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Expression|

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Standard Name	queC
Gene Synonym(s)	ybaX, ECK0438, b0444, JW0434^[1]^[2], JW0434
Product Desc.	enzyme in preQ₀ biosynthesis ^[2]^[3] Required for 7-cyano-7-deazaguanine (preQ0) synthesis; queuosine biosynthesis, step 1^[4]
Product Synonyms(s)	predicted aluminum resistance protein^[1], B0444^[2]^[1], YbaX^[2]^[1], QueC^[2]^[1] , ECK0438, JW0434, ybaX, b0444
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): ybaX^[2]
Regulation/Activity
Quick Links
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</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

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Asn, Asp, Tyr, and His tRNA anticodons are modified. A. viscosus ortholog ALU1 confers aluminum tolerance when cloned in E. coli (Jo, 1997). COG0603 predicts ATPase activity. AFMB Structural Genomics target No. 25 (http://afmb.cnrs-mrs.fr/article171.html). tgt mutants lack queuosine and are have reduced survival in stationary phase. (Noguchi, 1982).^[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	queC
Mnemonic	Queousine
Synonyms	ybaX, ECK0438, b0444, JW0434^[1]^[2], JW0434
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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	10 minutes	MG1655: 464771..464076 <gbrowseImage> name=NC_000913:464076..464771 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 436919..437614 <gbrowseImage> name=NC_012967:436919..437614 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 366835..367530 <gbrowseImage> name=NC_012759:366835..367530 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 464771..464076 <gbrowseImage> name=NC_007779:464076..464771 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 404102..403407 <gbrowseImage> name=NC_010473:403407..404102 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
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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
ΔqueC730::kan					PMID:16738554	CGSC:106296
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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:
3B6	Kohara Phage	Genobase	PMID:3038334
7E2	Kohara Phage	Genobase	PMID:3038334
19B7	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:G6245	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13252	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002856	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947034	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3041	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001539	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	YbaX
Synonyms	predicted aluminum resistance protein^[1], B0444^[2]^[1], YbaX^[2]^[1], QueC^[2]^[1] , ECK0438, JW0434, ybaX, b0444
Product description	enzyme in preQ₀ biosynthesis ^[2]^[3] Required for 7-cyano-7-deazaguanine (preQ0) synthesis; queuosine biosynthesis, step 1^[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:0004055	argininosuccinate synthase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001518	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001518	F	Seeded from EcoCyc (v14.0)	complete
	GO:0006526	arginine biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001518	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008616	queuosine biosynthetic process	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01633	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008616	queuosine biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004479	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008616	queuosine biosynthetic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0671	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016810	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004479	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	tufA	PMID:15690043	Experiment(s):EBI-885625, EBI-892291
Protein	aidB	PMID:15690043	Experiment(s):EBI-892291
Protein	dnaK	PMID:15690043	Experiment(s):EBI-892291
Protein	napD	PMID:15690043	Experiment(s):EBI-892291
Protein	rplL	PMID:15690043	Experiment(s):EBI-892291
Protein	rpsJ	PMID:15690043	Experiment(s):EBI-892291
Protein	yegT	PMID:15690043	Experiment(s):EBI-892291
Protein	grcA	PMID:15690043	Experiment(s):EBI-892291
Protein	iscS	PMID:16606699	Experiment(s):EBI-1136708
Protein	narZ	PMID:16606699	Experiment(s):EBI-1136708
Protein	lacZ	PMID:16606699	Experiment(s):EBI-1136708
Protein	spoT	PMID:16606699	Experiment(s):EBI-1136708
Protein	glpD	PMID:16606699	Experiment(s):EBI-1136708
Protein	mukB	PMID:16606699	Experiment(s):EBI-1136708
Protein	dnaK	PMID:16606699	Experiment(s):EBI-1136708
Protein	rpsJ	PMID:19402753	LCMS(ID Probability):99.6
Protein	aidB	PMID:19402753	LCMS(ID Probability):99.6
Protein	napD	PMID:19402753	LCMS(ID Probability):99.6
Protein	tufB	PMID:19402753	MALDI(Z-score):20.501587
Protein	yegT	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
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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 MKRAVVVFSG GQDSTTCLVQ ALQQYDEVHC VTFDYGQRHR AEIDVARELA LKLGARAHKV LDVTLLNELA VSSLTRDSIP VPDYEPEADG IPNTFVPGRN ILFLTLAAIY AYQVKAEAVI TGVCETDFSG YPDCRDEFVK ALNHAVSLGM AKDIRFETPL MWIDKAETWA LADYYGKLDL VRNETLTCYN GFKGDGCGHC AACNLRANGL NHYLADKPTV MAAMKQKTGL R
Length	231
Mol. Wt	25.513 kDa
pI	6.0 (calculated)
Extinction coefficient	25,900 - 26,900 (calc based on 10 Y, 2 W, and 8 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
Domain	3..140	PF06508 ExsB		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=queC 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:16128429	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947034	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001539	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P77756	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G6245	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13252	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947034	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002856	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3041	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	Notes	Reference(s)
Protein	Ecoli K-12	15.784+/-0.162	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.055395683	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by RNA_Seq	PMID:20671182
Protein	E. coli K-12 MG1655	1975	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	443	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	1005	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)
ybaX
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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

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<protect><gbrowseImage> name=NC_000913:464751..464791 source=MG1655 flip=1 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

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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:b0444 (EcoliWiki Page)	NCBI GEO profiles for queC
microarray	GenExpDB:b0444 (EcoliWiki Page)	Summary of data for queC 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 queC Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:G6245	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3041	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0444
EcoGene	EcoGene:EG13252	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002856	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001539	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
Xenopus tropicalis	ENSXETP00000043613 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	YBAX	From SHIGELLACYC
E. coli O157	YBAX	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:52402
Pfam (EcoliWiki Page)	PF06508 ExsB
EcoCyc	EcoCyc:G6245	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13252	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002856	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3041	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001539	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.

↑ ^1.0 ^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)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 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 ^4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.

queC: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 queC Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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