Cdc20 mediated degradation of Cyclin B
R-DME-174084 Autodegradation of Cdh1 by Cdh1:APC/C
R-DME-174178 APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1
R-DME-174184 Cdc20:Phospho-APC/C mediated degradation of Cyclin A
R-DME-179409 APC-Cdc20 mediated degradation of Nek2A
R-DME-1799339 SRP-dependent cotranslational protein targeting to membrane
R-DME-182971 EGFR downregulation
R-DME-187577 SCF(Skp2)-mediated degradation of p27/p21
R-DME-195253 Degradation of beta-catenin by the destruction complex
R-DME-201681 TCF dependent signaling in response to WNT
R-DME-209360 Ubiquitination and proteolysis of phosphorylated CI
R-DME-209447 Activation of the IkappaB kinase complex, KEY:IRD5 dimer:KEY
R-DME-209461 Ubiquitination and degradation of phosphorylated ARM
R-DME-209560 NF-kB is activated and signals survival
R-DME-2122948 Activated NOTCH1 Transmits Signal to the Nucleus
R-DME-2173788 Downregulation of TGF-beta receptor signaling
R-DME-2173795 Downregulation of SMAD2/3:SMAD4 transcriptional activity
R-DME-2173796 SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription
R-DME-2559582 Senescence-Associated Secretory Phenotype (SASP)
R-DME-3769402 Deactivation of the beta-catenin transactivating complex
R-DME-432395 Degradation of TIM
R-DME-432524 Degradation of PER
R-DME-450302 activated TAK1 mediates p38 MAPK activation
R-DME-450321 JNK (c-Jun kinases) phosphorylation and activation mediated by activated human TAK1
R-DME-450408 AUF1 (hnRNP D0) binds and destabilizes mRNA
R-DME-4608870 Asymmetric localization of PCP proteins
R-DME-4641257 Degradation of AXIN
R-DME-4641258 Degradation of DVL
R-DME-5205685 Pink/Parkin Mediated Mitophagy
R-DME-532668 N-glycan trimming in the ER and Calnexin/Calreticulin cycle
R-DME-5358346 Hedgehog ligand biogenesis
R-DME-538864 Degradation of CRY
R-DME-5607761 Dectin-1 mediated noncanonical NF-kB signaling
R-DME-5610785 GLI3 is processed to GLI3R by the proteasome
R-DME-5632684 Hedgehog 'on' state
R-DME-5654726 Negative regulation of FGFR1 signaling
R-DME-5654727 Negative regulation of FGFR2 signaling
R-DME-5654732 Negative regulation of FGFR3 signaling
R-DME-5654733 Negative regulation of FGFR4 signaling
R-DME-5655862 Translesion synthesis by POLK
R-DME-5656121 Translesion synthesis by POLI
R-DME-5656169 Termination of translesion DNA synthesis
R-DME-5675221 Negative regulation of MAPK pathway
R-DME-5675482 Regulation of necroptotic cell death
R-DME-5676590 NIK-->noncanonical NF-kB signaling
R-DME-5689603 UCH proteinases
R-DME-5689877 Josephin domain DUBs
R-DME-5689880 Ub-specific processing proteases
R-DME-5689896 Ovarian tumor domain proteases
R-DME-5689901 Metalloprotease DUBs
R-DME-5693565 Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-DME-5696394 DNA Damage Recognition in GG-NER
R-DME-5696395 Formation of Incision Complex in GG-NER
R-DME-5696400 Dual Incision in GG-NER
R-DME-6781823 Formation of TC-NER Pre-Incision Complex
R-DME-6782135 Dual incision in TC-NER
R-DME-6782210 Gap-filling DNA repair synthesis and ligation in TC-NER
R-DME-68949 Orc1 removal from chromatin
R-DME-69017 CDK-mediated phosphorylation and removal of Cdc6
R-DME-69229 Ubiquitin-dependent degradation of Cyclin D1
R-DME-69231 Cyclin D associated events in G1
R-DME-69601 Ubiquitin Mediated Degradation of Phosphorylated Cdc25A
R-DME-72689 Formation of a pool of free 40S subunits
R-DME-72706 GTP hydrolysis and joining of the 60S ribosomal subunit
R-DME-8849469 PTK6 Regulates RTKs and Their Effectors AKT1 and DOK1
R-DME-8854050 FBXL7 down-regulates AURKA during mitotic entry and in early mitosis
R-DME-8856825 Cargo recognition for clathrin-mediated endocytosis
R-DME-8856828 Clathrin-mediated endocytosis
R-DME-8863795 Downregulation of ERBB2 signaling
R-DME-8866652 Synthesis of active ubiquitin: roles of E1 and E2 enzymes
R-DME-8866654 E3 ubiquitin ligases ubiquitinate target proteins
R-DME-8939902 Regulation of RUNX2 expression and activity
R-DME-8941858 Regulation of RUNX3 expression and activity
R-DME-8948747 Regulation of PTEN localization
R-DME-8948751 Regulation of PTEN stability and activity
R-DME-901032 ER Quality Control Compartment (ERQC)
R-DME-9010553 Regulation of expression of SLITs and ROBOs
R-DME-9013507 NOTCH3 Activation and Transmission of Signal to the Nucleus
R-DME-9020702 Interleukin-1 signaling
R-DME-9033241 Peroxisomal protein import
R-DME-912631 Regulation of signaling by CBL
R-DME-917729 Endosomal Sorting Complex Required For Transport (ESCRT)
R-DME-937039 IRAK1 recruits IKK complex
R-DME-937042 IRAK2 mediated activation of TAK1 complex
R-DME-975110 TRAF6 mediated IRF7 activation in TLR7/8 or 9 signaling
R-DME-975144 IRAK1 recruits IKK complex upon TLR7/8 or 9 stimulation
R-DME-975163 IRAK2 mediated activation of TAK1 complex upon TLR7/8 or 9 stimulation
R-DME-975956 Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)
R-DME-975957 Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)
R-DME-983168 Antigen processing: Ubiquitination & Proteasome degradation

