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On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	rpsA
Gene Synonym(s)	ECK0902, b0911, JW0894, ssyF, rps^[1]
Product Desc.	30S ribosomal subunit protein S1^[2]^[3]; Component of 30S ribosomal subunit^[2]^[3]; ribosome^[2]^[3] 30S ribosomal subunit protein S1; subunit of RNA phage Qbeta replicase; binds and stimulates RNAP^[4]
Product Synonyms(s)	30S ribosomal subunit protein S1^[1], SsyF^[2]^[1], B0911^[2]^[1], RpsA^[2]^[1] , ECK0902, JW0894, ssyF, b0911
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): rpsA-ihfB^[2], rpsA-himD, cmk-rpsA^[2]
Regulation/Activity
Quick Links
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Notes

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HT_Cmplx22_Cyt: DnaK+GrpE+GyrA+RpsA. HT_Cmplx30_Mem: ClpB+DnaK+InfB+RpsA.^[4]

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	rpsA
Mnemonic	Ribosomal protein, small
Synonyms	ECK0902, b0911, JW0894, ssyF, rps^[1]
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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	20.72 minutes	MG1655: 961218..962891 <gbrowseImage> name=NC_000913:961218..962891 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 979087..980760 <gbrowseImage> name=NC_012967:979087..980760 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 864186..865859 <gbrowseImage> name=NC_012759:864186..865859 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 962417..964090 <gbrowseImage> name=NC_007779:962417..964090 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 1015146..1016819 <gbrowseImage> name=NC_010473:1015146..1016819 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	961218	Edman degradation	PMID:7041110 PMID:7783627 PMID:9298646 PMID:9600841 PMID:11248028
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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)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
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Notes

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
JW0894	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCACTGAATCTTTTGCTCAACT Primer 2:CCCTCGCCTTTAGCTGCTTTGAA
6D12	Kohara Phage	Genobase	PMID:3038334
zca-1230::Tn10	Linked marker	CAG18478 = CGSC7356^[5]	est. P1 cotransduction: 60% ^[6] Synonyms:zbj-1230::Tn10
zcb-3059::Tn10	Linked marker	CAG12094 = CGSC7358^[5]	est. P1 cotransduction: 17% ^[6]
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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:EG10900	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10900	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000891	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945536	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0893	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003104	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	RpsA
Synonyms	30S ribosomal subunit protein S1^[1], SsyF^[2]^[1], B0911^[2]^[1], RpsA^[2]^[1] , ECK0902, JW0894, ssyF, b0911
Product description	30S ribosomal subunit protein S1^[2]^[3]; Component of 30S ribosomal subunit^[2]^[3]; ribosome^[2]^[3] 30S ribosomal subunit protein S1; subunit of RNA phage Qbeta replicase; binds and stimulates RNAP^[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:0003723	RNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000110	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003723	RNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003029	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003723	RNA binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0694	F	Seeded from EcoCyc (v14.0)	complete
	GO:0022627	cytosolic small ribosomal subunit				C		Missing: evidence, reference
	GO:0003735	structural constituent of ribosome	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000110	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005840	ribosome	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000110	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005840	ribosome	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0689	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006412	translation	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000110	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	PMID:16858726	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc (v14.0)	complete
	GO:0030529	ribonucleoprotein complex	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0687	C	Seeded from EcoCyc (v14.0)	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	slyD		PMID:16606699	Experiment(s):EBI-1138332
Protein	amiA		PMID:16606699	Experiment(s):EBI-1138332
Protein	yfdP		PMID:16606699	Experiment(s):EBI-1138332
Protein	rplQ		PMID:16606699	Experiment(s):EBI-1138332
Protein	rplA		PMID:16606699	Experiment(s):EBI-1138332
Protein	rpsE		PMID:16606699	Experiment(s):EBI-1138332
Protein	ompL		PMID:16606699	Experiment(s):EBI-1138332
Protein	rplB		PMID:16606699	Experiment(s):EBI-1138332, EBI-1145550
Protein	rpsI		PMID:16606699	Experiment(s):EBI-1138332
Protein	moaC		PMID:16606699	Experiment(s):EBI-1138332
Protein	rpsD		PMID:16606699	Experiment(s):EBI-1138332
Protein	rpsB		PMID:16606699	Experiment(s):EBI-1138332
Protein	matC		PMID:16606699	Experiment(s):EBI-1138332
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	Evidence	Reference/Source
cytoplasm		From EcoCyc^[3]
Cytoplasm	PMID:7041110, PMID:7783627, PMID:9298646, PMID:9600841, PMID:11248028	EchoLocation:rpsA
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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 MTESFAQLFE ESLKEIETRP GSIVRGVVVA IDKDVVLVDA GLKSESAIPA EQFKNAQGEL EIQVGDEVDV ALDAVEDGFG ETLLSREKAK RHEAWITLEK AYEDAETVTG VINGKVKGGF TVELNGIRAF LPGSLVDVRP VRDTLHLEGK ELEFKVIKLD QKRNNVVVSR RAVIESENSA ERDQLLENLQ EGMEVKGIVK NLTDYGAFVD LGGVDGLLHI TDMAWKRVKH PSEIVNVGDE ITVKVLKFDR ERTRVSLGLK QLGEDPWVAI AKRYPEGTKL TGRVTNLTDY GCFVEIEEGV EGLVHVSEMD WTNKNIHPSK VVNVGDVVEV MVLDIDEERR RISLGLKQCK ANPWQQFAET HNKGDRVEGK IKSITDFGIF IGLDGGIDGL VHLSDISWNV AGEEAVREYK KGDEIAAVVL QVDAERERIS LGVKQLAEDP FNNWVALNKK GAIVTGKVTA VDAKGATVEL ADGVEGYLRA SEASRDRVED ATLVLSVGDE VEAKFTGVDR KNRAISLSVR AKDEADEKDA IATVNKQEDA NFSNNAMAEA FKAAKGE
Length	557
Mol. Wt	61.156 kDa
pI	4.7 (calculated)
Extinction coefficient	47,440 - 47,690 (calc based on 6 Y, 7 W, and 2 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	References
Domain	17..87	PF00575 S1 RNA binding domain	PMID:19920124
Domain	101..171	PF00575 S1 RNA binding domain	PMID:19920124
Domain	188..260	PF00575 S1 RNA binding domain	PMID:19920124
Domain	273..347	PF00575 S1 RNA binding domain	PMID:19920124
Domain	360..434	PF00575 S1 RNA binding domain	PMID:19920124
Domain	447..520	PF00575 S1 RNA binding domain	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=rpsA 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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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
NCBI (Protein) (EcoliWiki Page)	GI:16128878	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945536	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003104	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0AG67	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10900	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10900	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945536	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000891	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0893	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	Notes	Reference(s)
Protein	E. coli K-12 MC4100	2.64E+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 EMG2	820	molecules/cell	Medium: MOPS glucose minimal Temperature (°C): 37 Doubling time (min): Growth phase: Exponential OD: OD600 = 0.2 to 0.25 other: aerated	Quantitative protein sequencing	Spot ID: M44-l	PMID: 9298646
Protein	E. coli K-12 EMG2	540	molecules/cell	Medium: MOPS glucose minimal Temperature (°C): 37 Doubling time (min): Growth phase: Exponential OD: OD600 = 0.2 to 0.25 other: aerated	Quantitative protein sequencing	Spot ID: M44-2	PMID: 9298646
Protein	E. coli K-12 MG1655	126181	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	18934	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	26489	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)
rpsA-ihfB
cmk-rpsA
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Figure courtesy of RegulonDB

