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relA:On One Page

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Gene Name	relA (synonyms: ECK2778, b2784, JW2755, RC)^[1]
Product(s)	RelA product^[1]: (p)ppGpp synthetase I/GTP pyrophosphokinase product, B2784 product, ppGpp synthase I product
Description	RELA-MONOMER^[2]^[3]
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): relA-mazEF^[2]^[3], relA-chpRA, chpA
Regulation/Activity
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Notes

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Gene

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Nomenclature

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Standard name	relA
Mnemonic
Synonyms	ECK2778, b2784, JW2755, RC^[1]
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Notes

Location(s) and DNA Sequence

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Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	62.71 minutes	MG1655: 2911673..2909439	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
W3110		W3110: 2912307..2910073	GBrowse(W3110)	FASTA Dump
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Strain

Map location

Genome coordinates

Genome browsers

Sequence links

MG1655

62.71 minutes

MG1655: 2911673..2909439
gbrowse_img.php?coord=2908439..2912673&genome=ecoli&name=MG1655&trackset=0&width=300&.png

EcoCyc

GBrowse(MG1655)

W3110

W3110: 2912307..2910073
gbrowse_img.php?coord=2909073..2913307&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

GBrowse(W3110)

FASTA Dump

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Notes

Sequence Features

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Feature type	Location	Description
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Notes

Alleles and Phenotypes

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Allele	Nt change(s)	AA change(s)	Reference	Availability
ΔrelA (Keio:JW2755)	deletion	deletion	PMID:16738554^[4]	Shigen CGSC10159^[5]
relA1			PMID:2556396^[6]	CGSC:4549
relA2				CGSC:5370
relA0				CGSC:6052
relA41				CGSC:12141
relA42				CGSC:12143
ΔrelA782::kan			PMID:16738554^[4]	CGSC:102636
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Notes

Genetic Resources

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Resource	Resource Type	Source	Notes/Reference
JW2755	Plasmid clone	Shigen	PMID:16769691^[7] Status:Clone OK Primer 1:GCCGTTGCGGTAAGAAGTGCACA Primer 2:CCACTCCCGTGCAACCGACGCGC
cysI95::Tn10	Linked marker	CAG12173 = CGSC7425^[5]	est. P1 cotransduction: 42% ^[8] Synonyms:cysC95::Tn10
fucP3072::Tn10	Linked marker	CAG12079 = CGSC7427^[5]	est. P1 cotransduction: 43% ^[8] Synonyms:fuc-3072::Tn10
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Notes

Accessions in Other Databases

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Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:EG10835
EchoBASE (EcoliWiki Page)	EchoBASE:EB0828
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2784
ECOL199310CYC (EcoliWiki Page)	ECOL199310CYC:C3347
EcoGene (EcoliWiki Page)	EcoGene:EG10835
ECOO157CYC (EcoliWiki Page)	ECOO157CYC:RELA
CGSC (EcoliWiki Page)	CGSC:306
ASAP (EcoliWikiPage)	ASAP:ABE-0009125
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Links

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Name	URL	Comments
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Product(s)

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Nomenclature

Standard name	RelA product
Synonyms	(p)ppGpp synthetase I/GTP pyrophosphokinase product^[1], B2784 product^[2]^[1], RelA product^[2]^[1], ppGpp synthase I product^[2]^[1]
Product description	RELA-MONOMER^[2]^[3]
EC number (for enzymes)	2.7.6.5^[1]
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Notes

Function

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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(s)	Evidence Code	with/from	Aspect	Notes	Status
	GO:0016740	transferase activity	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0808	F	Seeded from EcoCyc 12.5 ^[9]	complete
	GO:0016597	amino acid binding	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002912	F	Seeded from EcoCyc 12.5 ^[9]	complete
	GO:0016301	kinase activity	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0418	F	Seeded from EcoCyc 12.5 ^[9]	complete
	GO:0015969	guanosine tetraphosphate metabolic process	GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004811 InterPro:IPR007685	P	Seeded from EcoCyc 12.5 ^[9]	complete
	GO:0008728	GTP diphosphokinase activity	GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:2.7.6.5	F	Seeded from EcoCyc 12.5 ^[9]	complete
	GO:0008152	metabolic process	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002912	P	Seeded from EcoCyc 12.5 ^[9]	complete
	GO:0005737	cytoplasm				C	Seeded from EcoCyc 11.1^[3].	required fields missing
	GO:0015949	nucleobase, nucleoside and nucleotide interconversion				P	Seeded from EcoCyc 11.1^[3].	required fields missing
	GO:0009281	cytosolic ribosome (sensu Bacteria)				C	Seeded from EcoCyc 11.1^[3].	required fields missing
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Interactions

Partner Type	Partner	Notes	References
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Notes

Localization

Compartment	Description	Evidence	Notes
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Notes

