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Gene Name	ada (synonyms: ECK2205, b2213, JW2201)^[1]
Product(s)	Ada product^[1]: fused DNA-binding transcriptional dual regulator product, O6-methylguanine-DNA methyltransferase product, B2213 product
Description	Ada transcriptional dual regulator^[2]^[3]
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): ada-alkB^[2], OP00100
Regulation/Activity
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Notes

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Gene

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Nomenclature

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Standard name	ada
Mnemonic
Synonyms	ECK2205, b2213, JW2201^[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	49.73 minutes	MG1655: 2308427..2307363	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
W3110		W3110: 2313739..2312675	GBrowse(W3110)	FASTA Dump
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Strain

Map location

Genome coordinates

Genome browsers

Sequence links

MG1655

49.73 minutes

MG1655: 2308427..2307363
gbrowse_img.php?coord=2306363..2309427&genome=ecoli&name=MG1655&trackset=0&width=300&.png

EcoCyc

GBrowse(MG1655)

W3110

W3110: 2313739..2312675
gbrowse_img.php?coord=2311675..2314739&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
Δada (Keio:JW2201)	deletion	deletion	PMID:16738554^[4]	Shigen CGSC9780^[5]
ada-1				CGSC:12943
ada-2				CGSC:12946
ada-3				CGSC:12948
ada-4				CGSC:12950
ada-5				CGSC:12952
ada-6				CGSC:12954
Δada-766::kan			PMID:16738554^[4]	CGSC:99908
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Notes

Genetic Resources

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Resource	Resource Type	Source	Notes/Reference
JW2201	Plasmid clone	Shigen	PMID:16769691^[6] Status:Clone OK Primer 1:GCCAAAAAAGCCACATGCTTAAC Primer 2:CCtCTCTCCTCATTTTCAGCTTC
napA722::Tn10	Linked marker	CAG12098 = CGSC7400^[5]	est. P1 cotransduction: 82% ^[7] Synonyms:zeg-722, zei-722::Tn10
atoS298::Tn10	Linked marker	CAG12177 gyrA+ = CGSC7525^[5]	est. P1 cotransduction: 65% ^[7] Synonyms:zeh-298::Tn10, zej-298::Tn10 The original CAG12177 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).
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Notes

Accessions in Other Databases

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Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:EG10029
EchoBASE (EcoliWiki Page)	EchoBASE:EB0028
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2213
ECOL199310CYC (EcoliWiki Page)	ECOL199310CYC:C2754
EcoGene (EcoliWiki Page)	EcoGene:EG10029
ECOO157CYC (EcoliWiki Page)	ECOO157CYC:ADA
CGSC (EcoliWiki Page)	CGSC:1043
ASAP (EcoliWikiPage)	ASAP:ABE-0007311
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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	Ada
Synonyms	fused DNA-binding transcriptional dual regulator^[1], O6-methylguanine-DNA methyltransferase^[1], B2213^[2]^[1], Ada^[2]^[1]
Product description	Ada transcriptional dual regulator^[2]^[3]
EC number (for enzymes)	2.1.1.63^[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:0005622	intracellular	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000005	C	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0003908	methylated-DNA-(protein)-cysteine S-methyltransferase activity	GO_REF:0000002 GO_REF:0000002 GO_REF:0000003	IEA: Inferred from Electronic Annotation	InterPro:IPR001497 InterPro:IPR008332 EC:2.1.1.63	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0003677	DNA binding	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR004026 SP_KW:KW-0238	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0003700	transcription factor activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000005	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0003824	catalytic activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR014048	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0046872	metal ion binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0479	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0016740	transferase activity	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0808	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0043565	sequence-specific DNA binding	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000005	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0006281	DNA repair	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR001497 InterPro:IPR004026 InterPro:IPR008332 InterPro:IPR014048 SP_KW:KW-0234	P	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0006350	transcription	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0804	P	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0006355	regulation of transcription, DNA-dependent	GO_REF:0000002 GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR000005 InterPro:IPR004026 SP_KW:KW-0805	P	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0006974	response to DNA damage stimulus	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0227	P	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0008168	methyltransferase activity	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR004026 SP_KW:KW-0489	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0008270	zinc ion binding	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR004026 SP_KW:KW-0862	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005737	cytoplasm				C	Seeded from EcoCyc 11.1^[3].	required fields missing
	GO:0016563	transcription activator activity				F	Seeded from EcoCyc 11.1^[3].	required fields missing
	GO:0016564	transcription repressor activity				F	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
membrane			From EcoCyc^[3]
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Notes

