{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Standard Name	trmH
Gene Synonym(s)	ECK3641, b3651, JW3626, spoU^[1], spoU
Product Desc.	EG10967^[2]^[3] tRNA mG18-2'-O-methyltransferase^[4]
Product Synonyms(s)	tRNA (Guanosine-2'-O-)-methyltransferase^[1], B3651^[2]^[1], TrmH^[2]^[1], SpoU^[2]^[1] , ECK3641, JW3626, spoU, b3651
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): rpoZ-spoT-trmH-recG^[2], rpoZ-spoTU-recG
Regulation/Activity
Quick Links
edit table

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

[back to top]

Gene

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css> <protect>

Nomenclature

[back to top]

See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	trmH
Mnemonic	tRNA methyltransferase
Synonyms	ECK3641, b3651, JW3626, spoU^[1], spoU
edit table

</protect>

Notes

Location(s) and DNA Sequence

[back to top]

<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	82.39 minutes, 82.39 minutes	MG1655: 3822538..3823227 <gbrowseImage> name=NC_000913:3822538..3823227 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3762872..3763561 <gbrowseImage> name=NC_012967:3762872..3763561 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3710871..3711560 <gbrowseImage> name=NC_012759:3710871..3711560 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3815900..3815211 <gbrowseImage> name=NC_007779:3815211..3815900 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
edit table

</protect>

Notes

Sequence Features

[back to top]

See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
edit table

Notes

Alleles and Phenotypes

[back to top]

See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Reference	Availability	Comments
ΔtrmH (Keio:JW3626)	deletion	deletion	PMID:16738554	Shigen
spoU::Tn5KAN-I-SceI (FB21368)	Insertion at nt 270 in Plus orientation		PMID:15262929	E. coli Genome Project:FB21368	does not contain pKD46
spoU::Tn5KAN-I-SceI (FB21369)	Insertion at nt 270 in Plus orientation		PMID:15262929	E. coli Genome Project:FB21369	contains pKD46
edit table

Notes

Genetic Interactions

[back to top]

Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
edit table

</protect>

Notes

Genetic Resources

[back to top]

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

Resource	Resource Type	Source	Notes/Reference
JW3626	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAACCCAACACGTTATGCACG Primer 2:CCgCCTGCAGCCTGCATAGTAGC
7F3	Kohara Phage	Genobase	PMID:3038334
2A6	Kohara Phage	Genobase	PMID:3038334
zhg-50::Tn10	Linked marker	CAG18450 = CGSC7450^[5]	est. P1 cotransduction: % ^[6] Synonyms:zhf-50::Tn10, zhf-5::Tn10
zic-4901::Tn10	Linked marker	CAG18492 = CGSC7457^[5]	est. P1 cotransduction: 84% ^[6]
edit table

Notes

Accessions in Other Databases

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10967	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10967	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000956	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948161	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0960	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011937	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Product(s)

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Nomenclature

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

Standard name	TrmH
Synonyms	tRNA (Guanosine-2'-O-)-methyltransferase^[1], B3651^[2]^[1], TrmH^[2]^[1], SpoU^[2]^[1] , ECK3641, JW3626, spoU, b3651
Product description	EG10967^[2]^[3] tRNA mG18-2'-O-methyltransferase^[4]
EC number (for enzymes)
edit table

Notes

Function

[back to top]

<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:0003723	RNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001537	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0963	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0086	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006396	RNA processing	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001537	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: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:0008173	RNA methyltransferase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001537	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009020	tRNA (guanosine-2'-O-)-methyltransferase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:2.1.1.34	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
	GO:0009020	tRNA (guanosine-2'-O-)-methyltransferase activity	PMID:9321663	IMP: Inferred from Mutant Phenotype		F		complete
	GO:0030488	tRNA methylation	PMID:9321663	TAS: Traceable Author Statement		P		complete
edit table

