znuC:On One Page

From EcoliWiki
Jump to: navigation, search

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

Quickview

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

<protect>

Standard Name

znuC

Gene Synonym(s)

ECK1859, b1858, JW1847, yebM[1], yebM

Product Desc.

ZnuC[2][3];

Component of ZnuA/ZnuB/ZnuC ABC transporter[2][3]

High-affinity ABC transport system for zinc[4]

Product Synonyms(s)

zinc transporter subunit: ATP-binding component of ABC superfamily[1], B1858[2][1], YebM[2][1], ZnuC[2][1] , ECK1859, JW1847, yebM, b1858

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): znuCB[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

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

edit table

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

[back to top]





Gene

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css> <protect>

Nomenclature

[back to top]


See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

znuC

Mnemonic

Zn uptake

Synonyms

ECK1859, b1858, JW1847, yebM[1], yebM

edit table

</protect>

Notes

Location(s) and DNA Sequence

[back to top]


<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

41.83 minutes 

MG1655: 1940686..1941441
<gbrowseImage> name=NC_000913:1940686..1941441 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1921238..1921993
<gbrowseImage> name=NC_012967:1921238..1921993 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1832745..1833500
<gbrowseImage> name=NC_012759:1832745..1833500 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1944376..1945131
<gbrowseImage> name=NC_007779:1944376..1945131 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2031257..2032012
<gbrowseImage> name=NC_010473:2031257..2032012 source=DH10B preset=GeneLocation </gbrowseImage>

edit table

</protect>

Notes

Sequence Features

[back to top]


See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes
edit table

<protect></protect>

Notes

Alleles and Phenotypes

[back to top]


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

znuC(del) (Keio:JW1847)

deletion

deletion

PMID:16738554

Shigen
CGSC9541[5]

znuC783(del)::kan

PMID:16738554

CGSC:106110

znuC783(del)::FRT

Mutagenesis rate

Decreased stress-induced mutagenesis (SIM) phenotype.

PMID:23224554

Parental Strain: SMR4562

Experimental Strain: SMR12211

Mutation Rate was comparatively weak, to other strains, with decrease only happening in 33-67% of wild type population.

CAG45114 znuC783(del)::FRTKanFRT

deletion

SigmaE activity

Decrease in sigmae activity

PMID:23224554

Parental Strain: CAG45114 Experimental Strain: SMR15291

See table S11 for full experimental data.

edit table

<protect></protect>

Notes

Genetic Interactions

[back to top]


<protect>

Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
edit table

</protect>

Notes

Genetic Resources

[back to top]


See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW1847

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCACAAGTCTGGTTTCCCTGGA

Primer 2:CCTGAGCGATCATTTCCCCGACG

20H4

Kohara Phage

Genobase

PMID:3038334

eda-51::Tn10

Linked marker

CAG18486 = CGSC7392[5]

est. P1 cotransduction: 70% [6]

uvrC279::Tn10

Linked marker

CAG12156 = CGSC7394[5]

est. P1 cotransduction: 10% [6]

edit table

<protect></protect>

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:G7018

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13132

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003605

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946374

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2931

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006198

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



Product(s)

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Nomenclature

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

Standard name

ZnuC

Synonyms

zinc transporter subunit: ATP-binding component of ABC superfamily[1], B1858[2][1], YebM[2][1], ZnuC[2][1] , ECK1859, JW1847, yebM, b1858

Product description

ZnuC[2][3];

Component of ZnuA/ZnuB/ZnuC ABC transporter[2][3]

High-affinity ABC transport system for zinc[4]

EC number (for enzymes)


edit table

<protect></protect>

Notes

Function

[back to top]


<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: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:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017882

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-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:0006811

ion transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0406

P

Seeded from EcoCyc (v14.0)

complete

GO:0006829

zinc ion transport

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01725

P

Seeded from EcoCyc (v14.0)

complete

GO:0006829

zinc ion transport

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017882

P

Seeded from EcoCyc (v14.0)

complete

GO:0006829

zinc ion transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0864

P

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0862

F

Seeded from EcoCyc (v14.0)

complete

GO:0015633

zinc transporting ATPase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01725

F

Seeded from EcoCyc (v14.0)

complete

GO:0015633

zinc transporting ATPase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017882

F

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:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

