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Expression|

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Standard Name	endA
Gene Synonym(s)	ECK2940, b2945, JW2912^[1], JW2912
Product Desc.	DNA-specific endonuclease I^[2]^[3] DNA-specific endonuclease I, periplasmic; inhibited by RNA; extensive DNA breakdown^[4]
Product Synonyms(s)	DNA-specific endonuclease I^[1], B2945^[2]^[1], EndA^[2]^[1] , ECK2940, JW2912, b2945
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): endA^[2]
Regulation/Activity
Quick Links
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Notes

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First 22 aa are predicted to be a type I signal peptide.^[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	endA
Mnemonic	Endonuclease
Synonyms	ECK2940, b2945, JW2912^[1], JW2912
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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	66.56 minutes	MG1655: 3088369..3089076 <gbrowseImage> name=NC_000913:3088369..3089076 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2976098..2976805 <gbrowseImage> name=NC_012967:2976098..2976805 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2975517..2976224 <gbrowseImage> name=NC_012759:2975517..2976224 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3089003..3089710 <gbrowseImage> name=NC_007779:3089003..3089710 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	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
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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: Description	Reference	Availability	Comments
Strain DH10B		E208K	Nonsynonomous mutation	PMID:18245285	ASAP	This is a SNP in E. coli K-12 Strain DH10B
endA(del) (Keio:JW2912)	deletion	deletion		PMID:16738554	Shigen CGSC10253^[5]
endA1					CGSC:5430
endA2					CGSC:5609
endA101					CGSC:8416
endA5					CGSC:10668
endA3					CGSC:14266
endA4					CGSC:16230
endA6(del-ins)::kan					CGSC:35763
endA7(del-ins)::Cm					CGSC:35768
endA8(del:Frt:Tc)::Tc				PMID:7789817	CGSC:59095
endA9(del-ins)::FRT					CGSC:64683
endA720(del)::kan				PMID:16738554	CGSC:100710
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Notes

EndA is an enzyme in many proteobacteria. One function of the enzyme is cleaving unspecific internal sites at both RNA and DNA.^[6] Cultures of mutant endA result in large amounts of chromosmal and plasmid DNA, which does not appear in the wild type allele. EndA is responsible for DNA and plasmid DNA decomposition ^[7].

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
JW2912	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTACCGTTATTTGTCTATTGC Primer 2:CCGCTCTTTCGCGCCTGGCAAGC
23G4S	Kohara Phage	Genobase	PMID:3038334
12C6	Kohara Phage	Genobase	PMID:3038334
speA210::Tn10	Linked marker	CAG12168 = CGSC7431^[5]	est. P1 cotransduction: 91% ^[8] Synonyms:zgd-210::Tn10, zgf-210::Tn10
nupG511::Tn10	Linked marker	CAG18472 = CGSC7433^[5]	est. P1 cotransduction: 58% ^[8]
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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:EG11336	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11336	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001307	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:949092	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1312	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009661	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	EndA
Synonyms	DNA-specific endonuclease I^[1], B2945^[2]^[1], EndA^[2]^[1] , ECK2940, JW2912, b2945
Product description	DNA-specific endonuclease I^[2]^[3] DNA-specific endonuclease I, periplasmic; inhibited by RNA; extensive DNA breakdown^[4]
EC number (for enzymes)	3.1.21.1^[1]
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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:0030288	outer membrane-bounded periplasmic space				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0006308	DNA catabolic process				P	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0004518	nuclease activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR007346	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004518	nuclease activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0540	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004519	endonuclease activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0255	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004530	deoxyribonuclease I activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:3.1.21.1	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016787	hydrolase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0378	F	Seeded from EcoCyc (v14.0)	complete
	GO:0042597	periplasmic space	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0574	C	Seeded from EcoCyc (v14.0)	complete
	GO:0042597	periplasmic space	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0200	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
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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
periplasm
Periplasm	PMID:7867949	EchoLocation:endA
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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 MYRYLSIAAV VLSAAFSGPA LAEGINSFSQ AKAAAVKVHA DAPGTFYCGC KINWQGKKGV VDLQSCGYQV RKNENRASRV EWEHVVPAWQ FGHQRQCWQD GGRKNCAKDP VYRKMESDMH NLQPSVGEVN GDRGNFMYSQ WNGGEGQYGQ CAMKVDFKEK AAEPPARARG AIARTYFYMR DQYNLTLSRQ QTQLFNAWNK MYPVTDWECE RDERIAKVQG NHNPYVQRAC QARKS
Length	235
Mol. Wt	26.707 kDa
pI	9.4 (calculated)
Extinction coefficient	56,380 - 57,380 (calc based on 12 Y, 7 W, and 8 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
motif	1-22	UniProt Manual:Signal Peptides	UniProt:P25736
Domain	20..230	PF04231 Endonuclease I		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=endA 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:16130846	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:949092	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009661	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P25736	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11336	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11336	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:949092	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001307	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1312	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 MG1655	163	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	7	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	70^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	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)
endA
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Figure courtesy of RegulonDB

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Notes

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:3088349..3088389 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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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:b2945 (EcoliWiki Page)	NCBI GEO profiles for endA
microarray	GenExpDB:b2945 (EcoliWiki Page)	Summary of data for endA 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
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Notes

Accessions Related to endA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11336	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1312	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2945
EcoGene	EcoGene:EG11336	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001307	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009661	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
Shigella flexneri	ENDA	From SHIGELLACYC
E. coli O157	ENDA	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
Pfam (EcoliWiki Page)	PF04231 Endonuclease I
Superfamily (EcoliWiki Page)	SUPERFAMILY:54060
EcoCyc	EcoCyc:EG11336	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11336	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001307	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1312	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009661	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.

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 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 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 ^5.2 CGSC: The Coli Genetics Stock Center
↑ Altermark, B et al. (2007) Comparative studies of endonuclease I from cold-adapted Vibrio salmonicida and mesophilic Vibrio cholerae. FEBS J. 274 252-63 PubMed
↑ Lin, JJ (1992) Endonuclease A degrades chromosomal and plasmid DNA of Escherichia coli present in most preparations of single stranded DNA from phagemids. Proc. Natl. Sci. Counc. Repub. China B 16 1-5 PubMed
↑ ^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).

endA: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 endA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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