P0CX27 (RL44A_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
60S ribosomal protein L42-A

Alternative name(s):
L41
YL27
YP44

Gene names

Name:	RPL42A
Synonyms:	RPL41A, SCL41A
Ordered Locus Names:	YNL162W
ORF Names:	N1722

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Fungi › Dikarya › Ascomycota › saccharomyceta › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › Saccharomyces cerevisiae

Protein attributes

Sequence length	106 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)

Subunit structure	Component of the large ribosomal subunit. Mature ribosomes consist of a small (40S) and a large (60S) subunit. The 40S subunit contains 32 different proteins (encoded by 56 genes) and 1 molecule of RNA (18S). The 60S subunit contains 46 different proteins (encoded by 81 genes) and 3 molecules of RNA (25S, 5.8S and 5S). Ref.6
Subcellular location	Cytoplasm Ref.8.
Post-translational modification	In wild-type cells, 78% of L42 is monomethylated at both Lys-40 and Lys-55, and 22% are a mixture of species with either residue monomethylated. Ref.10
Miscellaneous	Present with 13600 molecules/cell in log phase SD medium. There are 2 genes for L42 in yeast.
Sequence similarities	Belongs to the ribosomal protein L44e family.
Mass spectrometry	Molecular mass is 12100.729 Da from positions 2 - 106. Determined by ESI. Monoisotopic mass with 2 methylation modifications. Ref.7 Molecular mass is 12100.71 Da from positions 2 - 106. Determined by ESI. Monoisotopic mass with N6-methyl-Lys-40 and N6-methyl-Lys-55. Ref.10 Molecular mass is 12108.0 Da from positions 2 - 106. Determined by ESI. With N6-methyl-Lys-40 and N6-methyl-Lys-55. Ref.10
Sequence caution	The sequence CAA96049.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Biological process	Antibiotic resistance Cycloheximide resistance
Cellular component	Cytoplasm
Molecular function	Ribonucleoprotein Ribosomal protein
PTM	Methylation
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	cytoplasmic translation Traceable author statement Ref.6. Source: SGD response to antibiotic Inferred from electronic annotation. Source: UniProtKB-KW response to cycloheximide Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	cytosolic large ribosomal subunit Traceable author statement Ref.6. Source: SGD
Molecular_function	structural constituent of ribosome Traceable author statement Ref.6. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Initiator methionine	1	1	Removed Ref.5
	Chain	2 – 106	105	60S ribosomal protein L42-A		PRO_0000149147
Amino acid modifications
	Modified residue	40	1	N6-methyllysine; by RKM3 Ref.10
	Modified residue	55	1	N6-methyllysine; by RKM4 Ref.10
Natural variations
	Natural variant	56	1	P → Q Confers resistance to cycloheximide, an inhibitor of polypeptide elongation. Ref.1
Experimental info
	Sequence conflict	40 – 41	2	KR → RK AA sequence Ref.5
	Sequence conflict	88 – 89	2	Missing AA sequence Ref.5

Sequences

	Sequence		Length	Mass (Da)
	P0CX27 [UniParc]. Last modified June 28, 2011. Version 1. Checksum: 730CA11F2CF7F2B4	FASTA	106	12,212
	10 20 30 40 50 60 MVNVPKTRKT YCKGKTCRKH TQHKVTQYKA GKASLFAQGK RRYDRKQSGF GGQTKPVFHK 70 80 90 100 KAKTTKKVVL RLECVKCKTR AQLTLKRCKH FELGGEKKQK GQALQF

