P49626 (RL4B_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
60S ribosomal protein L4-B

Alternative name(s):
L2
RP2
YL2

Gene names

Name:	RPL4B
Synonyms:	RPL2B
Ordered Locus Names:	YDR012W
ORF Names:	YD8119.17

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	362 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	Participates in the regulation of the accumulation of its own mRNA.
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.7
Subcellular location	Cytoplasm Ref.8.
Post-translational modification	N-terminally acetylated by acetyltransferase NatA.
Miscellaneous	Present with 151000 molecules/cell in log phase SD medium. Ref.9 There are 2 genes for L4 in yeast.
Sequence similarities	Belongs to the ribosomal protein L4P family.

Ontologies

Keywords
Cellular component	Cytoplasm
Ligand	RNA-binding
Molecular function	Ribonucleoprotein Ribosomal protein
PTM	Acetylation Phosphoprotein
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological process	cytoplasmic translation Traceable author statement Ref.7. Source: SGD
Cellular component	cytosolic large ribosomal subunit Traceable author statement Ref.7. Source: SGD
Molecular function	RNA binding Inferred from electronic annotation. Source: UniProtKB-KW structural constituent of ribosome Traceable author statement Ref.7. 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.6
	Chain	2 – 362	361	60S ribosomal protein L4-B		PRO_0000129368
Amino acid modifications
	Modified residue	2	1	N-acetylserine Ref.6
	Modified residue	122	1	Phosphothreonine Ref.10
	Modified residue	124	1	Phosphoserine Ref.10
	Modified residue	129	1	Phosphothreonine Ref.10
	Modified residue	133	1	Phosphoserine Ref.10
Experimental info
	Sequence conflict	88	1	G → R in AAA34975. Ref.5

Sequences

	Sequence		Length	Mass (Da)
	P49626 [UniParc]. Last modified January 23, 2007. Version 2. Checksum: 37D0942A10AAF4EF	FASTA	362	39,062
	10 20 30 40 50 60 MSRPQVTVHS LTGEATANAL PLPAVFSAPI RPDIVHTVFT SVNKNKRQAY AVSEKAGHQT 70 80 90 100 110 120 SAESWGTGRA VARIPRVGGG GTGRSGQGAF GNMCRGGRMF APTKTWRKWN VKVNHNEKRY 130 140 150 160 170 180 ATASAIAATA VASLVLARGH RVEKIPEIPL VVSTDLESIQ KTKEAVAALK AVGAHSDLLK 190 200 210 220 230 240 VLKSKKLRAG KGKYRNRRWT QRRGPLVVYA EDNGIVKALR NVPGVETANV ASLNLLQLAP 250 260 270 280 290 300 GAHLGRFVIW TEAAFTKLDQ VWGSETVASS KVGYTLPSHI ISTSDVTRII NSSEIQSAIR 310 320 330 340 350 360 PAGQATQKRT HVLKKNPLKN KQVLLRLNPY AKVFAAEKLG SKKAEKTGTK PAAVFAETLK HD

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Sequencing and analysis of a 35.4 kb region on the right arm of chromosome IV from Saccharomyces cerevisiae reveal 23 open reading frames." Eide L.G., Sander C., Prydz H. Yeast 12:1085-1090(1996) [PubMed: 8896275] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome IV." Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T. , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P. Nature 387:75-78(1997) [PubMed: 9169867] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[4]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J. Genome Res. 17:536-543(2007) [PubMed: 17322287] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[5]	"Gene dosage alteration of L2 ribosomal protein genes in Saccharomyces cerevisiae: effects on ribosome synthesis." Lucioli A., Presutti C., Ciafre S., Caffarelli E., Fragapane P., Bozzoni I. Mol. Cell. Biol. 8:4792-4798(1988) [PubMed: 3062369] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-200.
[6]	"NH2-terminal acetylation of ribosomal proteins of Saccharomyces cerevisiae." Takakura H., Tsunasawa S., Miyagi M., Warner J.R. J. Biol. Chem. 267:5442-5445(1992) [PubMed: 1544921] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-21, ACETYLATION AT SER-2 BY NATA.
[7]	"The list of cytoplasmic ribosomal proteins of Saccharomyces cerevisiae." Planta R.J., Mager W.H. Yeast 14:471-477(1998) [PubMed: 9559554] [Abstract] Cited for: NOMENCLATURE, SUBUNIT.
[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: 14562095] [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: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[10]	"Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry." Chi A., Huttenhower C., Geer L.Y., Coon J.J., Syka J.E.P., Bai D.L., Shabanowitz J., Burke D.J., Troyanskaya O.G., Hunt D.F. Proc. Natl. Acad. Sci. U.S.A. 104:2193-2198(2007) [PubMed: 17287358] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-122; SER-124; THR-129 AND SER-133, MASS SPECTROMETRY.
[11]	"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: 14976550] [Abstract] Cited for: 3D-STRUCTURE MODELING, ELECTRON MICROSCOPY.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X95966 Genomic DNA. Translation: CAA65204.1.
Z48008 Genomic DNA. Translation: CAA88072.1.
Z74308 Genomic DNA. Translation: CAA98832.1.
AY558570 Genomic DNA. Translation: AAS56896.1.
M22583 Genomic DNA. Translation: AAA34975.1.
BK006938 Genomic DNA. Translation: DAA11858.1.

PIR

S50993.

RefSeq

NP_010295.1. NM_001180320.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1S1I	electron microscopy	11.70	D	2-362	[»]
2WW9	electron microscopy	8.60	H	1-362	[»]
2WWA	electron microscopy	8.90	H	1-362	[»]

ProteinModelPortal

P49626.

SMR

P49626. Positions 1-343.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-5367N.

IntAct

P49626. 208 interactions.

MINT

MINT-572151.

STRING

P49626.

Proteomic databases

PeptideAtlas

P49626.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YDR012W; YDR012W; YDR012W.

GeneID

851575.

KEGG

sce:YDR012W.

Organism-specific databases

SGD

S000002419. RPL4B.

Phylogenomic databases

eggNOG

fuNOG07143.

GeneTree

EFGT00050000004434.

HOGENOM

HBG316531.

OMA

QGGGTHR.

OrthoDB

EOG4GF6PS.

Gene expression databases

ArrayExpress

P49626.

Genevestigator

P49626.

GermOnline

YDR012W. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR002136. Ribosomal_L4/L1e.
IPR013000. Ribosomal_L4/L1e_euk/arc_CS.
IPR023574. Ribosomal_L4_dom.
[Graphical view]

Gene3D

G3DSA:3.40.1370.10. G3DSA:3.40.1370.10. 1 hit.

KO

K02930.

Pfam

PF00573. Ribosomal_L4. 1 hit.
[Graphical view]

SUPFAM

SSF52166. Ribosomal_L4/L1E. 1 hit.

PROSITE

PS00939. RIBOSOMAL_L1E. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

NextBio

969031.

Entry information

Entry name

RL4B_YEAST

Accession

Primary (citable) accession number: P49626
Secondary accession number(s): D6VRZ8

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1996
Last sequence update:	January 23, 2007
Last modified:	December 14, 2011
This is version 97 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program