yecC:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

yecC

Gene Synonym(s)

ECK1916, b1917, JW1902[1], JW1902

Product Desc.

putative ATP-binding component of a transport system[2]; predicted transporter subunit: ATP-binding component of ABC superfamily[3]

Putative ABC transport ATP-binding protein, function unknown; part of putative YecCS amino acid ABC transporter[4]

Product Synonyms(s)

predicted transporter subunit: ATP-binding component of ABC superfamily[1], B1917[2][1], YecC[2][1] , ECK1916, JW1902, b1917

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): yecC[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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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

yecC

Mnemonic

Systematic nomenclature

Synonyms

ECK1916, b1917, JW1902[1], JW1902

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Notes

yecC was renamed tcyN after it was shown to function in cystine transport ([5]).

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

43 minutes, 43 minutes 

MG1655: 1995838..1995086
<gbrowseImage> name=NC_000913:1995086..1995838 source=MG1655 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1887569..1888321
<gbrowseImage> name=NC_012759:1887569..1888321 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1999951..1999199
<gbrowseImage> name=NC_007779:1999199..1999951 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2086846..2086094
<gbrowseImage> name=NC_010473:2086094..2086846 source=DH10B preset=GeneLocation </gbrowseImage>

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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

ΔyecC (Keio:JW1902)

deletion

deletion

PMID:16738554

Shigen


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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

JW1902

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAGTGCCATTGAAGTTAAGAA

Primer 2:CCTTGCAGCAGAAACTTCTCGAG

16B12

Kohara Phage

Genobase

PMID:3038334

uvrC279::Tn10

Linked marker

CAG12156 = CGSC7394[6]

est. P1 cotransduction: 86% [7]

zed-3069::Tn10

Linked marker

CAG18451 = CGSC7395[6]

est. P1 cotransduction: 17% [7]

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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:EG12347

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12347

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002221

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946422

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2251

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006384

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

YecC

Synonyms

predicted transporter subunit: ATP-binding component of ABC superfamily[1], B1917[2][1], YecC[2][1] , ECK1916, JW1902, b1917

Product description

putative ATP-binding component of a transport system[2]; predicted transporter subunit: ATP-binding component of ABC superfamily[3]

Putative ABC transport ATP-binding protein, function unknown; part of putative YecCS amino acid ABC transporter[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:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003593

F

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003439

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017871

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0067

F

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0006810

transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc (v14.0)

complete

GO:0006865

amino acid transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0029

P

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0016887

ATPase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003439

F

Seeded from EcoCyc (v14.0)

complete

GO:0016887

ATPase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017871

F

Seeded from EcoCyc (v14.0)

complete

GO:0017111

nucleoside-triphosphatase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003593

F

Seeded from EcoCyc (v14.0)

complete

GO:0019898

extrinsic to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9903

C

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

groL

PMID:16606699

Experiment(s):EBI-1141336

Protein

fur

PMID:16606699

Experiment(s):EBI-1141336

Protein

rpsE

PMID:16606699

Experiment(s):EBI-1141336
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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 

MSAIEVKNLV KKFHGQTVLH GIDLEVKPGE VVAIIGPSGS GKTTLLRSIN LLEQPEAGTI
TVGDITIDTA RSLSQQKSLI RQLRQHVGFV FQNFNLFPHR TVLENIIEGP VIVKGEPKEE
ATARARELLA KVGLAGKETS YPRRLSGGQQ QRVAIARALA MRPEVILFDE PTSALDPELV
GEVLNTIRQL AQEKRTMVIV THEMSFARDV ADRAIFMDQG RIVEQGAAKA LFADPEQPRT
RQFLEKFLLQ
Length

250

Mol. Wt

27.676 kDa

pI

9.4 (calculated)

Extinction coefficient

1,490 (calc based on 1 Y, 0 W, and 0 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

43..173

PF00005 ABC transporter

PMID:19920124

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

Structures

<beststructure> gene=yecC 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:16129864

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946422

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006384

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P37774

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12347

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12347

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946422

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002221

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2251

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

9.903+/-0.07

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.029920213

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

379

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

440

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

1294

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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Transcription and Transcriptional Regulation

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<protect>

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

Transcription unit(s)

yecC

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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_000913:1995818..1995858 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:b1917 (EcoliWiki Page)

NCBI GEO profiles for yecC

microarray

GenExpDB:b1917 (EcoliWiki Page)

Summary of data for yecC 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 yecC Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG12347

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2251

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1917

EcoGene

EcoGene:EG12347

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002221

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006384

Escherichia coli str. K-12 substr. MG1655

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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

  • ENSANGP00000014627 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT1G67940 (score: 1.000; bootstrap: 89%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0031362 (score: 1.000; bootstrap: 69%)
  • FBgn0032167 (score: 0.229)
  • FBgn0025683 (score: 0.225)
  • FBgn0020762 (score: 0.211)
  • FBgn0031516 (score: 0.208)
  • FBgn0031220 (score: 0.184)
  • FBgn0052091 (score: 0.175)
  • FBgn0031449 (score: 0.159)
  • FBgn0031515 (score: 0.153)
  • FBgn0003996 (score: 0.077)
  • FBgn0003515 (score: 0.074)
  • FBgn0020445 (score: 0.059)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA14594-PA (score: 1.000; bootstrap: 57%)
  • GA16356-PA (score: 0.236)
  • GA15545-PA (score: 0.235)
  • GA19180-PA (score: 0.225)
  • GA18458-PA (score: 0.185)
  • GA16671-PA (score: 0.176)
  • GA16397-PA (score: 0.154)
  • GA15454-PA (score: 0.057)

From Inparanoid:20070104

Oryza gramene

  • Q5Z8H2 (score: 1.000; bootstrap: 87%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000130824 (score: 1.000; bootstrap: 57%)
  • NEWSINFRUP00000130826 (score: 0.180)
  • NEWSINFRUP00000167567 (score: 0.137)
  • NEWSINFRUP00000182359 (score: 0.125)
  • NEWSINFRUP00000177047 (score: 0.125)
  • NEWSINFRUP00000168237 (score: 0.097)
  • NEWSINFRUP00000171182 (score: 0.092)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00026852001 (score: 1.000; bootstrap: 72%)
  • GSTENP00022104001 (score: 0.704)
  • GSTENP00021153001 (score: 0.454)

From Inparanoid:20070104

Shigella flexneri

YECC

From SHIGELLACYC

E. coli O157

YECC

From ECOO157CYC

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Do-It-Yourself Web Tools

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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)

PF00005 ABC transporter

Superfamily (EcoliWiki Page)

SUPERFAMILY:52540

EcoCyc

EcoCyc:EG12347

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12347

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002221

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2251

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006384

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 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. ↑ Chonoles Imlay, KR et al. (2015) Physiological Roles and Adverse Effects of the Two Cystine Importers of Escherichia coli. J. Bacteriol. 197 3629-44 PubMed
  6. ↑ 6.0 6.1 CGSC: The Coli Genetics Stock Center
  7. ↑ 7.0 7.1 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).

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