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Standard Name

nuoB

Gene Synonym(s)

ECK2281, b2287, JW5875[1]

Product Desc.

NuoB[2][3];

Component of connecting fragment of NADH dehydrogenase I[3]; NADH dehydrogenase I[2][3]

NADH:ubiquinone oxidoreductase subunit B, complex I; NADH dehydrogenase I[4]

Product Synonyms(s)

NADH:ubiquinone oxidoreductase, chain B[1], B2287[2][1], NuoB[2][1]

Function from GO

Cellular Component

Molecular Function

Biological Process

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): nuoABCEFGHIJKLMN[2], nuo1-14

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(nuoB)    Textpresso(nuoB)

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Notes

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NuoB has iron-sulfur cluster N2. HT_Cmplx18_Mem: NuoB+NuoC.[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

nuoB

Mnemonic

NADH:ubiquinone oxidoreductase

Synonyms

ECK2281, b2287, JW5875[1]

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Notes

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.

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

51.77 minutes 

MG1655: 2402635..2401973
gbrowse_img.php?coord=2401973..2402635&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 2348204..2347542
gbrowse_img.php?coord=2347542..2348204&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 2409283..2408621
gbrowse_img.php?coord=2408621..2409283&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 2494400..2493738
gbrowse_img.php?coord=2493738..2494400&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 2287778..2288440
gbrowse_img.php?coord=2287778..2288440&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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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 typeLocationDescription
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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.

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

ΔnuoB (Keio:JW5875)

deletion

deletion

PMID:16738554

Shigen

nuoB

PMID:12519969

ASAP

At position 608 in Plus orientation, contains plasmid pKD46.
ASAP strain name: FB20747

nuoB

PMID:12519969

ASAP

At position 608 in Plus orientation, does not contain plasmid pKD46.
ASAP strain name: FB20748

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Notes

Genetic Resources

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

ResourceResource TypeSourceNotes/Reference

JW5875

Plasmid clone

Shigen

PMID:16769691

Status:cloned as old JW

Primer 1:GCCGATTATACGCTCACCCGCAT

Primer 2:CCAATCTCGTCAGGTGTACGCAG

zfb-223::Tn10

Linked marker

CAG18484 = CGSC7406[5]

est. P1 cotransduction: 65% [6]
Synonyms:zej-223::Tn10

zfd-1::Tn10

Linked marker

CAG18467 = CGSC7408[5]

est. P1 cotransduction: % [6]
Synonyms:zfb-1::Tn10

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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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG12083

EchoBASE (EcoliWiki Page)

EchoBASE:EB2008

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2287

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C2828

EcoGene (EcoliWiki Page)

EcoGene:EG12083

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:NUOB

CGSC (EcoliWiki Page)

CGSC:32676

ASAP (EcoliWikiPage)

ASAP:ABE-0007551


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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

NuoB

Synonyms

NADH:ubiquinone oxidoreductase, chain B[1], B2287[2][1], NuoB[2][1]

Product description

NuoB[2][3];

Component of connecting fragment of NADH dehydrogenase I[3]; NADH dehydrogenase I[2][3]

NADH:ubiquinone oxidoreductase subunit B, complex I; NADH dehydrogenase I[4]

EC number (for enzymes)
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Notes

Function

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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:0005886

plasma membrane

PMID:7607227

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc 12.5 [7]

complete

GO:0008137

NADH dehydrogenase (ubiquinone) activity

PMID:9495756

IMP: Inferred from Mutant Phenotype

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0009060

aerobic respiration

PMID:9495756

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc [8]

complete

GO:0009061

anaerobic respiration

PMID:9063459

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc [8]

complete

GO:0015453

oxidoreduction-driven active transmembrane transporter activity

PMID:3122832

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc [8]

complete

GO:0015990

electron transport coupled proton transport

PMID:16807239

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc [8]

complete

GO:0030964

NADH dehydrogenase complex

PMID:7607227

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc [8]

complete

GO:0045272

plasma membrane respiratory chain complex I

PMID:11997136

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc [8]

complete

GO:0051539

4 iron, 4 sulfur cluster binding

PMID:12975362

IMP: Inferred from Mutant Phenotype

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0005506

iron ion binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0408

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0006120

mitochondrial electron transport, NADH to ubiquinone

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006137
InterPro:IPR006138

P

Seeded from EcoCyc 12.5 [7]

complete

GO:0008137

NADH dehydrogenase (ubiquinone) activity

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006137
InterPro:IPR006138

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0046872

metal ion binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

Seeded from EcoCyc [8]

complete

GO:0048038

quinone binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0874

F

Seeded from EcoCyc [8]

complete

GO:0051539

4 iron, 4 sulfur cluster binding

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR014406
SP_KW:KW-0004

F

Seeded from EcoCyc 12.5 [7]

complete

NOT

GO:0005737

cytoplasm

PMID:7607227

IDA: Inferred from Direct Assay

C

Seeded from Riley et al 2006 [1].

