ysdC:On One Page

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Standard Name	ysdC
Gene Synonym(s)	ECK3672, b4556, JW5937
Product Desc.
Product Synonyms(s)
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression
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	ysdC
Mnemonic
Synonyms	ECK3672, b4556, JW5937
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Location(s) and DNA Sequence

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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	83.18 minutes, 83.18 minutes	MG1655: 3859372..3859196 <gbrowseImage> name=NC_000913:3859196..3859372 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
W3110		W3110: 3779066..3779242 <gbrowseImage> name=NC_007779:3779066..3779242 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
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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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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
ΔysdC (Keio:JW5937)	deletion	deletion			PMID:16738554	Shigen
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Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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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:
8E8	Kohara Phage	Genobase	PMID:3038334
zic-4901::Tn10	Linked marker	CAG18492 = CGSC7457	est. P1 cotransduction: 29%
zid-501::Tn10	Linked marker	CAG18499 = CGSC7458	est. P1 cotransduction: 59%
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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
EcoCyc	EcoCyc:	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120026455	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:	Escherichia coli str. K-12 substr. MG1655
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Links

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Name	URL	Comments
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Product(s)

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Nomenclature

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Standard name
Synonyms
Product description
EC number (for enzymes)
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Function

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Gene Ontology <protect> 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
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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
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Localization

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Compartment	Description	Evidence	Reference/Source	Notes
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Structure and Physical Properties

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Physical Properties <protect> See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence
Length
Mol. Wt
pI
Extinction coefficient
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See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

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 5..185 PF02056 Family 4 glycosyl hydrolase PMID:19920124 edit table See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

<motif_map/>

Structure See Help:Product_structure for help entering or editing information in this section of EcoliWiki. Structures <beststructure> gene=ysdC taxon=562,83333 </beststructure> Models View models at: PSI-PRED Genomes TO Protein (GTOP) edit table See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

</protect> Structure figures 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 See Help:Product_resources for help with entering or editing information in this section of EcoliWiki. 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: Escherichia coli str. K-12 substr. MG1655 EcoGene EcoGene: Escherichia coli str. K-12 substr. MG1655 RegulonDB RegulonDB:ECK120026455 Escherichia coli str. K-12 substr. MG1655 EchoBASE EchoBASE: Escherichia coli str. K-12 substr. MG1655 ASAP ASAP: Escherichia coli str. K-12 substr. MG1655 edit table See Help:Product_accessions for help entering or editing information in this section of EcoliWiki. Notes Links [back to top] Name URL Comments edit table See Help:Links_table for how to enter or edit information in this section of EcoliWiki. 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 Notes Reference(s) 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) ysdC edit table Figure courtesy of RegulonDB 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] <gbrowseImage> name=NC_000913:3859352..3859392 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus. 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] 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 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 <protect> Notes Accessions Related to ysdC Expression [back to top] See Help:Gene_accessions for help with entering information into the Gene Accessions table. Database Accession Notes EcoGene EcoGene: Escherichia coli str. K-12 substr. MG1655 RegulonDB RegulonDB:ECK120026455 Escherichia coli str. K-12 substr. MG1655 EchoBASE EchoBASE: Escherichia coli str. K-12 substr. MG1655 ASAP ASAP: 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] {{{EVOLUTION_HOMOLOGS_TABLE}}} See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki. Do-It-Yourself Web Tools BLAST CDD InParanoid YOGY Notes {{{HOMOLOGY_NOTES}}} Families [back to top] {{{EVOLUTION_FAMILIES_TABLE}}} See Help:Evolution_families for help entering or editing information in this section of EcoliWiki. Notes {{{FAMILIES_NOTES}}} Links [back to top] {{{LINKS}}} See Help:Links_table for how to enter or edit information in this section of EcoliWiki. References [back to top] See Help:References for how to manage references in EcoliWiki. Categories [back to top] {{{CATEGORIES}}}