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mcrB:On One Page

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Standard Name

mcrB

Gene Synonym(s)

ECK4336, b4346, JW5871, rglB[1]

Product Desc.

McrB subunit of 5-methylcytosine restriction system[2][3];

Component of McrBC restriction endonuclease[3]

McrBC restriction endonuclease, catalytic subunit; 5-methylcytosine-specific; requires GTP, inhibited by ATP[4]

Product Synonyms(s)

5-methylcytosine-specific restriction enzyme McrBC, subunit McrB product[1], B4346 product[2][1], RglB product[2][1], McrB product[2][1]

Function from GO

Molecular Function

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): mcrBC[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(mcrB)    Textpresso(mcrB)

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Notes

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McrB-S is an alternative product initiating at codon 162. McrB-S is seen in some overexpression constructs but has not yet been observed as a native protein. McrB-S has no known function.[4]

In vitro, purified McrBs modulates the cleavage activity of McrBC, probably through binding to McrC.[5],


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

mcrB

Mnemonic

Modified cytosine restriction

Synonyms

ECK4336, b4346, JW5871, rglB[1]

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Notes

Location(s) and DNA Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

98.63 minutes 

MG1655: 4577360..4575981
gbrowse_img.php?coord=4575981..4577360&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 4557282..4555903
gbrowse_img.php?coord=4555903..4557282&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 4584017..4582638
gbrowse_img.php?coord=4582638..4584017&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

BW2952

NC_012759: 4514465..4515844
gbrowse_img.php?coord=4514465..4515844&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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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 typeLocationDescription
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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.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

ΔmcrB (Keio:JW5871)

deletion

deletion

PMID:16738554

Shigen

mcrB9999

CGSC:5624

mcrB1

CGSC:21918

mcrB2222

CGSC:22074


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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

ResourceResource TypeSourceNotes/Reference

JW5871

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGAATCTATTCAACCCTGGAT

Primer 2:CCTGAGTCCCCTAATAATTTGTT

zjf-920::Tn10

Linked marker

CAG12019 = CGSC7484[6]

est. P1 cotransduction: % [7]
Synonyms:zjh-901::Tn10, zjg-920::Tn10

mdoB202::Tn10

Linked marker

CAG18430 = CGSC7488[6]

est. P1 cotransduction: 54% [7]
Synonyms:zjj-202::Tn10, zji-202::Tn10

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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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10574

EchoBASE (EcoliWiki Page)

EchoBASE:EB0569

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4346

EcoGene (EcoliWiki Page)

EcoGene:EG10574

CGSC (EcoliWiki Page)

CGSC:4978

ASAP (EcoliWikiPage)

ASAP:ABE-0014250


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Notes

Links

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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

McrB product

Synonyms

5-methylcytosine-specific restriction enzyme McrBC, subunit McrB product[1], B4346 product[2][1], RglB product[2][1], McrB product[2][1]

Product description

McrB subunit of 5-methylcytosine restriction system[2][3];

Component of McrBC restriction endonuclease[3]

McrBC restriction endonuclease, catalytic subunit; 5-methylcytosine-specific; requires GTP, inhibited by ATP[4]

EC number (for enzymes)
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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.

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0005515

protein binding

PMID:15690043

IPI: Inferred from Physical Interaction

UniProtKB:P31806

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0000166

nucleotide binding

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR003593
SP_KW:KW-0547

F

Seeded from EcoCyc [9]

complete

GO:0003677

DNA binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc [9]

complete

GO:0004518

nuclease activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0540

F

Seeded from EcoCyc [9]

complete

GO:0004519

endonuclease activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0255

F

Seeded from EcoCyc [9]

complete

GO:0005515

protein binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004491

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005524

ATP binding

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004491
InterPro:IPR011704

F

Seeded from EcoCyc [9]

complete

GO:0005525

GTP binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0342

F

Seeded from EcoCyc [9]

complete

GO:0009307

DNA restriction-modification system

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0680

P

Seeded from EcoCyc [9]

complete

GO:0009376

HslUV protease complex

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004491

C

Seeded from EcoCyc [9]

complete

GO:0016787

hydrolase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc [9]

complete

GO:0016887

ATPase activity

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004491
InterPro:IPR011704

F

Seeded from EcoCyc [9]

complete

GO:0017111

nucleoside-triphosphatase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003593