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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_000913:961198..961238 source=MG1655 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

</protect>

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:b0911 (EcoliWiki Page)	NCBI GEO profiles for rpsA
microarray	GenExpDB:b0911 (EcoliWiki Page)	Summary of data for rpsA 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 (961008..961258) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ19; Well:F8^[7]
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Notes

Accessions Related to rpsA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10900	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0893	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0911
EcoGene	EcoGene:EG10900	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000891	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003104	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
Arabidopsis thaliana	AT5G30510 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000012818 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000015340 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000013431 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Homo sapiens	ENSP00000278073 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000009253 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000013871 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Mus musculus	MGI:1341788 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000005127 (score: 1.000; bootstrap: 89%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000027521 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000134892 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00022695001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000007173 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	RPSA	From SHIGELLACYC
E. coli O157	RPSA	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:50249
Superfamily (EcoliWiki Page)	SUPERFAMILY:50249
Superfamily (EcoliWiki Page)	SUPERFAMILY:50249
Superfamily (EcoliWiki Page)	SUPERFAMILY:50249
Superfamily (EcoliWiki Page)	SUPERFAMILY:50249
Superfamily (EcoliWiki Page)	SUPERFAMILY:50249
Pfam (EcoliWiki Page)	PF00575 S1 RNA binding domain
Pfam (EcoliWiki Page)	PF00575 S1 RNA binding domain
Pfam (EcoliWiki Page)	PF00575 S1 RNA binding domain
Pfam (EcoliWiki Page)	PF00575 S1 RNA binding domain
Pfam (EcoliWiki Page)	PF00575 S1 RNA binding domain
Pfam (EcoliWiki Page)	PF00575 S1 RNA binding domain
EcoCyc	EcoCyc:EG10900	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10900	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000891	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0893	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003104	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 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 ^3.6 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 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

rpsA: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 rpsA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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