P05756 (RS13_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
40S ribosomal protein S13

Alternative name(s):
S27a
YS15

Gene names

Name:	RPS13
Synonyms:	RPS13C
Ordered Locus Names:	YDR064W
ORF Names:	D4252, YD9609.18

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	151 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 small 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.5
Subcellular location	Cytoplasm By similarity.
Sequence similarities	Belongs to the ribosomal protein S15P family.

Ontologies

Keywords
Cellular component	Cytoplasm
Molecular function	Ribonucleoprotein Ribosomal protein
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	cytoplasmic translation Inferred by curator PubMed 2517480PubMed 3533916Ref.4. Source: SGD maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Inferred from mutant phenotype PubMed 16246728. Source: SGD
Cellular_component	90S preribosome Inferred from direct assay PubMed 12150911. Source: SGD cytosolic small ribosomal subunit Inferred from direct assay PubMed 2517480PubMed 3533916Ref.4. Source: SGD
Molecular_function	SSU rRNA binding Inferred from direct assay PubMed 2517480. Source: SGD structural constituent of ribosome Inferred from direct assay PubMed 2517480PubMed 3533916Ref.4. 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.4 Ref.6

Chain

2 – 151

150

40S ribosomal protein S13 HAMAP-Rule MF_01343_A

PRO_0000115689

Amino acid modifications

Modified residue

12

1

Phosphoserine Ref.7 Ref.8

Modified residue

14

1

Phosphoserine Ref.8

Modified residue

30

1

Phosphoserine Ref.7

Modified residue

32

1

Phosphoserine Ref.8

Experimental info

Sequence conflict

25

1

W → G AA sequence Ref.4

Sequence conflict

32

1

S → C AA sequence Ref.4

Secondary structure

1

.

.

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.

.

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.

.

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.

.

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.

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.

.

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151

Helix Strand Turn

Details...

Beta strand

4 – 7

4

Helix

30 – 41

12

Turn

42 – 44

3

Helix

47 – 57

11

Helix

63 – 66

4

Beta strand

67 – 69

3

Helix

71 – 77

7

Helix

86 – 104

19

Helix

109 – 131

23

Helix

143 – 150

8

Sequences

	Sequence		Length	Mass (Da)
	P05756 [UniParc]. Last modified January 23, 2007. Version 3. Checksum: 9AA9EFBEC837053D	FASTA	151	17,029
	10 20 30 40 50 60 MGRMHSAGKG ISSSAIPYSR NAPAWFKLSS ESVIEQIVKY ARKGLTPSQI GVLLRDAHGV 70 80 90 100 110 120 TQARVITGNK IMRILKSNGL APEIPEDLYY LIKKAVSVRK HLERNRKDKD AKFRLILIES 130 140 150 RIHRLARYYR TVAVLPPNWK YESATASALV N

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Nucleotide sequence analysis of a 32,500 bp region of the right arm of Saccharomyces cerevisiae chromosome IV." Brandt P., Ramlow S., Otto B., Bloecker H. Yeast 12:85-90(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[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] [Europe PMC] [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]	"Isolation of seventeen proteins and amino-terminal amino acid sequences of eight proteins from cytoplasmic ribosomes of yeast." Otaka E., Higo K., Osawa S. Biochemistry 21:4545-4550(1982) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-41.
[5]	"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.
[6]	"The action of N-terminal acetyltransferases on yeast ribosomal proteins." Arnold R.J., Polevoda B., Reilly J.P., Sherman F. J. Biol. Chem. 274:37035-37040(1999) [PubMed] [Europe PMC] [Abstract] Cited for: CLEAVAGE OF INITIATOR METHIONINE.
[7]	"Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway." Gruhler A., Olsen J.V., Mohammed S., Mortensen P., Faergeman N.J., Mann M., Jensen O.N. Mol. Cell. Proteomics 4:310-327(2005) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-12 AND SER-30, MASS SPECTROMETRY. Strain: YAL6B.
[8]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-12; SER-14 AND SER-32, MASS SPECTROMETRY.
[9]	"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 66-130, ELECTRON MICROSCOPY.
[10]	"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 OF 66-130, ELECTRON MICROSCOPY.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X84162 Genomic DNA. Translation: CAA58980.1.
Z49209 Genomic DNA. Translation: CAA89093.1.
Z74360 Genomic DNA. Translation: CAA98882.1.
BK006938 Genomic DNA. Translation: DAA11910.1.

PIR

S54048.

RefSeq

NP_010349.3. NM_001180372.3.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1K5X	model	-	O	66-130	[»]
1S1H	electron microscopy	11.70	O	66-130	[»]
3IZB	electron microscopy	-	O	1-151	[»]
3O2Z	X-ray	4.00	G	1-151	[»]
3O30	X-ray	4.00	G	1-151	[»]
3U5C	X-ray	3.00	N	1-151	[»]
3U5G	X-ray	3.00	N	1-151	[»]

ProteinModelPortal

P05756.

SMR

P05756. Positions 2-151.

ModBase

Search...

Protein-protein interaction databases

IntAct

P05756. 50 interactions.

MINT

MINT-1324638.

STRING

4932.YDR064W.

Proteomic databases

PaxDb

P05756.

PeptideAtlas

P05756.

PRIDE

P05756.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YDR064W; YDR064W; YDR064W.

GeneID

851636.

KEGG

sce:YDR064W.
sce:YDR068W.

Organism-specific databases

SGD

S000002471. RPS13.

Phylogenomic databases

eggNOG

COG0184.

GeneTree

ENSGT00390000017491.

HOGENOM

HOG000180723.

KO

K02953.

OMA

MARMHAR.

OrthoDB

EOG4QZBWD.

Gene expression databases

Genevestigator

P05756.

GermOnline

YDR064W. Saccharomyces cerevisiae.

Family and domain databases

HAMAP

MF_01343_A. Ribosomal_S15_S13e_A.

InterPro

IPR012606. Ribosomal_S13/S15_N.
IPR000589. Ribosomal_S15.
IPR023029. Ribosomal_S15P.
IPR009068. S15_NS1_RNA-bd.
[Graphical view]

Pfam

PF08069. Ribosomal_S13_N. 1 hit.
PF00312. Ribosomal_S15. 1 hit.
[Graphical view]

SUPFAM

SSF47060. S15/NS1_bind. 1 hit.

PROSITE

PS00362. RIBOSOMAL_S15. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P05756.

NextBio

969194.

Entry information

Entry name

RS13_YEAST

Accession

Primary (citable) accession number: P05756
Secondary accession number(s): D6VS50

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1988
Last sequence update:	January 23, 2007
Last modified:	April 3, 2013
This is version 129 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program