metE: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

metE

Gene Synonym(s)

ECK3823, b3829, JW3805, metB12[1], metB12

Product Desc.

Methionine synthase, cobalamin-independent; 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferase; binds Zn(II)[2]

Product Synonyms(s)

5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase[1], B3829[3][1], MetE[3][1] , ECK3823, JW3805, metB12, b3829

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): metE[3]

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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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

metE

Mnemonic

Methionine

Synonyms

ECK3823, b3829, JW3805, metB12[1], metB12

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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

86.45 minutes 

MG1655: 4011076..4013337
<gbrowseImage> name=NC_000913:4011076..4013337 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3977480..3979741
<gbrowseImage> name=NC_012967:3977480..3979741 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3900745..3903006
<gbrowseImage> name=NC_012759:3900745..3903006 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3623628..3621367
<gbrowseImage> name=NC_007779:3621367..3623628 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4109996..4112257
<gbrowseImage> name=NC_010473:4109996..4112257 source=DH10B 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

4011079

Edman degradation

PMID:1339288
PMID:9298646


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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

ΔmetE (Keio:JW3805)

deletion

deletion

PMID:16738554

Shigen
CGSC10758[4]

metEH641N

H641N

Impaired activity, lower affinity for zinc binding

seeded from UniProt:P25665

metEC726S

C726S

Impaired activity, lower affinity for zinc binding. Binds homocysteine 2-4x more weakly than wild-type

seeded from UniProt:P25665

metEH641Q

H641Q

Impaired activity, lower affinity for zinc binding. Binds homocysteine 2-4x more weakly than wild-type

seeded from UniProt:P25665

metEC643S

C643S

Impaired activity, lower affinity for zinc binding. Binds homocysteine 7x tighter than wild-type

seeded from UniProt:P25665

metE70

CGSC:4524

metE163::Tn10

CGSC:5080

metE94

CGSC:5939

metE47

CGSC:6834

metE101

CGSC:7048

metE192

CGSC:7413

metE46

CGSC:8202

metE40

CGSC:9066

metE68

CGSC:11484

metE90

CGSC:27794

ΔmetE774::kan

PMID:16738554

CGSC:101830


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Notes

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

JW3805

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCACAATATTGAATCACACCCT

Primer 2:CCgCCCCGACGCAAGTTCTGCGC

1C10

Kohara Phage

Genobase

PMID:3038334

metEo-3079::Tn10

Linked marker

CAG18491 = CGSC7464[4]

est. P1 cotransduction: 92% [5]
Synonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.

fad-751::Tn10

Linked marker

CAG18496 = CGSC7465[4]

est. P1 cotransduction: 56% [5]
Synonyms:fadAB101::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:EG10584

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10584

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000577

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948323

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0579

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012520

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

MetE

Synonyms

5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase[1], B3829[3][1], MetE[3][1] , ECK3823, JW3805, metB12, b3829

Product description

Methionine synthase, cobalamin-independent; 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferase; binds Zn(II)[2]

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:0003871

5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00172

F

Seeded from EcoCyc (v14.0)

complete

GO:0003871

5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002629

F

Seeded from EcoCyc (v14.0)

complete

GO:0003871

5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006276

F

Seeded from EcoCyc (v14.0)

complete

GO:0003871

5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013215

F

Seeded from EcoCyc (v14.0)

complete

GO:0003871

5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.1.1.14

F

Seeded from EcoCyc (v14.0)

complete

GO:0008168

methyltransferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0489

F

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013215

F

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0862

F

Seeded from EcoCyc (v14.0)

complete

GO:0008652

cellular amino acid biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013215

P

Seeded from EcoCyc (v14.0)

complete

GO:0008652

cellular amino acid biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0028

P

Seeded from EcoCyc (v14.0)

complete

GO:0009086

methionine biosynthetic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00172

P

Seeded from EcoCyc (v14.0)

complete

GO:0009086

methionine biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002629

P

Seeded from EcoCyc (v14.0)

complete

GO:0009086

methionine biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006276

P

Seeded from EcoCyc (v14.0)

complete

GO:0009086

methionine biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0486

P

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

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

allB

PMID:16606699

Experiment(s):EBI-1146747

Protein

matC

PMID:16606699

Experiment(s):EBI-1146747

Protein

serA

PMID:16606699

Experiment(s):EBI-1146747

Protein

yncD

PMID:16606699

Experiment(s):EBI-1146747
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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 