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin-60S ribosomal protein L40
Alternative name(s):
CEP52
Cleaved into the following 2 chains:
Gene namesi
Name:RpL40
Synonyms:Ubi-f, UBI-F52
ORF Names:CG2960
OrganismiDrosophila melanogaster (Fruit fly)
Taxonomic identifieri7227 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaArthropodaHexapodaInsectaPterygotaNeopteraHolometabolaDipteraBrachyceraMuscomorphaEphydroideaDrosophilidaeDrosophilaSophophora
Proteomesi
  • UP000000803 Componenti: Chromosome 2L

Organism-specific databases

FlyBaseiFBgn0003941 RpL40

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003964421 – 76UbiquitinAdd BLAST76
ChainiPRO_000039644377 – 12860S ribosomal protein L40Add BLAST52

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki48Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)
Cross-linki76Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins)

Keywords - PTMi

Isopeptide bond, Ubl conjugation

Proteomic databases

PaxDbiP18101
PRIDEiP18101

Expressioni

Gene expression databases

BgeeiFBgn0003941
ExpressionAtlasiP18101 baseline and differential
GenevisibleiP18101 DM

Interactioni

Subunit structurei

60S ribosomal protein is part of the 60S ribosomal subunit.By similarity

Protein-protein interaction databases

BioGridi59826, 18 interactors
IntActiP18101, 2 interactors
STRINGi7227.FBpp0077159

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4V6Welectron microscopy6.00Cm77-128[»]
ProteinModelPortaliP18101
SMRiP18101
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini1 – 76Ubiquitin-likePROSITE-ProRule annotationAdd BLAST76

Sequence similaritiesi

In the N-terminal section; belongs to the ubiquitin family.Curated
In the C-terminal section; belongs to the eukaryotic ribosomal protein eL40 family.Curated

Phylogenomic databases

eggNOGiKOG0003 Eukaryota
COG1552 LUCA
COG5272 LUCA
InParanoidiP18101
KOiK02927
OMAiRKTKCGH
OrthoDBiEOG091G178I
PhylomeDBiP18101

Family and domain databases

Gene3Di2.20.28.70, 1 hit
InterProiView protein in InterPro
IPR038587 L40e_sf
IPR001975 Ribosomal_L40e
IPR019956 Ubiquitin
IPR029071 Ubiquitin-like_domsf
IPR019954 Ubiquitin_CS
IPR000626 Ubiquitin_dom
PfamiView protein in Pfam
PF01020 Ribosomal_L40e, 1 hit
PF00240 ubiquitin, 1 hit
PRINTSiPR00348 UBIQUITIN
SMARTiView protein in SMART
SM01377 Ribosomal_L40e, 1 hit
SM00213 UBQ, 1 hit
SUPFAMiSSF54236 SSF54236, 1 hit
PROSITEiView protein in PROSITE
PS00299 UBIQUITIN_1, 1 hit
PS50053 UBIQUITIN_2, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P18101-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQIFVKTLTG KTITLEVEPS DTIENVKAKI QDKEGIPPDQ QRLIFAGKQL
60 70 80 90 100
EDGRTLSDYN IQKESTLHLV LRLRGGIIEP SLRILAQKYN CDKMICRKCY
110 120
ARLHPRATNC RKKKCGHTNN LRPKKKLK
Length:128
Mass (Da):14,729
Last modified:August 10, 2010 - v2
Checksum:i7BDE802AA2D249D2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X53059 mRNA Translation: CAA37227.1
X59943 Genomic DNA Translation: CAA42568.1
AE014134 Genomic DNA Translation: AAF51034.1
RefSeqiNP_001260018.1, NM_001273089.2
NP_476776.1, NM_057428.4
UniGeneiDm.19778

Genome annotation databases

EnsemblMetazoaiFBtr0077470; FBpp0077159; FBgn0003941
FBtr0334787; FBpp0306837; FBgn0003941
GeneIDi33629
KEGGidme:Dmel_CG2960

Similar proteinsi

Entry informationi

Entry nameiRL40_DROME
AccessioniPrimary (citable) accession number: P18101
Secondary accession number(s): P68198
, Q0E8I1, Q9VKW6, Q9VQX7, Q9VZL4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1990
Last sequence update: August 10, 2010
Last modified: May 23, 2018
This is version 138 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programDrosophila annotation project

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

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