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Drastic alteration of cycloheximide sensitivity by substitution of one amino acid in the L41 ribosomal protein of yeasts." Kawai S., Murao S., Mochizuki M., Shibuya I., Yano K., Takagi M. J. Bacteriol. 174:254-262(1992) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], VARIANT GLN-56.
[2]	"The sequence of 36.8 kb from the left arm of chromosome XIV reveals 24 complete open reading frames: 18 correspond to new genes, one of which encodes a protein similar to the human myotonic dystrophy kinase." Nasr F., Becam A.-M., Herbert C.J. Yeast 12:169-175(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 96604 / S288c / FY1679.
[3]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications." Philippsen P., Kleine K., Poehlmann R., Duesterhoeft A., Hamberg K., Hegemann J.H., Obermaier B., Urrestarazu L.A., Aert R., Albermann K., Altmann R., Andre B., Baladron V., Ballesta J.P.G., Becam A.-M., Beinhauer J.D., Boskovic J., Buitrago M.J. , Bussereau F., Coster F., Crouzet M., D'Angelo M., Dal Pero F., De Antoni A., del Rey F., Doignon F., Domdey H., Dubois E., Fiedler T.A., Fleig U., Floeth M., Fritz C., Gaillardin C., Garcia-Cantalejo J.M., Glansdorff N., Goffeau A., Gueldener U., Herbert C.J., Heumann K., Heuss-Neitzel D., Hilbert H., Hinni K., Iraqui Houssaini I., Jacquet M., Jimenez A., Jonniaux J.-L., Karpfinger-Hartl L., Lanfranchi G., Lepingle A., Levesque H., Lyck R., Maftahi M., Mallet L., Maurer C.T.C., Messenguy F., Mewes H.-W., Moestl D., Nasr F., Nicaud J.-M., Niedenthal R.K., Pandolfo D., Pierard A., Piravandi E., Planta R.J., Pohl T.M., Purnelle B., Rebischung C., Remacha M.A., Revuelta J.L., Rinke M., Saiz J.E., Sartorello F., Scherens B., Sen-Gupta M., Soler-Mira A., Urbanus J.H.M., Valle G., Van Dyck L., Verhasselt P., Vierendeels F., Vissers S., Voet M., Volckaert G., Wach A., Wambutt R., Wedler H., Zollner A., Hani J. Nature 387:93-98(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[4]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[5]	"The primary structure of protein 44 from the large subunit of yeast ribosomes." Itoh T., Wittmann-Liebold B. FEBS Lett. 96:399-402(1978) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-106.
[6]	"The list of cytoplasmic ribosomal proteins of Saccharomyces cerevisiae." Planta R.J., Mager W.H. Yeast 14:471-477(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NOMENCLATURE, SUBUNIT.
[7]	"Direct mass spectrometric analysis of intact proteins of the yeast large ribosomal subunit using capillary LC/FTICR." Lee S.-W., Berger S.J., Martinovic S., Pasa-Tolic L., Anderson G.A., Shen Y., Zhao R., Smith R.D. Proc. Natl. Acad. Sci. U.S.A. 99:5942-5947(2002) [PubMed] [Europe PMC] [Abstract] Cited for: MASS SPECTROMETRY.
[8]	"Global analysis of protein localization in budding yeast." Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Nature 425:686-691(2003) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[9]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[10]	"Identification of two SET domain proteins required for methylation of lysine residues in yeast ribosomal protein Rpl42ab." Webb K.J., Laganowsky A., Whitelegge J.P., Clarke S.G. J. Biol. Chem. 283:35561-35568(2008) [PubMed] [Europe PMC] [Abstract] Cited for: METHYLATION AT LYS-40 AND LYS-55, MASS SPECTROMETRY.
[11]	"Structure of the 80S ribosome from Saccharomyces cerevisiae -- tRNA-ribosome and subunit-subunit interactions." Spahn C.M.T., Beckmann R., Eswar N., Penczek P.A., Sali A., Blobel G., Frank J. Cell 107:373-386(2001) [PubMed] [Europe PMC] [Abstract] Cited for: 3D-STRUCTURE MODELING OF 2-92, ELECTRON MICROSCOPY.
[12]	"Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation." Spahn C.M.T., Gomez-Lorenzo M.G., Grassucci R.A., Joergensen R., Andersen G.R., Beckmann R., Penczek P.A., Ballesta J.P.G., Frank J. EMBO J. 23:1008-1019(2004) [PubMed] [Europe PMC] [Abstract] Cited for: 3D-STRUCTURE MODELING, ELECTRON MICROSCOPY.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

D10578 Genomic DNA. Translation: BAA01435.1.
X92517 Genomic DNA. Translation: CAA63277.1.
Z71438 Genomic DNA. Translation: CAA96049.1. Sequence problems.
BK006947 Genomic DNA. Translation: DAA10387.1.

PIR

S63114.

RefSeq

NP_012010.1. NM_001179271.1.
NP_014237.2. NM_001183000.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1K5Y	model	-	1	2-92	[»]
1S1I	electron microscopy	11.70	Z	2-106	[»]
3IZS	electron microscopy	-	r	1-106	[»]
3O58	X-ray	4.00	f	1-106	[»]
3O5H	X-ray	4.00	f	1-106	[»]
3U5E	X-ray	3.00	o	1-106	[»]
3U5I	X-ray	3.00	o	1-106	[»]
4B6A	electron microscopy	8.10	o	1-106	[»]

ProteinModelPortal

P0CX27.

SMR

P0CX27. Positions 2-106.

ModBase

Search...

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YHR141C; YHR141C; YHR141C.
YNL162W; YNL162W; YNL162W.

GeneID

855560.
856544.

KEGG

sce:YHR141C.
sce:YNL162W.

Organism-specific databases

CYGD

YNL162w.

SGD

S000005106. RPL42A.

Phylogenomic databases

HOGENOM

HOG000224989.

KO

K02929.

Gene expression databases

ArrayExpress

P0CX27.

GermOnline

YNL162W. Saccharomyces cerevisiae.

Family and domain databases

Gene3D

3.10.450.80. 1 hit.

InterPro

IPR000552. Ribosomal_L44e.
IPR011332. Ribosomal_zn-bd_dom.
[Graphical view]

PANTHER

PTHR10369. PTHR10369. 1 hit.

Pfam

PF00935. Ribosomal_L44. 1 hit.
[Graphical view]

ProDom

PD002841. Ribosomal_L44e. 1 hit.
[Graphical view] [Entries sharing at least one domain]

SUPFAM

SSF57829. Ribosomal_zn-bd. 1 hit.

PROSITE

PS01172. RIBOSOMAL_L44E. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P0CX27.

NextBio

979652.

Entry information

Entry name

RL44A_YEAST

Accession

Primary (citable) accession number: P0CX27
Secondary accession number(s): D3DL90, P02405

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 28, 2011
Last sequence update:	June 28, 2011
Last modified:	April 3, 2013
This is version 17 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program