P21899 (RL40_TRYBB) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names	Recommended name: Ubiquitin-60S ribosomal protein L40 Cleaved into the following 2 chains: Ubiquitin 60S ribosomal protein L40 Alternative name(s): CEP52
Organism	Trypanosoma brucei brucei
Taxonomic identifier	5702 [NCBI]
Taxonomic lineage	cellular organisms › Eukaryota › Euglenozoa › Kinetoplastida › Trypanosomatidae › Trypanosoma › Trypanozoon › Trypanosoma brucei

Protein attributes

Sequence length	128 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

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-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. Ribosomal protein L40 is a component of the 60S subunit of the ribosome.
Subunit structure	Ribosomal protein L40 is part of the 60S ribosomal subunit By similarity.
Subcellular location	Ubiquitin: Cytoplasm By similarity. Nucleus By similarity. 60S ribosomal protein L40: Cytoplasm By similarity.
Sequence similarities	In the N-terminal section; belongs to the ubiquitin family. In the C-terminal section; belongs to the ribosomal protein L40e family. Contains 1 ubiquitin-like domain.

Ontologies

Keywords
Cellular component	Cytoplasm Nucleus
Molecular function	Ribonucleoprotein Ribosomal protein
PTM	Isopeptide bond Ubl conjugation
Technical term	3D-structure
Gene Ontology (GO)
Biological_process	translation Inferred from electronic annotation. Source: InterPro
Cellular_component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell ribosome Inferred from electronic annotation. Source: UniProtKB-KW
Molecular_function	structural constituent of ribosome Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 76	76	Ubiquitin		PRO_0000114828
	Chain	77 – 128	52	60S ribosomal protein L40		PRO_0000138770
Regions
	Domain	1 – 76	76	Ubiquitin-like
Amino acid modifications
	Cross-link	48		Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) By similarity
	Cross-link	76		Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins) By similarity
Experimental info
	Sequence conflict	77	1	V → L in CAA32691. Ref.3

Sequences

	Sequence		Length	Mass (Da)
	P21899 [UniParc]. Last modified August 10, 2010. Version 2. Checksum: 3F617F6F62B156B6	FASTA	128	14,656
	10 20 30 40 50 60 MQIFVKTLTG KTIALEVEAS DTIENVKAKI QDKEGIPPDQ QRLIFAGKQL EEGRTLADYN 70 80 90 100 110 120 IQKESTLHLV LRLRGGVMEP TLEALAKKYN WEKKVCRRCY ARLPVRATNC RKKGCGHCSN LRMKKKLR

References

[1]	"Ubiquitin-EP52 fusion protein homologs from Trypanosoma brucei." Wong S., Morales T.H., Campbell D.A. Nucleic Acids Res. 18:7181-7181(1990) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Strain: 427.
[2]	"Genomic and transcriptional linkage of the genes for calmodulin, EF-hand 5 protein, and ubiquitin extension protein 52 in Trypanosoma brucei." Wong S., Morales T.H., Neigel J.E., Campbell D.A. Mol. Cell. Biol. 13:207-216(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: 427.
[3]	"A polyubiquitin gene from Trypanosoma brucei." Wong S., Campbell D.A. Mol. Biochem. Parasitol. 37:147-150(1989) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-77.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X54641 mRNA. Translation: CAA38453.1.
X54642 mRNA. Translation: CAA38454.1.
X56511 Genomic DNA. Translation: CAA39863.1.
X56511 Genomic DNA. Translation: CAA39864.1.
X14554 Genomic DNA. Translation: CAA32691.1.

PIR

UQUT. A44981.
C48111.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3ZF7	electron microscopy	5.57	s	1-128	[»]

ProteinModelPortal

P21899.

ModBase

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Protocols and materials databases

StructuralBiologyKnowledgebase

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Family and domain databases

InterPro

IPR001975. Ribosomal_L40e.
IPR000626. Ubiquitin.
IPR019954. Ubiquitin_CS.
IPR019956. Ubiquitin_subgr.
IPR019955. Ubiquitin_supergroup.
[Graphical view]

Pfam

PF01020. Ribosomal_L40e. 1 hit.
PF00240. ubiquitin. 1 hit.
[Graphical view]

PRINTS

PR00348. UBIQUITIN.

SMART

SM00213. UBQ. 1 hit.
[Graphical view]

PROSITE

PS00299. UBIQUITIN_1. 1 hit.
PS50053. UBIQUITIN_2. 1 hit.
[Graphical view]

ProtoNet

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Entry information

Entry name

RL40_TRYBB

Accession

Primary (citable) accession number: P21899
Secondary accession number(s): P15174

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 1, 1991
Last sequence update:	August 10, 2010
Last modified:	April 3, 2013
This is version 40 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)