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On One Page

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Gene |

Product(s) |

Expression|

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Standard Name	cmoA
Gene Synonym(s)	yecO, ECK1871, b1870, JW1859^[1]^[2], JW1859
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] , ECK1871, JW1859, yecO, b1870
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): yecN^[3]
Regulation/Activity
Quick Links
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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], JW1859
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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	42.04 minutes	MG1655: 1950726..1951469 <gbrowseImage> name=NC_000913:1950726..1951469 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 1931472..1932215 <gbrowseImage> name=NC_012967:1931472..1932215 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 1842785..1843528 <gbrowseImage> name=NC_012759:1842785..1843528 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1954416..1955159 <gbrowseImage> name=NC_007779:1954416..1955159 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)	Phenotype: Type	Phenotype: Description	Reference	Availability
ΔyecO::kan	deletion	Biolog:respiration	unable to respire Acetate	PMID:16095938
ΔcmoA724::kan				PMID:16738554	CGSC:106144
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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

Plasmid clone

Shigen

PMID:16769691

Status:

Primer 1:

Primer 2:

20H4

Kohara Phage

Genobase

PMID:3038334

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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:G7020	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG14033	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003607	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946380	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3787	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006237	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	YecO
Synonyms	predicted methyltransferase^[1], YecO^[3]^[1], B1870^[3]^[1], CmoA^[2]^[1], CmoB^[2]^[1] , ECK1871, JW1859, yecO, b1870
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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<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:0002098	tRNA wobble uridine modification	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005271	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006400	tRNA modification	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01589	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008033	tRNA processing	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0819	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008152	metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013216	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008168	methyltransferase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013216	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:0008757	S-adenosylmethionine-dependent methyltransferase activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01589	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016300	tRNA (uracil) methyltransferase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005271	F	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
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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	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.

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 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.

Type	Residues	Description	Notes	References
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
Domain	61..162	PF08241 Methyltransferase domain		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=cmoA taxon=562,83333 </beststructure>

Models

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Structure figures

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Notes

Gene Product Resources

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Resource type	Source	Notes/Reference
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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:16129823	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946380	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006237	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P76290	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G7020	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG14033	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946380	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003607	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3787	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	1571	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	317	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	594	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)
yecN
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File:.jpg

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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_000913:1950706..1950746 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: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 Name	Resource Type	Description	Source	Notes
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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.

Database	Accession	Notes
EcoCyc	EcoCyc:G7020	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3787	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1870
EcoGene	EcoGene:EG14033	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003607	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006237	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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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
Shigella flexneri	YECO	From SHIGELLACYC
E. coli O157	YECO	From ECOO157CYC
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Notes

Families

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<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF08241 Methyltransferase domain
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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 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^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
↑ ^4.0 ^4.1 ^4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.

cmoA: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 cmoA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Notes

Families

Notes

Links

References

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