mcrB:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

mcrB

Gene Synonym(s)

ECK4336, b4346, JW5871, rglB[1], rglB

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[1], B4346[2][1], RglB[2][1], McrB[2][1] , ECK4336, JW5871, rglB, b4346

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): mcrBC[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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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], rglB

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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

98.63 minutes 

MG1655: 4577360..4575981
<gbrowseImage> name=NC_000913:4575981..4577360 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4557282..4555903
<gbrowseImage> name=NC_012967:4555903..4557282 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4514465..4515844
<gbrowseImage> name=NC_012759:4514465..4515844 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4584017..4582638
<gbrowseImage> name=NC_007779:4582638..4584017 source=W3110 preset=GeneLocation </gbrowseImage>

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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

Coding Start (SO:0000323)

MG1655

4575981

Edman degradation

PMID:1312983


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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: Type Phenotype: Description Reference Availability Comments

mcrB(del) (Keio:JW5871)

deletion

deletion

PMID:16738554

Shigen

mcrB9999

CGSC:5624

mcrB1

CGSC:21918

mcrB2222

CGSC:22074


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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

JW5871

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGAATCTATTCAACCCTGGAT

Primer 2:CCTGAGTCCCCTAATAATTTGTT

12G5

Kohara Phage

Genobase

PMID:3038334

10H12

Kohara Phage

Genobase

PMID:3038334

zjf-920::Tn10

Linked marker

CAG12019 = CGSC7484[7]

est. P1 cotransduction: % [8]
Synonyms:zjh-901::Tn10, zjg-920::Tn10

mdoB202::Tn10

Linked marker

CAG18430 = CGSC7488[7]

est. P1 cotransduction: 54% [8]
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.

Database Accession Notes

EcoCyc

EcoCyc:EG10574

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10574

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000567

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:949122

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0569

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014250

Escherichia coli str. K-12 substr. MG1655

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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

Synonyms

5-methylcytosine-specific restriction enzyme McrBC, subunit McrB[1], B4346[2][1], RglB[2][1], McrB[2][1] , ECK4336, JW5871, rglB, b4346

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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<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:0003677

DNA binding

PMID:7781618

IDA: Inferred from Direct Assay

F

complete

GO:0006308

DNA catabolic process

PMID:2664457

IDA: Inferred from Direct Assay

P

complete

GO:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003593

F

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

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:0005515

protein binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004491

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004491

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011704

F

Seeded from EcoCyc (v14.0)

complete

GO:0005525

GTP binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0342

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:0009376

HslUV protease complex

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004491

C

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:0016887

ATPase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004491

F

Seeded from EcoCyc (v14.0)

complete

GO:0015666

restriction endodeoxyribonuclease activity

PMID:2664457

IDA: Inferred from Direct Assay

F

complete

GO:0016887

ATPase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011704

F

Seeded from EcoCyc (v14.0)

complete

GO:0017111

nucleoside-triphosphatase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003593

F

Seeded from EcoCyc (v14.0)

complete

GO:0003924

GTPase activity

PMID:1317461

IDA: Inferred from Direct Assay

F

complete

GO:0070011

peptidase activity, acting on L-amino acid peptides

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004491

F

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

Protein

Subunits of McrBC restriction endonuclease

could be indirect

Protein

yjeF

PMID:15690043

Experiment(s):EBI-891305

Protein

yjeF

PMID:19402753

LCMS(ID Probability):99.6

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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 

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.

Type Residues Description Notes References

Domain

196..350

PF07728 AAA domain (dynein-related subfamily)

PMID:19920124

Domain

5..155

PF12102 Domain of unknown function (DUF3578)

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=mcrB 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:90111737

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:949122

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014250

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P15005

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10574

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10574

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:949122

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000567

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0569

Escherichia coli str. K-12 substr. MG1655

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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

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

Ecoli K-12

3.296+/-0.052

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.00688905

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

334

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

123

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

207

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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<protect>

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

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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_000913:4577340..4577380 source=MG1655 flip=1 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: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 Name Resource Type Description Source Notes

GFP Fusion

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

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ04; Well:E3[9]

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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.

Database Accession Notes

EcoCyc

EcoCyc:EG10574

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0569

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4346

EcoGene

EcoGene:EG10574

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000567

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014250

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

Apis mellifera

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

From Inparanoid:20070104

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Do-It-Yourself Web Tools

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Notes

Families

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

Database Accession Notes

Superfamily (EcoliWiki Page)

SUPERFAMILY:52540

Panther (EcoliWiki Page)

PTHR11262:SF5

Pfam (EcoliWiki Page)

PF07728 AAA domain (dynein-related subfamily)

Pfam (EcoliWiki Page)

PF12102 Domain of unknown function (DUF3578)

EcoCyc

EcoCyc:EG10574

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10574

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000567

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0569

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014250

Escherichia coli str. K-12 substr. MG1655

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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 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
  6. ↑ 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. ↑ 7.0 7.1 CGSC: The Coli Genetics Stock Center
  8. ↑ 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. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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