EcoliHub logo

Try the new EcoliHub and let us know what you'd like to see.

narH:On One Page

From EcoliWiki

Jump to: navigation, search
Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

[back to top]



See Help:Quickview for help with entering information in the Quickview table.

Standard Name

narH

Gene Synonym(s)

ECK1219, b1225, JW1216, chlC[1]

Product Desc.

nitrate reductase A, β subunit[2][3];

Component of NarGH catalytic dimer of nitrate reductase A[3]; nitrate reductase A[2][3]

Nitrate reductase I (NRA), beta subunit[4]

Product Synonyms(s)

nitrate reductase 1, beta (Fe-S) subunit[1], B1225[2][1], ChlC[2][1], NarH[2][1]

Function from GO

Molecular Function

Biological Process

Cellular Component

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): narGHJI[2], OP00060, chlC, narG, narGHIJ

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(narH)    Textpresso(narH)

edit table

See Help:Quickview for help with entering information in the Quickview table.

Notes

[back to top]


Induced by anaerobiosis plus nitrate. T_Cmplx14_Mem: NarG+NarH. HT_Cmplx31_Mem: NarH+NarZ.[4]



Gene

[back to top]


Nomenclature

[back to top]


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

Standard name

narH

Mnemonic

Nitrate reductase, nitrate regulation

Synonyms

ECK1219, b1225, JW1216, chlC[1]

edit table

Notes

Location(s) and DNA Sequence

[back to top]


See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

27.65 minutes 

MG1655: 1282827..1284365
gbrowse_img.php?coord=1282827..1284365&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 1283754..1285292
gbrowse_img.php?coord=1283754..1285292&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 1285181..1286719
gbrowse_img.php?coord=1285181..1286719&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 1323068..1324606
gbrowse_img.php?coord=1323068..1324606&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 1171548..1173086
gbrowse_img.php?coord=1171548..1173086&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

edit table

Notes

Sequence Features

[back to top]


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

Feature typeLocationDescription
edit table

Notes

Alleles and Phenotypes

[back to top]


See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

ΔnarH (Keio:JW1216)

deletion

deletion

PMID:16738554

Shigen


edit table

Notes

Genetic Resources

[back to top]


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

ResourceResource TypeSourceNotes/Reference

JW1216

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAAATTCGTTCACAAGTCGG

Primer 2:CCTGGATGCGGCTCCGTTTTGCT

fadR13::Tn10

Linked marker

CAG18497 = CGSC7365[5]

est. P1 cotransduction: 11% [6]

oppC506::Tn10

Linked marker

CAG12169 = CGSC7369[5]

est. P1 cotransduction: 46% [6]
Synonyms:zch-506::Tn10, zci-506::Tn10

edit table

Notes

Accessions in Other Databases

[back to top]


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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10639

EchoBASE (EcoliWiki Page)

EchoBASE:EB0633

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1225

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C1686

EcoGene (EcoliWiki Page)

EcoGene:EG10639

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:NARH

CGSC (EcoliWiki Page)

CGSC:18118

ASAP (EcoliWikiPage)

ASAP:ABE-0004121


edit table

Notes

Links

[back to top]



Product(s)

[back to top]



Nomenclature

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

Standard name

NarH

Synonyms

nitrate reductase 1, beta (Fe-S) subunit[1], B1225[2][1], ChlC[2][1], NarH[2][1]

Product description

nitrate reductase A, β subunit[2][3];

Component of NarGH catalytic dimer of nitrate reductase A[3]; nitrate reductase A[2][3]

Nitrate reductase I (NRA), beta subunit[4]

EC number (for enzymes)
edit table

Notes

Function

[back to top]


Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0005515

protein binding

PMID:15690043

IPI: Inferred from Physical Interaction

UniProtKB:P19319

F

Seeded from EcoCyc [7]

complete

GO:0009055

electron carrier activity

PMID:10504245

IPI: Inferred from Physical Interaction

F

Seeded from EcoCyc [7]

complete

GO:0009061

anaerobic respiration

PMID:7050087

IEP: Inferred from Expression Pattern

P

Seeded from EcoCyc [7]

complete

GO:0017004

cytochrome complex assembly

PMID:3053688

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc [7]

complete

GO:0031224

intrinsic to membrane

PMID:5996

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc [7]

complete

GO:0051538

3 iron, 4 sulfur cluster binding

PMID:8664273

IPI: Inferred from Physical Interaction

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0051539

4 iron, 4 sulfur cluster binding

PMID:14725769

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005506

iron ion binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0408

F

Seeded from EcoCyc [7]

complete

GO:0006810

transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc [7]

complete

GO:0008940

nitrate reductase activity

GO_REF:0000002
GO_REF:0000003

IEA: Inferred from Electronic Annotation

InterPro:IPR006547
EC:1.7.99.4

F

Seeded from EcoCyc [7]

complete

GO:0009325

nitrate reductase complex

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006547

C

Seeded from EcoCyc [7]

complete

GO:0042128

nitrate assimilation

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0534

P

Seeded from EcoCyc [7]

complete

GO:0051538

3 iron, 4 sulfur cluster binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0003

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0051539

4 iron, 4 sulfur cluster binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0004

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

required fields missing

GO:0005886

plasma membrane

GO_REF:0000004
GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003
SP_SL:SL-0039