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: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

edit table

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 ZnuA/ZnuB/ZnuC ABC transporter

could be indirect

Protein

aceE

PMID:15690043

Experiment(s):EBI-884929

Protein

aceF

PMID:15690043

Experiment(s):EBI-884929

Protein

ynbC

PMID:15690043

Experiment(s):EBI-884929

Protein

lpdA

PMID:15690043

Experiment(s):EBI-884929

Protein

groL

PMID:15690043

Experiment(s):EBI-884929

Protein

rplD

PMID:15690043

Experiment(s):EBI-884929

Protein

rpsE

PMID:15690043

Experiment(s):EBI-884929

Protein

rplL

PMID:15690043

Experiment(s):EBI-891787

Protein

rplV

PMID:15690043

Experiment(s):EBI-891787

Protein

rpmG

PMID:15690043

Experiment(s):EBI-891787

Protein

rplB

PMID:16606699

Experiment(s):EBI-1141067

Protein

groL

PMID:16606699

Experiment(s):EBI-1141067

Protein

lolA

PMID:16606699

Experiment(s):EBI-1141067

Protein

rplD

PMID:16606699

Experiment(s):EBI-1141067

Protein

rpmG

PMID:19402753

LCMS(ID Probability):99.6

Protein

groL

PMID:19402753

MALDI(Z-score):17.053160

Protein

groS

PMID:19402753

MALDI(Z-score):22.611269

Protein

rplD

PMID:19402753

MALDI(Z-score):24.780764

Protein

rplL

PMID:19402753

LCMS(ID Probability):99.6

edit table

</protect>

Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes
edit table

<protect></protect>

Notes

Structure and Physical Properties

[back to top]


<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 

MTSLVSLENV SVSFGQRRVL SDVSLELKPG KILTLLGPNG AGKSTLVRVV LGLVTPDEGV
IKRNGKLRIG YVPQKLYLDT TLPLTVNRFL RLRPGTHKED ILPALKRVQA GHLINAPMQK
LSGGETQRVL LARALLNRPQ LLVLDEPTQG VDVNGQVALY DLIDQLRREL DCGVLMVSHD
LHLVMAKTDE VLCLNHHICC SGTPEVVSLH PEFISMFGPR GAEQLGIYRH HHNHRHDLQG
RIVLRRGNDR S
Length

251

Mol. Wt

27.867 kDa

pI

9.7 (calculated)

Extinction coefficient

5,960 - 6,460 (calc based on 4 Y, 0 W, and 4 C residues)

edit table


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

44..149

PF00005 ABC transporter

PMID:19920124

edit table

<motif_map/>

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

Structures

<beststructure> gene=znuC taxon=562,83333 </beststructure>

Models

View models at:

edit table
</protect>

Structure figures

<protect>

</protect>

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

<protect></protect>

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

NCBI (Protein) (EcoliWiki Page)

GI:16129811

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946374

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006198

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A9X1

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7018

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13132

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946374

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003605

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2931

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]




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)

Protein

Ecoli K-12

8.029+/-0.066

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

Protein

E. coli K-12 MG1655

332

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

468

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

1322

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

edit table

Notes

Transcription and Transcriptional Regulation

[back to top]


<protect>

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

Transcription unit(s)

znuCB

edit table
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

[back to top]


<protect><gbrowseImage> name=NC_000913:1940666..1940706 source=MG1655 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

</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]


<protect> 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

microarray

GEO Profiles:b1858 (EcoliWiki Page)

NCBI GEO profiles for znuC

microarray

GenExpDB:b1858 (EcoliWiki Page)

Summary of data for znuC from multiple microarray studies

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

GFP Fusion

Intergenic region (1940574..1940736) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ14; Well:B9[7]

edit table

<protect></protect>

Notes

Accessions Related to znuC Expression

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:G7018

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2931

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1858

EcoGene

EcoGene:EG13132

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003605

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006198

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



Evolution

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Homologs in Other Organisms

[back to top]


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

Organism Homologs (Statistics) Comments

Shigella flexneri

YEBM

From SHIGELLACYC

E. coli O157

YEBM

From ECOO157CYC

edit table


Do-It-Yourself Web Tools

<protect></protect>

Notes

Families

[back to top]


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

Panther (EcoliWiki Page)

PTHR24220:SF228

EcoCyc

EcoCyc:G7018

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13132

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003605

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2931

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006198

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



References

[back to top]


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 1.8 1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 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. ↑ 3.0 3.1 3.2 3.3 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. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 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).
  7. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=znuC:On_One_Page&oldid=220258"