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On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	rng
Gene Synonym(s)	ECK3235, b3247, JW3216, cafA, yhdF, adhR^[1], adhR
Product Desc.	ribonuclease G (RNAse G)^[2]^[3]; Component of ribonuclease G (RNAse G)^[3] Endoribonuclease G involved in 16S rRNA processing; division and growth, overexpression forms minicells and chains with long axial structures^[4]
Product Synonyms(s)	ribonuclease G^[1], B3247^[2]^[1], AdhR^[2]^[1], Rng^[2]^[1], YhdF^[2]^[1], CafA^[2]^[1] , adhR, cafA, ECK3235, JW3216, yhdF, b3247
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): mreBCD-yhdE-rng^[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	rng
Mnemonic	Ribonuclease G
Synonyms	ECK3235, b3247, JW3216, cafA, yhdF, adhR^[1], adhR
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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	73.16 minutes	MG1655: 3395817..3394348 <gbrowseImage> name=NC_000913:3394348..3395817 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3325686..3324217 <gbrowseImage> name=NC_012967:3324217..3325686 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3281496..3282965 <gbrowseImage> name=NC_012759:3281496..3282965 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3397650..3396181 <gbrowseImage> name=NC_007779:3396181..3397650 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3493562..3492093 <gbrowseImage> name=NC_010473:3492093..3493562 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	3394351	Edman degradation	PMID:8300545
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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
Δrng (Keio:JW3216)	deletion	deletion			PMID:16738554	Shigen CGSC10436^[5]
cafA::Tn5KAN-I-SceI (FB21085)	Insertion at nt 899 in Minus orientation				PMID:15262929	E. coli Genome Project:FB21085	does not contain pKD46
cafA::Tn5KAN-I-SceI (FB21086)	Insertion at nt 899 in Minus orientation				PMID:15262929	E. coli Genome Project:FB21086	contains pKD46
rng-1					PMID:10362534	CGSC:14592
Δrng-771::kan					PMID:16738554	CGSC:102748
rng^{overexpression}			Growth Phenotype	Induction of Plac-rng causes formation of cell chains and minicells.	PMID:8300545 PMID:9037114
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Notes

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
rng::cat	Aggrevates	rne50		PMID:9037114		rne50 is TS for growth at 42°C. The rne50 rng::cat double mutant cannot grow at 39°C.
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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
JW3216	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCACGGCTGAATTGTTAGTAAA Primer 2:CCCATCATTACGACGTCAAACTG
3G9	Kohara Phage	Genobase	PMID:3038334
21D3	Kohara Phage	Genobase	PMID:3038334
zhc-6::Tn10	Linked marker	CAG12153 = CGSC7442^[5]	est. P1 cotransduction: 30% ^[6] Synonyms:zha-6::Tn10
acrF3083::Tn10	Linked marker	CAG12075 = CGSC7447^[5]	est. P1 cotransduction: 47% ^[6] Synonyms:zhd-3083::Tn10, zhe-3083::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:EG11299	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11299	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001272	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947744	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1276	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010651	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	Rng
Synonyms	ribonuclease G^[1], B3247^[2]^[1], AdhR^[2]^[1], Rng^[2]^[1], YhdF^[2]^[1], CafA^[2]^[1] , adhR, cafA, ECK3235, JW3216, yhdF, b3247
Product description	ribonuclease G (RNAse G)^[2]^[3]; Component of ribonuclease G (RNAse G)^[3] Endoribonuclease G involved in 16S rRNA processing; division and growth, overexpression forms minicells and chains with long axial structures^[4]
EC number (for enzymes)	3.1.4^[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:0003723	RNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003029	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004519	endonuclease activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0255	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004659	C	Seeded from EcoCyc (v14.0)	complete
	GO:0008996	ribonuclease G activity	PMID:10722715	IDA: Inferred from Direct Assay		F		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:0006364	rRNA processing	PMID:10362534	IMP: Inferred from Mutant Phenotype		P		complete
	GO:0005856	cytoskeleton	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0206	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005856	cytoskeleton	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0090	C	Seeded from EcoCyc (v14.0)	complete
	GO:0007049	cell cycle	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0131	P	Seeded from EcoCyc (v14.0)	complete
	GO:0051301	cell division	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0132	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	Notes	References	Evidence
Protein	Subunits of ribonuclease G (RNAse G)	could be indirect
Protein	rpsD		PMID:15690043	Experiment(s):EBI-890107
Protein	rplB		PMID:16606699	Experiment(s):EBI-1145286
Protein	rpsI		PMID:16606699	Experiment(s):EBI-1145286
Protein	rpsC		PMID:16606699	Experiment(s):EBI-1145286
Protein	rpsB		PMID:16606699	Experiment(s):EBI-1145286
Protein	rplQ		PMID:16606699	Experiment(s):EBI-1145286
Protein	racC		PMID:16606699	Experiment(s):EBI-1145286
