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cmoA:On One Page

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Standard Name

cmoA

Gene Synonym(s)

yecO, ECK1871, b1870, JW1859[1][2]

Product Desc.

putative methyltransferase[3]; predicted methyltransferase[2]

Probable tRNA(mcmo5U34)methyltransferase, SAM-dependent[4]

Product Synonyms(s)

predicted methyltransferase[1], YecO[3][1], B1870[3][1], CmoA[2][1], CmoB[2][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s): yecN[3]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(cmoA)    Textpresso(cmoA)

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Notes

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CmoA catalyzes an intermediate step(s) in tRNA(cmo5U34) and tRNA(mcmo5U34) synthesis that forms uridine-5-oxyacetic acid (cmo5U) and uridine-5-oxyacetic acid methyl ester (mcmo5U) in tRNA. The cmoA ortholog is functionally characterized in S. typhimurium. YecO is paralogous to YgdE and FtsJ. otherPDB (H. influenzae): 1IM8. Modeling of 1IM8 suggests substrate might be a benzoic acid derivative, possibly consistent with a chorismic acid requirement for the synthesis of cmo(5)U34.[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

cmoA

Mnemonic

CarboxylMethOxy

Synonyms

yecO, ECK1871, b1870, JW1859[1][2]

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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

42.04 minutes 

MG1655: 1950726..1951469
gbrowse_img.php?coord=1950726..1951469&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 1931472..1932215
gbrowse_img.php?coord=1931472..1932215&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 1954416..1955159
gbrowse_img.php?coord=1954416..1955159&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

BW2952

NC_012759: 1842785..1843528
gbrowse_img.php?coord=1842785..1843528&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

ΔcmoA724::kan

PMID:16738554

CGSC:106144


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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

Plasmid clone

Shigen

PMID:16769691

Status:

Primer 1:

Primer 2:

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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:G7020

EchoBASE (EcoliWiki Page)

EchoBASE:EB3787

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1870

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C2284

EcoGene (EcoliWiki Page)

EcoGene:EG14033

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:YECO

ASAP (EcoliWikiPage)

ASAP:ABE-0006237


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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

YecO

Synonyms

predicted methyltransferase[1], YecO[3][1], B1870[3][1], CmoA[2][1], CmoB[2][1]

Product description

putative methyltransferase[3]; predicted methyltransferase[2]

Probable tRNA(mcmo5U34)methyltransferase, SAM-dependent[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:0002098

tRNA wobble uridine modification

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005271

P

Seeded from EcoCyc [5]

complete

GO:0008152

metabolic process

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013216

P

Seeded from EcoCyc 12.5 [6]

complete

GO:0008168

methyltransferase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013216

F

Seeded from EcoCyc 12.5 [6]

complete

GO:0006400

tRNA modification

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01589

P

Seeded from EcoCyc [5]

complete

GO:0008033

tRNA processing

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0819

P

Seeded from EcoCyc [5]

complete

GO:0008757

S-adenosylmethionine-dependent methyltransferase activity

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01589

F

Seeded from EcoCyc [5]

complete

GO:0016300

tRNA (uracil) methyltransferase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005271

F

Seeded from EcoCyc [5]

complete

GO:0016740

transferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc [5]

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 TypePartnerNotesReferencesEvidence

Protein

ycbR

PMID:16606699

Experiment(s):EBI-1141122

Protein

napC

PMID:16606699

Experiment(s):EBI-1141122

Protein

ruvC

PMID:16606699

Experiment(s):EBI-1141122

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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 

MSHRDTLFSA PIARLGDWTF DERVAEVFPD MIQRSVPGYS NIISMIGMLA ERFVQPGTQV
YDLGCSLGAA TLSVRRNIHH DNCKIIAIDN SPAMIERCRR HIDAYKAPTP VDVIEGDIRD
IAIENASMVV LNFTLQFLEP SERQALLDKI YQGLNPGGAL VLSEKFSFED AKVGELLFNM
HHDFKRANGY SELEISQKRS MLENVMLTDS VETHKARLHN AGFEHSELWF QCFNFGSLVA
LKAEDAA
Length

247

Mol. Wt

27.776 kDa

pI

5.4 (calculated)

Extinction coefficient

18,450 - 18,950 (calc based on 5 Y, 2 W, and 4 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

Modification Site

2

phosphorylation site at S2

probability greater than 75%

PMID:17938405

Modification Site

6

phosphorylation site at T6

probability less than 75%

PMID:17938405

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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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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:G7020-MONOMER

SwissModel (EcoliWiki Page)

SwissModel:P76290

UniProt (EcoliWiki Page)

UniProt:P76290

RefSeq (EcoliWiki Page)

RefSeq:NP_416384


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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)

yecN

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File:.jpg

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=1950706..1950746&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein&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:b1870 (EcoliWiki Page)

NCBI GEO profiles for cmoA

microarray

GenExpDB:b1870 (EcoliWiki Page)

Summary of data for cmoA 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
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Notes

Accessions Related to cmoA Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:G7020

EchoBASE (EcoliWiki Page)

EchoBASE:EB3787

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1870

EcoGene (EcoliWiki Page)

EcoGene:EG14033


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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

Shigella flexneri

YECO

From SHIGELLACYC

E. coli O157

YECO

From ECOO157CYC

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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 1.11 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 EcoCyc (release 11.1; 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 3.6 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 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 5.3 5.4 5.5 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  6. ↑ 6.0 6.1 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7

Categories

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