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Ubiquitin-60S ribosomal protein L40



Gallus gallus (Chicken)
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli


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).By similarity
60S ribosomal protein L40: component of the 60S subunit of the ribosome.By similarity


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.


Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei9Essential for function1
Binding sitei13Activating enzyme1

GO - Molecular functioni

GO - Biological processi


Molecular functionRibonucleoprotein, Ribosomal protein

Enzyme and pathway databases

ReactomeiR-GGA-1227882. TRAF mediated activation of IRF.
R-GGA-1227888. Negative Regulation of MDA5 signaling.
R-GGA-1227892. TRAF6 mediated NF-kB activation.
R-GGA-351465. Fanconi Anemia Pathway in DNA repair.
R-GGA-353299. RAD18 and ubiquitinated PCNA-mediated recruitment of translesion polymerases.
R-GGA-353303. Nucleotide Excision Repair.
R-GGA-433822. NFkB and MAPK activation mediated by TRAF6.
R-GGA-433871. TRAF6 mediated induction of proinflammatory cytokines.
R-GGA-434001. TAK1 activates NFkB by phosphorylation and activation of IKKs complex.
R-GGA-434131. NFkB activation mediated by RIP1 complexed with activated TLR3.
R-GGA-437980. Activated TAK1 mediates p38 MAP kinase phosphorylation.
R-GGA-437986. Activated TAK1 mediates Jun kinases (JNK) phosphorylation and activation.
R-GGA-573298. NFkB and MAPK activation mediated by TRAF6 upon TLR7 or TLR21 stimulation.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin-60S ribosomal protein L40
Alternative name(s):
Ubiquitin A-52 residue ribosomal protein fusion product 1
Cleaved into the following 2 chains:
Alternative name(s):
Gene namesi
OrganismiGallus gallus (Chicken)
Taxonomic identifieri9031 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiArchelosauriaArchosauriaDinosauriaSaurischiaTheropodaCoelurosauriaAvesNeognathaeGalloanseraeGalliformesPhasianidaePhasianinaeGallus
  • UP000000539 Componenti: Unplaced

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_0000396441‹1 – 17UbiquitinAdd BLAST›17
ChainiPRO_000013875518 – 6960S ribosomal protein L40Add BLAST52

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki4Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki17Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins)By similarity
Modified residuei39N6,N6,N6-trimethyllysineBy similarity1

Keywords - PTMi

Isopeptide bond, Methylation, Ubl conjugation


Subunit structurei

Ribosomal protein L40 is part of the 60S ribosomal subunit.By similarity


3D structure databases


Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini‹1 – 17Ubiquitin-likeAdd BLAST›17

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


Family and domain databases

InterProiView protein in InterPro
IPR001975. Ribosomal_L40e.
IPR011332. Ribosomal_zn-bd.
PfamiView protein in Pfam
PF01020. Ribosomal_L40e. 1 hit.
SMARTiView protein in SMART
SM01377. Ribosomal_L40e. 1 hit.
SUPFAMiSSF57829. SSF57829. 1 hit.


Sequence statusi: Fragment.

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

P62985-1 [UniParc]FASTAAdd to basket

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Mass (Da):8,098
Last modified:August 10, 2010 - v2

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Non-terminal residuei11

Sequence databases

Select the link destinations:
Links Updated
X13493 mRNA. Translation: CAA31848.1.

Similar proteinsi

Entry informationi

Entry nameiRL40_CHICK
AccessioniPrimary (citable) accession number: P62985
Secondary accession number(s): P02248
, P02249, P02250, P14793, P62973, Q29120, Q91887, Q91888
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 31, 2004
Last sequence update: August 10, 2010
Last modified: February 28, 2018
This is version 69 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program


Keywords - Technical termi

Complete proteome, Reference proteome