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Standard Name	rpsO
Gene Synonym(s)	ECK3154, b3165, JW3134, secC^[1], secC
Product Desc.	30S ribosomal subunit protein S15^[2]^[3]; Component of 30S ribosomal subunit^[2]^[3]; ribosome^[2]^[3] 30S ribosomal subunit protein S15^[4]
Product Synonyms(s)	30S ribosomal subunit protein S15^[1], B3165^[2]^[1], SecC^[2]^[1], RpsO^[2]^[1] , ECK3154, JW3134, secC, b3165
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): rpsO^[2], rpsO-pnp^[2], metY-yhbC-nusA-infB-rbfA-truB-rpsO-pnp^[2]
Regulation/Activity
Quick Links
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Notes

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Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	rpsO
Mnemonic	Ribosomal protein, small
Synonyms	ECK3154, b3165, JW3134, secC^[1], secC
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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	71.33 minutes	MG1655: 3309706..3309437 <gbrowseImage> name=NC_000913:3309437..3309706 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3246918..3246649 <gbrowseImage> name=NC_012967:3246649..3246918 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3196585..3196854 <gbrowseImage> name=NC_012759:3196585..3196854 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3311539..3311270 <gbrowseImage> name=NC_007779:3311270..3311539 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3407451..3407182 <gbrowseImage> name=NC_010473:3407182..3407451 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
Coding Start (SO:0000323)	MG1655	3309440	Edman degradation	PMID:776686
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Reference	Availability
ΔrpsO (Keio:JW3134)	deletion	deletion	PMID:16738554	Shigen
rpsO2208				CGSC:46644
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Notes

The Keio collection^[5] lists a deletion of rpsO. The insertion in this strain is a duplication of the rpsO region.^[6]

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW3134	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTCTCTAAGTACTGAAGCAAC Primer 2:CCGCGACGCAGACCCAGGCGCTC
E4G11S	Kohara Phage	Genobase	PMID:3038334
aer-3075::Tn10	Linked marker	CAG12152 = CGSC7438^[7]	est. P1 cotransduction: % ^[8] Synonyms:zgh-3075::Tn10, zgj-3075::Tn10
sfsB203::Tn10	Linked marker	CAG12072 = CGSC7440^[7]	est. P1 cotransduction: 45% ^[8] Synonyms:zgj-203::Tn10, zha-203::Tn10
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG10914	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10914	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000905	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947686	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0907	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010401	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name	RpsO
Synonyms	30S ribosomal subunit protein S15^[1], B3165^[2]^[1], SecC^[2]^[1], RpsO^[2]^[1] , ECK3154, JW3134, secC, b3165
Product description	30S ribosomal subunit protein S15^[2]^[3]; Component of 30S ribosomal subunit^[2]^[3]; ribosome^[2]^[3] 30S ribosomal subunit protein S15^[4]
EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0003735	structural constituent of ribosome	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000589	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003735	structural constituent of ribosome	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005290	F	Seeded from EcoCyc (v14.0)	complete
	GO:0006412	translation	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01343	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006412	translation	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000589	P	Seeded from EcoCyc (v14.0)	complete
	GO:0022627	cytosolic small ribosomal subunit	PMID:4587209	IDA: Inferred from Direct Assay		C		complete
	GO:0006412	translation	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005290	P	Seeded from EcoCyc (v14.0)	complete
	GO:0019843	rRNA binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0699	F	Seeded from EcoCyc (v14.0)	complete
	GO:0019843	rRNA binding	PMID:4912319	IDA: Inferred from Direct Assay		F		complete
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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	Notes	References	Evidence
Protein	Subunits of 30S ribosomal subunit	could be indirect
Protein	rpsG		PMID:16606699	Experiment(s):EBI-1144972
Protein	amiA		PMID:16606699	Experiment(s):EBI-1144972
Protein	rpsB		PMID:16606699	Experiment(s):EBI-1144972
Protein	rplB		PMID:16606699	Experiment(s):EBI-1144972
Protein	ycgE		PMID:16606699	Experiment(s):EBI-1144972
Protein	rplA		PMID:16606699	Experiment(s):EBI-1144972
Protein	rpsD		PMID:16606699	Experiment(s):EBI-1144972
Protein	yehH		PMID:16606699	Experiment(s):EBI-1144972
Protein	baeR		PMID:16606699	Experiment(s):EBI-1144972
Protein	ulaF		PMID:16606699	Experiment(s):EBI-1144972
Protein	rpsC		PMID:16606699	Experiment(s):EBI-1144972
Protein	nadE		PMID:16606699	Experiment(s):EBI-1144972
Protein	Subunits of ribosome	could be indirect
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Description	Evidence	Reference/Source	Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence	at EcoCyc MSLSTEATAK IVSEFGRDAN DTGSTEVQVA LLTAQINHLQ GHFAEHKKDH HSRRGLLRMV SQRRKLLDYL KRKDVARYTQ LIERLGLRR
Length	89
Mol. Wt	10.268 kDa
pI	10.8 (calculated)
Extinction coefficient	2,980 (calc based on 2 Y, 0 W, and 0 C residues)
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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type	Residues	Description	Notes	References
Initiator Methionine	1	Removed	UniProt:P0ADZ4
Domain	6..88	PF00312 Ribosomal protein S15		PMID:19920124
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<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=rpsO taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
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Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:16131057	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947686	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010401	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0ADZ4	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10914	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10914	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947686	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000905	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0907	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Cellular Levels