Structure and Physical Properties

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Physical Properties

Sequence	at EcoCyc MVAVRSAHIN KAGEFDPEKW IASLGITSQK SCECLAETWA YCLQQTQGHP DASLLLWRGV EMVEILSTLS MDIDTLRAAL LFPLADANVV SEDVLRESVG KSVVNLIHGV RDMAAIRQLK ATHTDSVSSE QVDNVRRMLL AMVDDFRCVV IKLAERIAHL REVKDAPEDE RVLAAKECTN IYAPLANRLG IGQLKWELED YCFRYLHPTE YKRIAKLLHE RRLDREHYIE EFVGHLRAEM KAEGVKAEVY GRPKHIYSIW RKMQKKNLAF DELFDVRAVR IVAERLQDCY AALGIVHTHY RHLPDEFDDY VANPKPNGYQ SIHTVVLGPG GKTVEIQIRT KQMHEDAELG VAAHWKYKEG AAAGGARSGH EDRIAWLRKL IAWQEEMADS GEMLDEVRSQ VFDDRVYVFT PKGDVVDLPA GSTPLDFAYH IHSDVGHRCI GAKIGGRIVP FTYQLQMGDQ IEIITQKQPN PSRDWLNPNL GYVTTSRGRS KIHAWFRKQD RDKNILAGRQ ILDDELEHLG ISLKEAEKHL LPRYNFNDVD ELLAAIGGGD IRLNQMVNFL QSQFNKPSAE EQDAAALKQL QQKSYTPQNR SKDNGRVVVE GVGNLMHHIA RCCQPIPGDE IVGFITQGRG ISVHRADCEQ LAELRSHAPE RIVDAVWGES YSAGYSLVVR VVANDRSGLL RDITTILANE KVNVLGVASR SDTKQQLATI DMTIEIYNLQ VLGRVLGKLN QVPDVIDARR LHGS
Mol. Wt	83.88 kDa (calc) ^[2]
pI	6.76^[2]
Extinction coefficient	93280 - 94655 (calc based on 22 Y, 11 W, and 11 C residues)
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Domains/Motifs/Modification Sites

Type	Residues	Description	Notes
Domain	667 - 741	ACT	UniProt:P0AG20
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Structure

Structures	Representative homolog: 1VJ7\|A (Streptococcus dysgalactiae sub) 55-385 of 744 residues (E-value: 4.2e-68) (Percent Identity: 39.71) View all other structures.
Models	View models at: EcoliPredict ModBase PSI-PRED Protein Quaternary Structure (PQS) Genomes TO Protein (GTOP)
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Structures

Representative homolog:
1VJ7|A (Streptococcus dysgalactiae sub)
55-385 of 744 residues (E-value: 4.2e-68) (Percent Identity: 39.71)
View all other structures.

Models

View models at:

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Notes

Gene Product Resources

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Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:RELA-MONOMER
UniProt (EcoliWiki Page)	UniProt:P0AG20
PFAM (EcoliWiki Page)	PFAM:PF04607
RefSeq (EcoliWiki Page)	RefSeq:NP_417264
ModBase (EcoliWiki Page)	ModBase:P0AG20
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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.

Transcription and Transcriptional Regulation

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Transcription unit(s)
relA-mazEF
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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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gbrowse_img.php?coord=2911653..2911693&genome=ecoli&name=MG1655&trackset=Genes_unlabeled+DNA_unlabeled+flip&width=400&.png
This picture shows the sequence around the N-terminus.

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

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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Mutations Affecting Expression

Allele Name	Mutation	Phenotype	Reference
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Expression Studies

Type	Reference	Notes
microarray	EcoliGenExpDB:b2784 (EcoliWiki Page)	Summary of data for relA from multiple microarray studies
microarray	GEO Profiles:b2784 (EcoliWiki Page)	NCBI GEO profiles for relA
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Expression Resources

Resource Name	Resource Type	Description	Source	Notes
	GFP Fusion	Intergenic region (2911600..2911755) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ20; Well:B4^[10]
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Notes

Accessions Related to relA Expression

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Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:EG10835
EchoBASE (EcoliWiki Page)	EchoBASE:EB0828
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2784
EcoGene (EcoliWiki Page)	EcoGene:EG10835
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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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Organism	Homologs (Statistics)	Comments
Arabidopsis thaliana	AT4G02260 (score: 1.000; bootstrap: 73%)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000024795 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00038968 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00014148 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000018036 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Danio rerio	ZDB-GENE-050417-377 (score: 1.000; bootstrap: 100%) ZDB-CDNA-050417-378 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0230182 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0039650 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila pseudoobscura	GA11268-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Homo sapiens	ENSP00000330721 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000006766 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000024331 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Mus musculus	MGI:1915945 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q6ATB4 (score: 1.000; bootstrap: 97%) Q9AYT4 (score: 0.998) Q75IS2 (score: 0.549) Q6ATB2 (score: 0.496)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000012759 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000016445 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000171044 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00034759001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	RELA	From SHIGELLACYC
E. coli O157	RELA	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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Database	Accession	Notes
PFAM (EcoliWiki Page)	PFAM:PF04607
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Notes

Links

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Name	URL	Comments
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References

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↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 ^2.6 ^2.7 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 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 EcoliWiki page
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ Metzger S et al. (1989) Characterization of the relA1 mutation and a comparison of relA1 with new relA null alleles in Escherichia coli. J Biol Chem 264: 21146-52 PubMed EcoliWiki page
↑ Kitagawa M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (A Complete Set of E. coli K-12 ORF Archive): Unique Resources for Biological Research. DNA Res 12: 291-9 PubMed EcoliWiki page
↑ ^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).
↑ ^9.0 ^9.1 ^9.2 ^9.3 ^9.4 ^9.5 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ Zaslaver A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat Methods 3: 623-8 PubMed EcoliWiki page

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Retrieved from "http://ecoliwiki.net/colipedia/index.php/relA:On_One_Page"

relA:On One Page

From EcoliWiki

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Categories

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Categories

Expression

Overview

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to relA Expression

Notes

Links

Categories

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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