C

Seeded from EcoCyc [7]

complete

GO:0016020

membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc [7]

complete

GO:0016491

oxidoreductase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

F

Seeded from EcoCyc [7]

complete

GO:0022900

electron transport chain

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0249

P

Seeded from EcoCyc [7]

complete

GO:0042126

nitrate metabolic process

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006547

P

Seeded from EcoCyc [7]

complete

GO:0046872

metal ion binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

Seeded from EcoCyc [7]

complete

GO:0051536

iron-sulfur cluster binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0411

F

Seeded from EcoCyc [7]

complete

GO:0055114

oxidation reduction

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

P

Seeded from EcoCyc [7]

complete

GO:0009054

electron acceptor activity

F

Seeded from EcoCyc 11.1[3].

required fields missing

edit table

Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner TypePartnerNotesReferencesEvidence

Protein

Subunits of NarGH catalytic dimer of nitrate reductase A

could be indirect

Protein

ugpB

PMID:16606699

Experiment(s):EBI-1139225

Protein

nadE

PMID:16606699

Experiment(s):EBI-1139225

Protein

narG

PMID:15690043

Experiment(s):EBI-880342, EBI-885754

Protein

tufA

PMID:15690043

Experiment(s):EBI-880342

Protein

fadH

PMID:15690043

Experiment(s):EBI-885754

Protein

Subunits of nitrate reductase A

could be indirect


edit table

Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes

Cytoplasm

PMID:3053688, PMID:2233673, PMID:2674654

EchoLocation:narH


edit table

Notes

Structure and Physical Properties

[back to top]


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

Sequence

at EcoCyc 

MKIRSQVGMV LNLDKCIGCH TCSVTCKNVW TSREGVEYAW FNNVETKPGQ GFPTDWENQE
KYKGGWIRKI NGKLQPRMGN RAMLLGKIFA NPHLPGIDDY YEPFDFDYQN LHTAPEGSKS
QPIARPRSLI TGERMAKIEK GPNWEDDLGG EFDKLAKDKN FDNIQKAMYS QFENTFMMYL
PRLCEHCLNP ACVATCPSGA IYKREEDGIV LIDQDKCRGW RMCITGCPYK KIYFNWKSGK
SEKCIFCYPR IEAGQPTVCS ETCVGRIRYL GVLLYDADAI ERAASTENEK DLYQRQLDVF
LDPNDPKVIE QAIKDGIPLS VIEAAQQSPV YKMAMEWKLA LPLHPEYRTL PMVWYVPPLS
PIQSAADAGE LGSNGILPDV ESLRIPVQYL ANLLTAGDTK PVLRALKRML AMRHYKRAET
VDGKVDTRAL EEVGLTEAQA QEMYRYLAIA NYEDRFVVPS SHRELAREAF PEKNGCGFTF
GDGCHGSDTK FNLFNSRRID AIDVTSKTEP HP
Length

512

Mol. Wt

58.067 kDa

pI

6.8 (calculated)

Extinction coefficient

82,280 - 84,405 (calc based on 22 Y, 9 W, and 17 C residues)

edit table


Domains/Motifs/Modification Sites

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

TypeResiduesDescriptionNotesReferences
edit table


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

Structures
Models

View models at:

edit table

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 typeSourceNotes/Reference
edit table

Notes

Accessions in Other Databases

[back to top]


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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:NARH-MONOMER

UniProt (EcoliWiki Page)

UniProt:P11349

PFAM (EcoliWiki Page)

PFAM:PF00037

RefSeq (EcoliWiki Page)

RefSeq:NP_415743


edit table

Notes

Links

[back to top]




Expression

[back to top]



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

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(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)

narGHJI

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]


gbrowse_img.php?coord=1282807..1282847&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein&width=400&figure=Nterm&.png
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

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 NameMutationPhenotypeReference
edit table


Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

TypeReferenceNotes

microarray

GEO Profiles:b1225 (EcoliWiki Page)

NCBI GEO profiles for narH

microarray

GenExpDB:b1225 (EcoliWiki Page)

Summary of data for narH from multiple microarray studies

edit table


Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource NameResource TypeDescriptionSourceNotes
edit table

Notes

Accessions Related to narH Expression

[back to top]


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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10639

EchoBASE (EcoliWiki Page)

EchoBASE:EB0633

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1225

EcoGene (EcoliWiki Page)

EcoGene:EG10639


edit table

Notes

Links

[back to top]



Evolution

[back to top]



Homologs in Other Organisms

[back to top]


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

OrganismHomologs (Statistics)Comments

Shigella flexneri

NARH

From SHIGELLACYC

E. coli O157

NARH

From ECOO157CYC

edit table


Do-It-Yourself Web Tools

Notes

Families

[back to top]


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

DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF00037


edit table

Notes

Links

[back to top]



References

[back to top]


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

  1. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 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 3.4 3.5 3.6 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 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.
  5. ↑ 5.0 5.1 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. ↑ 7.00 7.01 7.02 7.03 7.04 7.05 7.06 7.07 7.08 7.09 7.10 7.11 7.12 7.13 7.14 7.15 7.16 7.17 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ 8.0 8.1 8.2 8.3 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7

Categories

[back to top]


Retrieved from "http://ecoliwiki.net/colipedia/index.php/narH:On_One_Page"
Personal tools