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Product(s) |

Expression|

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Standard Name	rsmC
Gene Synonym(s)	ECK4362, b4371, JW4333, fmu, rrmB, yjjT, fmv^[1]
Product Desc.	16S rRNA m²G1207 methyltransferase^[2]^[3] 16S rRNA m(2)G1207 methyltransferase, SAM-dependent^[4]
Product Synonyms(s)	16S RNA m2G1207 methylase ^[1], B4371 ^[2]^[1], YjjT ^[2]^[1], RsmC ^[2]^[1] , ECK4362, JW4333, yjjT, b4371
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): rsmC^[2]
Regulation/Activity
Quick Links
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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	rsmC
Mnemonic	Ribosomal Small subunit Methyltransferase
Synonyms	ECK4362, b4371, JW4333, fmu, rrmB, yjjT, fmv^[1]
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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	99.25 minutes	MG1655: 4605723..4604692 <gbrowseImage> name=NC_000913:4604692..4605723 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 4596934..4595903 <gbrowseImage> name=NC_012967:4595903..4596934 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 4543176..4544207 <gbrowseImage> name=NC_012759:4543176..4544207 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 4612380..4611349 <gbrowseImage> name=NC_007779:4611349..4612380 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4652185..4651154 <gbrowseImage> name=NC_010473:4651154..4652185 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	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
Coding Start (SO:0000323)	MG1655	4604695	Edman degradation	PMID:9873033
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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: Description	Reference	Availability	Comments
ΔrsmC (Keio:JW4333)	deletion	deletion		PMID:16738554	Shigen CGSC11090^[5]
rsmCK86S		K86S	Reduces activity by 84%; when associated with S-88			seeded from UniProt:P39406
rsmCK88S		K88S	Reduces activity by 84%; when associated with S-86			seeded from UniProt:P39406
rsmCD202A		D202A	Abolishes affinity for S-adenosyl- L-methionine. Loss of activity			seeded from UniProt:P39406
rsmCD227A		D227A	Strongly reduces affinity for S- adenosyl-L-methionine. Reduces activity by 87%			seeded from UniProt:P39406
rsmCN268A		N268A	Reduces affinity for S-adenosyl-L- methionine. Reduces activity by 80%			seeded from UniProt:P39406
ΔrsmC766::kan				PMID:16738554	CGSC:102818
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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
JW4333	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTCTGCATTTACCCCGGCAAG Primer 2:CCACCTTTCTTCGCCTGGCGGGT
8D1	Kohara Phage	Genobase	PMID:3038334
5C1	Kohara Phage	Genobase	PMID:3038334
mdoB202::Tn10	Linked marker	CAG18430 = CGSC7488^[5]	est. P1 cotransduction: 67% ^[6] Synonyms:zjj-202::Tn10, zji-202::Tn10
thrA34::Tn10	Linked marker	CAG18442 = CGSC7320^[5]	est. P1 cotransduction: 24% ^[6] Synonyms:thr-34::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:G7950	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12596	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004443	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948892	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2481	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0014336	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	RsmC
Synonyms	16S RNA m2G1207 methylase ^[1], B4371 ^[2]^[1], YjjT ^[2]^[1], RsmC ^[2]^[1] , ECK4362, JW4333, yjjT, b4371
Product description	16S rRNA m²G1207 methyltransferase^[2]^[3] 16S rRNA m(2)G1207 methyltransferase, SAM-dependent^[4]
EC number (for enzymes)	2.1.1.52^[1]
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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:0005737	cytoplasm				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0009451	RNA modification				P	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0000287	magnesium ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0460	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003676	nucleic acid binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002052	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01862	C	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:0005737	cytoplasm	PMID:9873033	IC: Inferred by Curator	GO:0008990	C	Seeded from EcoCyc (v14.0)	complete
	GO:0008990	rRNA (guanine-N2-)-methyltransferase activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01862	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008990	rRNA (guanine-N2-)-methyltransferase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013675	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008990	rRNA (guanine-N2-)-methyltransferase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:2.1.1.52	F	Seeded from EcoCyc (v14.0)	complete
	GO:0031167	rRNA methylation	PMID:9873033	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc (v14.0)	complete
	GO:0070475	rRNA base methylation	PMID:17576679	IMP: Inferred from Mutant Phenotype		P	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	rpsC	PMID:16606699	Experiment(s):EBI-1147905
Protein	nadE	PMID:16606699	Experiment(s):EBI-1147905
Protein	ycgE	PMID:16606699	Experiment(s):EBI-1147905
Protein	rplD	PMID:16606699	Experiment(s):EBI-1147905
Protein	rpsD	PMID:16606699	Experiment(s):EBI-1147905
Protein	yciH	PMID:16606699	Experiment(s):EBI-1147905
Protein	rplB	PMID:16606699	Experiment(s):EBI-1147905
Protein	rpsI	PMID:16606699	Experiment(s):EBI-1147905
Protein	udk	PMID:16606699	Experiment(s):EBI-1147905
Protein	rpsG	PMID:16606699	Experiment(s):EBI-1147905
Protein	hyaB	PMID:16606699	Experiment(s):EBI-1147905
Protein	rpsM	PMID:16606699	Experiment(s):EBI-1147905
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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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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 MSAFTPASEV LLRHSDDFEQ SRILFAGDLQ DDLPARLDTA ASRAHTQQFH HWQVLSRQMG DNARFSLVAT ADDVADCDTL IYYWPKNKPE AQFQLMNLLS LLPVGTDIFV VGENRSGVRS AEQMLADYAP LNKVDSARRC GLYFGRLEKQ PVFDAEKFWG EYSVDGLTVK TLPGVFSRDG LDVGSQLLLS TLTPHTKGKV LDVGCGAGVL SVAFARHSPK IRLTLCDVSA PAVEASRATL AANGVEGEVF ASNVFSEVKG RFDMIISNPP FHDGMQTSLD AAQTLIRGAV RHLNSGGELR IVANAFLPYP DVLDETFGFH EVIAQTGRFK VYRAIMTRQA KKG
Length	343
Mol. Wt	37.624 kDa
pI	6.4 (calculated)
Extinction coefficient	26,930 - 27,430 (calc based on 7 Y, 3 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
Initiator Methionine	1	Removed	UniProt:P39406
Domain	166..333	PF05175 Methyltransferase small domain		PMID:19920124
Domain	8..162	PF08468 Methyltransferase small domain N-terminal		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=rsmC taxon=562,83333 </beststructure>

Models

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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:16132189	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948892	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0014336	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P39406	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G7950	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12596	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948892	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004443	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2481	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 MC4100	5.18E+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	2214	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	401	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	901	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)
rsmC
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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_000913:4605703..4605743 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:b4371 (EcoliWiki Page)	NCBI GEO profiles for rsmC
microarray	GenExpDB:b4371 (EcoliWiki Page)	Summary of data for rsmC 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 rsmC Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:G7950	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2481	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b4371
EcoGene	EcoGene:EG12596	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004443	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0014336	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	YJJT	From SHIGELLACYC
E. coli O157	YJJT	From ECOO157CYC
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Do-It-Yourself Web Tools

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)	PF05175 Methyltransferase small domain
Panther (EcoliWiki Page)	PTHR18895:SF6
Superfamily (EcoliWiki Page)	SUPERFAMILY:53335
Pfam (EcoliWiki Page)	PF08468 Methyltransferase small domain N-terminal
EcoCyc	EcoCyc:G7950	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12596	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004443	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2481	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0014336	Escherichia coli str. K-12 substr. MG1655
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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 ^1.12 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 ^5.2 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).

rsmC: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 rsmC Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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