MTILNHTLGF PRVGLRRELK KAQESYWAGN STREELLAVG RELRARHWDQ QKQAGIDLLP
VGDFAWYDHV LTTSLLLGNV PARHQNKDGS VDIDTLFRIG RGRAPTGEPA AAAEMTKWFN
TNYHYMVPEF VKGQQFKLTW TQLLDEVDEA LALGHKVKPV LLGPVTWLWL GKVKGEQFDR
LSLLNDILPV YQQVLAELAK RGIEWVQIDE PALVLELPQA WLDAYKPAYD ALQGQVKLLL
TTYFEGVTPN LDTITALPVQ GLHVDLVHGK DDVAELHKRL PSDWLLSAGL INGRNVWRAD
LTEKYAQIKD IVGKRDLWVA SSCSLLHSPI DLSVETRLDA EVKSWFAFAL QKCHELALLR
DALNSGDTAA LAEWSAPIQA RRHSTRVHNP AVEKRLAAIT AQDSQRANVY EVRAEAQRAR
FKLPAWPTTT IGSFPQTTEI RTLRLDFKKG NLDANNYRTG IAEHIKQAIV EQERLGLDVL
VHGEAERNDM VEYFGEHLDG FVFTQNGWVQ SYGSRCVKPP IVIGDISRPA PITVEWAKYA
QSLTDKPVKG MLTGPVTILC WSFPREDVSR ETIAKQIALA LRDEVADLEA AGIGIIQIDE
PALREGLPLR RSDWDAYLQW GVEAFRINAA VAKDDTQIHT HMCYCEFNDI MDSIAALDAD
VITIETSRSD MELLESFEEF DYPNEIGPGV YDIHSPNVPS VEWIEALLKK AAKRIPAERL
WVNPDCGLKT RGWPETRAAL ANMVQAAQNL RRG
Length

753

Mol. Wt

84.674 kDa

pI

5.8 (calculated)

Extinction coefficient

153,320 - 154,195 (calc based on 18 Y, 23 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

Initiator Methionine

1

Removed

UniProt:P25665

Domain

114..237

PF01717 Cobalamin-independent synthase, Catalytic domain

PMID:19920124

Domain

426..749

PF01717 Cobalamin-independent synthase, Catalytic domain

PMID:19920124

Domain

4..316

PF08267 Cobalamin-independent synthase, N-terminal domain

PMID:19920124

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

Structures

<beststructure> gene=metE 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:16131678

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948323

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012520

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P25665

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10584

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10584

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948323

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000577

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0579

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

E. coli K-12 MC4100

4.97E+02

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

E. coli K-12 MG1655

571

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

63552

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

282818

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)

metE

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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_000913:4011056..4011096 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:b3829 (EcoliWiki Page)

NCBI GEO profiles for metE

microarray

GenExpDB:b3829 (EcoliWiki Page)

Summary of data for metE 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 (4010318..4010659) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ01; Well:C4[6]

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Notes

Accessions Related to metE Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10584

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0579

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3829

EcoGene

EcoGene:EG10584

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000577

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012520

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

Arabidopsis thaliana

  • AT5G20980 (score: 1.000; bootstrap: 100%)
  • AT5G17920 (score: 0.617)
  • AT3G03780 (score: 0.606)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0230069 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q4LB13 (score: 1.000; bootstrap: 100%)
  • Q6BCT3 (score: 0.998)
  • Q4LB12 (score: 0.885)
  • Q8W529 (score: 0.863)
  • Q8W0Q7 (score: 0.858)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YER091C (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC99 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

METE

From SHIGELLACYC

E. coli O157

METE

From ECOO157CYC

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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

Pfam (EcoliWiki Page)

PF01717 Cobalamin-independent synthase, Catalytic domain

Pfam (EcoliWiki Page)

PF01717 Cobalamin-independent synthase, Catalytic domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:51726

Superfamily (EcoliWiki Page)

SUPERFAMILY:51726

Pfam (EcoliWiki Page)

PF08267 Cobalamin-independent synthase, N-terminal domain

EcoCyc

EcoCyc:EG10584

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10584

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000577

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0579

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012520

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. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  3. ↑ 3.0 3.1 3.2 3.3 3.4 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
  5. ↑ 5.0 5.1 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).
  6. ↑ 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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