F

Seeded from EcoCyc [9]

complete

GO:0005737

cytoplasm

C

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0070011

peptidase activity, acting on L-amino acid peptides

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004491

F

Seeded from EcoCyc [9]

complete

GO:0006308

DNA catabolic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

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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 TypePartnerNotesReferencesEvidence

Protein

Subunits of McrBC restriction endonuclease

could be indirect

Protein

yjeF

PMID:15690043

Experiment(s):EBI-891305

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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

CompartmentDescriptionEvidenceSourceNotes
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Notes

Structure and Physical Properties

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Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Sequence

at EcoCyc 

MRKAYLMESI QPWIEKFIKQ AQQQRSQSTK DYPTSYRNLR VKLSFGYGNF TSIPWFAFLG
EGQEASNGIY PVILYYKDFD ELVLAYGISD TNEPHAQWQF SSDIPKTIAE YFQATSGVYP
KKYGQSYYAC SQKVSQGIDY TRFASMLDNI INDYKLIFNS GKSVIPPMSK TESYCLEDAL
NDLFIPETTI ETILKRLTIK KNIILQGPPG VGKTFVARRL AYLLTGEKAP QRVNMVQFHQ
SYSYEDFIQG YRPNGVGFRR KDGIFYNFCQ QAKEQPEKKY IFIIDEINRA NLSKVFGEVM
MLMEHDKRGE NWSVPLTYSE NDEERFYVPE NVYIIGLMNT ADRSLAVVDY ALRRRFSFID
IEPGFDTPQF RNFLLNKKAE PSFVESLCQK MNELNQEISK EATILGKGFR IGHSYFCCGL
EDGTSPDTQW LNEIVMTDIA PLLEEYFFDD PYKQQKWTNK LLGDS
Length

465

Mol. Wt

53.922 kDa

pI

5.7 (calculated)

Extinction coefficient

76,210 - 76,960 (calc based on 29 Y, 6 W, and 6 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.

TypeResiduesDescriptionNotesReferences
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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures
Models

View models at:

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Structure figures

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 typeSourceNotes/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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10574-MONOMER

UniProt (EcoliWiki Page)

UniProt:P15005

PFAM (EcoliWiki Page)

PFAM:PF07728

RefSeq (EcoliWiki Page)

RefSeq:NP_418766


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Notes

Links

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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

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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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)

mcrBC

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Figure courtesy of RegulonDB

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=4577340..4577380&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein+flip&width=400&figure=Nterm&.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 See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele NameMutationPhenotypeReference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

TypeReferenceNotes

microarray

GEO Profiles:b4346 (EcoliWiki Page)

NCBI GEO profiles for mcrB

microarray

GenExpDB:b4346 (EcoliWiki Page)

Summary of data for mcrB 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 NameResource TypeDescriptionSourceNotes

GFP Fusion

Intergenic region (4576847..4577109) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ04; Well:E3[10]

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Notes

Accessions Related to mcrB Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10574

EchoBASE (EcoliWiki Page)

EchoBASE:EB0569

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4346

EcoGene (EcoliWiki Page)

EcoGene:EG10574


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Notes

Links

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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.

OrganismHomologs (Statistics)Comments

Apis mellifera

  • ENSAPMP00000033143 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

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Do-It-Yourself Web Tools

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF07728


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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 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. ↑ 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. ↑ 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. ↑ 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. ↑ Panne D et al. (1998) McrBs, a modulator peptide for McrBC activity. EMBO J 17: 5477-83 PubMed EcoliWiki page
  6. ↑ 6.0 6.1 CGSC: The Coli Genetics Stock Center
  7. ↑ 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. ↑ 8.0 8.1 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  9. ↑ 9.00 9.01 9.02 9.03 9.04 9.05 9.06 9.07 9.08 9.09 9.10 9.11 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  10. ↑ 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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