Structure and Physical Properties

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Physical Properties

Sequence	at EcoCyc MKKATCLTDD QRWQSVLARD PNADGEFVFA VRTTGIFCRP SCRARHALRE NVSFYANASE ALAAGFRPCK RCQPEKANAQ QHRLDKITHA CRLLEQETPV TLEALADQVA MSPFHLHRLF KATTGMTPKA WQQAWRARRL RESLAKGESV TTSILNAGFP DSSSYYRKAD ETLGMTAKQF RHGGENLAVR YALADCELGR CLVAESERGI CAILLGDDDA TLISELQQMF PAADNAPADL MFQQHVREVI ASLNQRDTPL TLPLDIRGTA FQQQVWQALR TIPCGETVSY QQLANAIGKP KAVRAVASAC AANKLAIIIP CHRVVRGDGT LSGYRWGVSR KAQLLRREAE NEER
Mol. Wt	39.32 kDa (calc) ^[2]
pI	8.69^[2]
Extinction coefficient	36440 - 37940 (calc based on 6 Y, 5 W, and 12 C residues)
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Domains/Motifs/Modification Sites

Type	Residues	Description	Notes
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Structure

Structures	Representative Escherichia coli structure: 1ZGW\|A 1-138 of 354 residues (E-value: 1.0e-71) (Percent Identity: 97.10) Representative homolog: 1WRJ\|A (Sulfolobus tokodaii) 60-146 of 354 residues (E-value: 1.6e-10) (Percent Identity: 38.89) 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 Escherichia coli structure:
1ZGW|A
1-138 of 354 residues (E-value: 1.0e-71) (Percent Identity: 97.10)
Representative homolog:
1WRJ|A (Sulfolobus tokodaii)
60-146 of 354 residues (E-value: 1.6e-10) (Percent Identity: 38.89)
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:PD00230
UniProt (EcoliWiki Page)	UniProt:P06134
PFAM (EcoliWiki Page)	PFAM:PF02805
RefSeq (EcoliWiki Page)	RefSeq:NP_416717
ModBase (EcoliWiki Page)	ModBase:P06134
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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)
ada-alkB
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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=2308407..2308447&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	GenExpDB:b2213 (EcoliWiki Page)	Summary of data for ada from multiple microarray studies
microarray	GEO Profiles:b2213 (EcoliWiki Page)	NCBI GEO profiles for ada
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Expression Resources

Resource Name	Resource Type	Description	Source	Notes
	GFP Fusion	Intergenic region (2308332..2308580) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ12; Well:F1^[9]
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Notes

Accessions Related to ada Expression

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Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:EG10029
EchoBASE (EcoliWiki Page)	EchoBASE:EB0028
EcoliGenExpDB (EcoliWiki Page)	GenExpDB:b2213
EcoGene (EcoliWiki Page)	EcoGene:EG10029
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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
Apis mellifera	ENSAPMP00000020221 (score: 1.000; bootstrap: 55%)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00024971 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00000093 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000019538 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0232973 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0024912 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila pseudoobscura	GA11984-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Homo sapiens	ENSP00000302111 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000015013 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Mus musculus	MGI:96977 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000005382 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000021537 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000131192 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00024953001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	ADA	From SHIGELLACYC
E. coli O157	ADA	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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Database	Accession	Notes
PFAM (EcoliWiki Page)	PFAM:PF02805
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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 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 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
↑ 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
↑ ^7.0 ^7.1 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).
↑ ^8.00 ^8.01 ^8.02 ^8.03 ^8.04 ^8.05 ^8.06 ^8.07 ^8.08 ^8.09 ^8.10 ^8.11 ^8.12 ^8.13 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/ada:On_One_Page"

ada: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 ada Expression

Notes

Links

Categories

Evolution

Homologs in Other Organisms

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Notes

Families

Notes

Links

References

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