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Gene |

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Expression|

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Standard Name	mcrA
Gene Synonym(s)	ECK1145, b1159, JW1145, rglA^[1], rglA
Product Desc.	restriction of DNA at 5-methylcytosine residues^[2]^[3] 5-methylcytosine-specific restriction endonuclease B, e14; prophage gene^[4]
Product Synonyms(s)	e14 prophage; 5-methylcytosine-specific restriction endonuclease B^[1], B1159^[2]^[1], RglA^[2]^[1], McrA^[2]^[1] , ECK1145, JW1145, rglA, b1159
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): mcrA^[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	mcrA
Mnemonic	Modified cytosine restriction
Synonyms	ECK1145, b1159, JW1145, rglA^[1], rglA
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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

26.07 minutes

MG1655: 1209569..1210402
<gbrowseImage> name=NC_000913:1209569..1210402 source=MG1655 preset=GeneLocation </gbrowseImage>

EcoCyc

GBrowse(MG1655)

W3110

W3110: 1211923..1212756
<gbrowseImage> name=NC_007779:1211923..1212756 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)	Reference	Availability
ΔmcrA (Keio:JW1145)	deletion	deletion	PMID:16738554	Shigen CGSC9065^[5]
mcrA0				CGSC:10892
ΔmcrA747::kan			PMID:16738554	CGSC:101770
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Notes

Raleigh et al.^[6] tested the mcrA and mcrB phenotypes of 94 E. coli strains.

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
JW1145	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCCATGTTTTTGATAATAATGG Primer 2:CCTTTCTGTAATCGGTTTATATT
3E11	Kohara Phage	Genobase	PMID:3038334
zce-726::Tn10	Linked marker	CAG12078 = CGSC7361^[5]	est. P1 cotransduction: 7% ^[7]
zcf-117::Tn10	Linked marker	CAG18463 = CGSC7363^[5]	est. P1 cotransduction: 96% ^[7]
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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:EG10573	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10573	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000566	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945727	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0568	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003891	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	McrA
Synonyms	e14 prophage; 5-methylcytosine-specific restriction endonuclease B^[1], B1159^[2]^[1], RglA^[2]^[1], McrA^[2]^[1] , ECK1145, JW1145, rglA, b1159
Product description	restriction of DNA at 5-methylcytosine residues^[2]^[3] 5-methylcytosine-specific restriction endonuclease B, e14; prophage gene^[4]
EC number (for enzymes)	3.1.21.-^[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:0005737	cytoplasm				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0003676	nucleic acid binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002711	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:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002711	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:0009307	DNA restriction-modification system	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0680	P	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:0008327	methyl-CpG binding	PMID:20015968	IDA: Inferred from Direct Assay		F	Purified mcrA protein binds to synthetic oligodeoxynucleotides containing 5meC	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	References	Evidence
Protein	rpsD	PMID:16606699	Experiment(s):EBI-1139015
Protein	nfnB	PMID:16606699	Experiment(s):EBI-1139015
Protein	rplB	PMID:16606699	Experiment(s):EBI-1139015
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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 MHVFDNNGIE LKAECSIGEE DGVYGLILES WGPGDRNKDY NIALDYIIER LVDSGVSQVV VYLASSSVRK HMHSLDERKI HPGEYFTLIG NSPRDIRLKM CGYQAYFSRT GRKEIPSGNR TKRILINVPG IYSDSFWASI IRGELSELSQ PTDDESLLNM RVSKLIKKTL SQPEGSRKPV EVERLQKVYV RDPMVKAWIL QQSKGICENC GKNAPFYLND GNPYLEVHHV IPLSSGGADT TDNCVALCPN CHRELHYSKN AKELIEMLYV NINRLQK
Length	277
Mol. Wt	31.39 kDa
pI	7.5 (calculated)
Extinction coefficient	35,870 - 36,745 (calc based on 13 Y, 3 W, and 7 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
Domain	205..259	PF01844 HNH endonuclease		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=mcrA 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:16129122	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945727	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003891	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P24200	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10573	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10573	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945727	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000566	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0568	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 MG1655	100	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	47	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	80	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)
mcrA
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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_000913:1209549..1209589 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:b1159 (EcoliWiki Page)	NCBI GEO profiles for mcrA
microarray	GenExpDB:b1159 (EcoliWiki Page)	Summary of data for mcrA 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 (1209377..1209647) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ07; Well:B3^[8]
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Notes

Accessions Related to mcrA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10573	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0568	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1159
EcoGene	EcoGene:EG10573	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000566	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003891	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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<protect> See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
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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)	PF01844 HNH endonuclease
EcoCyc	EcoCyc:EG10573	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10573	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000566	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0568	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003891	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 ^1.11 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 ^2.8 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 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
↑ Raleigh, EA et al. (1988) McrA and McrB restriction phenotypes of some E. coli strains and implications for gene cloning. Nucleic Acids Res. 16 1563-75 PubMed
↑ ^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).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

mcrA: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 mcrA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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