Protein	dnaK		PMID:15690043	Experiment(s):EBI-895082
Protein	eno		PMID:15690043	Experiment(s):EBI-895082
Protein	rpe		PMID:15690043	Experiment(s):EBI-895082
Protein	rpsE		PMID:15690043	Experiment(s):EBI-895082
Protein	rpsI		PMID:15690043	Experiment(s):EBI-895082
Protein	rpsM		PMID:15690043	Experiment(s):EBI-895082
Protein	rpsO		PMID:15690043	Experiment(s):EBI-895082
Protein	rpsS		PMID:15690043	Experiment(s):EBI-895082
Protein	rpsT		PMID:15690043	Experiment(s):EBI-895082
Protein	rpsU		PMID:15690043	Experiment(s):EBI-895082
Protein	rpsT		PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsU		PMID:19402753	LCMS(ID Probability):99.6
Protein	rpe		PMID:19402753	LCMS(ID Probability):99.2
Protein	rpsS		PMID:19402753	LCMS(ID Probability):99.6
Protein	eno		PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsM		PMID:19402753	LCMS(ID Probability):99.6
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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
cytoplasm			From EcoCyc^[3]
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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 MRKGINMTAE LLVNVTPSET RVAYIDGGIL QEIHIEREAR RGIVGNIYKG RVSRVLPGMQ AAFVDIGLDK AAFLHASDIM PHTECVAGEE QKQFTVRDIS ELVRQGQDLM VQVVKDPLGT KGARLTTDIT LPSRYLVFMP GASHVGVSQR IESESERERL KKVVAEYCDE QGGFIIRTAA EGVGEAELAS DAAYLKRVWT KVMERKKRPQ TRYQLYGELA LAQRVLRDFA DAELDRIRVD SRLTYEALLE FTSEYIPEMT SKLEHYTGRQ PIFDLFDVEN EIQRALERKV ELKSGGYLII DQTEAMTTVD INTGAFVGHR NLDDTIFNTN IEATQAIARQ LRLRNLGGII IIDFIDMNNE DHRRRVLHSL EQALSKDRVK TSVNGFSALG LVEMTRKRTR ESIEHVLCNE CPTCHGRGTV KTVETVCYEI MREIVRVHHA YDSDRFLVYA SPAVAEALKG EESHSLAEVE IFVGKQVKVQ IEPLYNQEQF DVVMM
Length	495
Mol. Wt	56.063 kDa
pI	6.0 (calculated)
Extinction coefficient	27,850 - 28,600 (calc based on 15 Y, 1 W, and 6 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:P0A9J0
Domain	35..122	PF00575 S1 RNA binding domain		PMID:19920124
Domain	124..394	PF10150 Ribonuclease E/G family		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=rng 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:90111563	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947744	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010651	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A9J0	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11299	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11299	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947744	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001272	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1276	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	440	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	370	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	405	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)
mreBCD-yhdE-rng
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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_000913:3395797..3395837 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:b3247 (EcoliWiki Page)	NCBI GEO profiles for rng
microarray	GenExpDB:b3247 (EcoliWiki Page)	Summary of data for rng 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 rng Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11299	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1276	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3247
EcoGene	EcoGene:EG11299	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001272	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010651	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
Anopheles gambiae	ENSANGP00000026539 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Arabidopsis thaliana	AT2G04270 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000020550 (score: 1.000; bootstrap: 100%) ENSCAFP00000018040 (score: 0.051)	From Inparanoid:20070104
Danio rerio	ZDB-CDNA-050522-68 (score: 1.000; bootstrap: 100%) ZDB-GENE-030131-5005 (score: 0.919) ZDB-CDNA-040930-2 (score: 0.140) ZDB-GENE-040930-2 (score: 0.140) ZDB-CDNA-041114-95 (score: 0.119) ZDB-GENE-041114-95 (score: 0.119)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0031264 (score: 1.000; bootstrap: 59%) FBgn0000181 (score: 0.095)	From Inparanoid:20070104
Drosophila pseudoobscura	GA15126-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Homo sapiens	ENSP00000286104 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q6Z0E3 (score: 1.000; bootstrap: 100%) Q69PQ8 (score: 0.784)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000027261 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	CAFA	From SHIGELLACYC
E. coli O157	CAFA	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
Superfamily (EcoliWiki Page)	SUPERFAMILY:50249
Pfam (EcoliWiki Page)	PF00575 S1 RNA binding domain
Pfam (EcoliWiki Page)	PF10150 Ribonuclease E/G family
EcoCyc	EcoCyc:EG11299	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11299	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001272	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1276	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010651	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 ^1.13 ^1.14 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 ^2.11 ^2.12 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 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).

rng: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 rng Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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