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Protein

Ubiquitin-60S ribosomal protein L40-1

Gene

RPL40A

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript 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-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, and DNA-damage responses. 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 L40-1: component of the 60S subunit of the ribosome.

Miscellaneous

Ubiquitin is encoded by 16 different genes. Ubiquitin is generally synthesized as a polyubiquitin precursor with tandem head to tail repeats. Often, there is one to three additional amino acids after the last repeat, removed in the mature protein. Alternatively, ubiquitin extension protein is synthesized as a single copy of ubiquitin fused to a ribosomal protein (either L40 or S27A) or to a ubiquitin-related protein (either RUB1 or RUB2). Following translation, extension protein is cleaved from ubiquitin.

GO - Molecular functioni

  • structural constituent of ribosome Source: CAFA

GO - Biological processi

  • mature ribosome assembly Source: CAFA
  • translation Source: InterPro

Keywordsi

Molecular functionRibonucleoprotein, Ribosomal protein

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin-60S ribosomal protein L40-1
Cleaved into the following 2 chains:
Alternative name(s):
CEP52
Gene namesi
Name:RPL40A
Synonyms:UBQ2
Ordered Locus Names:At2g36170
ORF Names:F9C22.10
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 2

Organism-specific databases

AraportiAT2G36170.
TAIRilocus:2053496. AT2G36170.

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003968651 – 76UbiquitinAdd BLAST76
ChainiPRO_000013875877 – 12860S ribosomal protein L40-1Add BLAST52

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki76Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins)PROSITE-ProRule annotation

Keywords - PTMi

Isopeptide bond

Proteomic databases

PaxDbiB9DHA6.
PRIDEiB9DHA6.

PTM databases

iPTMnetiB9DHA6.

Expressioni

Gene expression databases

ExpressionAtlasiB9DHA6. baseline and differential.
GenevisibleiB9DHA6. AT.

Interactioni

Subunit structurei

Ribosomal protein L40-1 is part of the 60S ribosomal subunit.By similarity

Protein-protein interaction databases

BioGridi3533. 1 interactor.
9743. 12 interactors.
STRINGi3702.AT3G52590.1.

Structurei

3D structure databases

ProteinModelPortaliB9DHA6.
SMRiB9DHA6.
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

eggNOGiENOG410IUNU. Eukaryota.
COG1552. LUCA.
InParanoidiB9DHA6.
KOiK02927.
OMAiRKTKCGH.
OrthoDBiEOG09360PUP.

Family and domain databases

InterProiView protein in InterPro
IPR001975. Ribosomal_L40e.
IPR011332. Ribosomal_zn-bd.
IPR019956. Ubiquitin.
IPR029071. Ubiquitin-rel_dom.
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.
SSF57829. SSF57829. 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.

B9DHA6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQIFVKTLTG KTITLEVESS DTIDNVKAKI QDKEGIPPDQ QRLIFAGKQL
60 70 80 90 100
EDGRTLADYN IQKESTLHLV LRLRGGIIEP SLMMLARKYN QDKMICRKCY
110 120
ARLHPRAVNC RKKKCGHSNQ LRPKKKIK
Length:128
Mass (Da):14,733
Last modified:March 24, 2009 - v1
Checksum:i2E4EB17A20A6D28B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J05508 Genomic DNA. Translation: AAA32905.1.
AC006921 Genomic DNA. No translation available.
AC007135 Genomic DNA. Translation: AAM15407.1.
CP002685 Genomic DNA. Translation: AEC09212.1.
AF360311 mRNA. Translation: AAK26021.1.
AY056360 mRNA. Translation: AAL07246.1.
AK317456 mRNA. Translation: BAH20123.1.
PIRiB36571.
RefSeqiNP_565836.1. NM_129175.3.
NP_566969.1. NM_115119.4.
UniGeneiAt.23108.
At.24656.
At.35280.

Genome annotation databases

EnsemblPlantsiAT2G36170.1; AT2G36170.1; AT2G36170.
AT3G52590.1; AT3G52590.1; AT3G52590.
GeneIDi818189.
824425.
GrameneiAT2G36170.1; AT2G36170.1; AT2G36170.
AT3G52590.1; AT3G52590.1; AT3G52590.
KEGGiath:AT2G36170.
ath:AT3G52590.

Similar proteinsi

Entry informationi

Entry nameiRL40A_ARATH
AccessioniPrimary (citable) accession number: B9DHA6
Secondary accession number(s): O80715
, P19232, P59263, Q38875, Q9LDJ2, Q9LYW1, Q9M0W3, Q9M1P9, Q9S7X3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 10, 2010
Last sequence update: March 24, 2009
Last modified: September 27, 2017
This is version 69 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. Ribosomal proteins
    Ribosomal proteins families and list of entries
  3. SIMILARITY comments
    Index of protein domains and families