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See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Reference(s)
Protein	E. coli K-12 MC4100	4.53E+05	molecules/cell	Medium: median data from rich and minimal media Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other:	emPAI	PMID:18304323
Protein	E. coli K-12 MG1655	155015	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	25378	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	64485	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
rpsO
rpsO-pnp
metY-yhbC-nusA-infB-rbfA-truB-rpsO-pnp
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Figure courtesy of RegulonDB

</protect>

Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:3309686..3309726 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b3165 (EcoliWiki Page)	NCBI GEO profiles for rpsO
microarray	GenExpDB:b3165 (EcoliWiki Page)	Summary of data for rpsO from multiple microarray studies
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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
	GFP Fusion	Intergenic region (3309254..3309553) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ19; Well:C5^[9]
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Notes

Accessions Related to rpsO Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG10914	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0907	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3165
EcoGene	EcoGene:EG10914	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000905	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010401	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
Apis mellifera	ENSAPMP00000016033 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Arabidopsis thaliana	AT1G80620 (score: 1.000; bootstrap: 100%) AT1G15810 (score: 0.389)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000005018 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Danio rerio	ZDB-GENE-040718-188 (score: 1.000; bootstrap: 100%) ZDB-CDNA-040718-213 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0188436 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0026261 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila pseudoobscura	GA18031-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q658E3 (score: 1.000; bootstrap: 73%) Q69SJ7 (score: 0.289)	From Inparanoid:20070104
Saccharomyces cerevisiae	YDR337W (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPBC11B104c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000136765 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00022927001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000049314 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Shigella flexneri	RPSO	From SHIGELLACYC
E. coli O157	RPSO	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
Superfamily (EcoliWiki Page)	SUPERFAMILY:47060
Panther (EcoliWiki Page)	PTHR23321:SF10
Pfam (EcoliWiki Page)	PF00312 Ribosomal protein S15
EcoCyc	EcoCyc:EG10914	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10914	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000905	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0907	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010401	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 ^2.11 ^2.12 ^2.13 ^2.14 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 ^3.5 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed
↑ Yamamoto, N et al. (2009) Update on the Keio collection of Escherichia coli single-gene deletion mutants. Mol. Syst. Biol. 5 335 PubMed
↑ ^7.0 ^7.1 CGSC: The Coli Genetics Stock Center
↑ ^8.0 ^8.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

rpsO:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to rpsO Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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