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	rpsI	PMID:16606699	Experiment(s):EBI-1146412
Protein	yahI	PMID:16606699	Experiment(s):EBI-1146412
Protein	rpsG	PMID:16606699	Experiment(s):EBI-1146412
edit table

</protect>

Notes

Localization

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

Compartment	Description	Evidence	Reference/Source	Notes
edit table

Notes

Structure and Physical Properties

[back to top]

<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 MNPTRYARIC EMLARRQPDL TVCMEQVHKP HNVSAIIRTA DAVGVHEVHA VWPGSRMRTM ASAAAGSNSW VQVKTHRTIG DAVAHLKGQG MQILATHLSD NAVDFREIDY TRPTCILMGQ EKTGITQEAL ALADQDIIIP MIGMVQSLNV SVASALILYE AQRQRQNAGM YLRENSMLPE AEQQRLLFEG GYPVLAKVAK RKGLPYPHVN QQGEIEADAD WWATMQAAG
Length	229
Mol. Wt	25.342 kDa
pI	7.3 (calculated)
Extinction coefficient	30,940 - 31,315 (calc based on 6 Y, 4 W, and 3 C residues)
edit table

Domains/Motifs/Modification Sites

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

Type	Residues	Description	References
Domain	19..159	PF00588 SpoU rRNA Methylase family	PMID:19920124
Domain	163..221	PF12105 SpoU, rRNA methylase, C-terminal	PMID:19920124
edit table

<motif_map/>

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

Structures

<beststructure> gene=trmH taxon=562,83333 </beststructure>

Models

View models at:

edit table

</protect>

Structure figures

</protect>

Notes

Gene Product Resources

[back to top]

See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
edit table

Notes

Accessions in Other Databases

[back to top]

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

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:16131522	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948161	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011937	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0AGJ2	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10967	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10967	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948161	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000956	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0960	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Expression

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

[back to top]

See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Reference(s)
Protein	E. coli K-12 MG1655	605	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	189	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	386	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
edit table

Notes

Transcription and Transcriptional Regulation

[back to top]

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

Transcription unit(s)
rpoZ-spoT-trmH-recG
edit table

Figure courtesy of RegulonDB

</protect>

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

[back to top]

<protect><gbrowseImage> name=NC_000913:3822518..3822558 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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

</protect>

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

[back to top]

<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
edit table

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

Type	Reference	Notes
microarray	GEO Profiles:b3651 (EcoliWiki Page)	NCBI GEO profiles for trmH
microarray	GenExpDB:b3651 (EcoliWiki Page)	Summary of data for trmH from multiple microarray studies
edit table

Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
edit table

Notes

Accessions Related to trmH Expression

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10967	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0960	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3651
EcoGene	EcoGene:EG10967	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000956	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011937	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Evolution

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Homologs in Other Organisms

[back to top]

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

Organism	Homologs (Statistics)	Comments
Arabidopsis thaliana	AT5G15390 (score: 1.000; bootstrap: 95%)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000005936 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00020498 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000016946 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000012844 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0216794 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0038953 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila pseudoobscura	GA15007-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000017892 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Homo sapiens	ENSP00000040877 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000028576 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000010573 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q6ZJE6 (score: 1.000; bootstrap: 89%)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000003591 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	SPOU	From SHIGELLACYC
E. coli O157	SPOU	From ECOO157CYC
edit table

Do-It-Yourself Web Tools

Notes

Families

[back to top]

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

Database	Accession	Notes
Panther (EcoliWiki Page)	PTHR12029:SF22
Superfamily (EcoliWiki Page)	SUPERFAMILY:75217
Pfam (EcoliWiki Page)	PF00588 SpoU rRNA Methylase family
Pfam (EcoliWiki Page)	PF12105 SpoU, rRNA methylase, C-terminal
EcoCyc	EcoCyc:EG10967	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10967	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000956	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0960	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011937	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

References

[back to top]

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

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 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 ^2.8 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 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).

trmH:On One Page

Quickview

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 trmH Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

Categories

Navigation menu

Search