See discussion page for explanation of the 'NOT' qualifier.

complete

GO:0006810

transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc [8]

complete

GO:0016020

membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc [8]

complete

GO:0016491

oxidoreductase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

F

Seeded from EcoCyc [8]

complete

GO:0016651

oxidoreductase activity, acting on NADH or NADPH

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR014406

F

Seeded from EcoCyc [8]

complete

GO:0019684

photosynthesis, light reaction

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01356

P

Seeded from EcoCyc [8]

complete

GO:0050136

NADH dehydrogenase (quinone) activity

GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:1.6.99.5

F

Seeded from EcoCyc [8]

complete

GO:0051536

iron-sulfur cluster binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0411

F

Seeded from EcoCyc [8]

complete

GO:0055114

oxidation reduction

GO_REF:0000020
GO_REF:0000004

IEA: Inferred from Electronic Annotation

HAMAP:MF_01356
SP_KW:KW-0560

P

Seeded from EcoCyc [8]

complete

GO:0009061

anaerobic respiration

PMID:9063459

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc 11.1[3].

Growth with fumarate as the terminal electron acceptor requires NADH dehydrogenase I.

complete

GO:0009053

electron donor activity

F

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0015453

oxidoreduction-driven active transmembrane transporter activity

PMID:3122832

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc 11.1[3].

NADH dehydrogenase I in membrane vesicles can generate a H+ electrochemical gradient in the presence of deamino-NADH and ubiquinone-1.

complete

GO:0030964

NADH dehydrogenase complex

PMID:7607227

IDA: Inferred from Direct Assay

C

The E. coli NADH dehydrogenase complex was purified and the subunits separated by SDS-PAGE. The N-termini of these 6 polypeptides were sequenced after deblocking with methanolic HCl.

complete

GO:0005886

plasma membrane

PMID:7607227

IDA: Inferred from Direct Assay

C

The NADH dehydrogenase I complex fractionates with cytoplasmic membranes.

complete

Contributes to

GO:0003954

NADH dehydrogenase activity

PMID:3122832

IDA: Inferred from Direct Assay

F

Purified NADH dehydrogenase I in membrane vesicles can oxidize NADH.

complete

GO:0051539

4 iron, 4 sulfur cluster binding

PMID:12975362

IMP: Inferred from Mutant Phenotype

F

Mutation of cysteine residues in nuoB results in loss of the EPR spectral signal characteristic of the N2 [4Fe-4S] cluster in NADH dehydrogenase I.

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 TypePartnerNotesReferencesEvidence

Protein

Subunits of connecting fragment of NADH dehydrogenase I

could be indirect

Protein

Subunits of NADH dehydrogenase I

could be indirect


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Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes

Cytoplasm

PMID:7607227

EchoLocation:nuoB


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Notes

Structure and Physical Properties

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

Sequence

at EcoCyc 

MDYTLTRIDP NGENDRYPLQ KQEIVTDPLE QEVNKNVFMG KLNDMVNWGR KNSIWPYNFG
LSCCYVEMVT SFTAVHDVAR FGAEVLRASP RQADLMVVAG TCFTKMAPVI QRLYDQMLEP
KWVISMGACA NSGGMYDIYS VVQGVDKFIP VDVYIPGCPP RPEAYMQALM LLQESIGKER
RPLSWVVGDQ GVYRANMQSE RERKRGERIA VTNLRTPDEI
Length

220

Mol. Wt

25.055 kDa

pI

5.6 (calculated)

Extinction coefficient

36,900 - 37,525 (calc based on 10 Y, 4 W, and 5 C residues)

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Domains/Motifs/Modification Sites

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

Structures
Models

View models at:

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Structure figures

Notes

Gene Product Resources

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Resource typeSourceNotes/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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:NUOB-MONOMER

SwissModel (EcoliWiki Page)

SwissModel:P0AFC7

UniProt (EcoliWiki Page)

UniProt:P0AFC7

PFAM (EcoliWiki Page)

PFAM:PF01058

RefSeq (EcoliWiki Page)

RefSeq:NP_416790


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Notes

Links

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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

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

nuoABCEFGHIJKLMN

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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

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gbrowse_img.php?coord=2402615..2402655&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein+flip&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

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Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

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

TypeReferenceNotes

microarray

GEO Profiles:b2287 (EcoliWiki Page)

NCBI GEO profiles for nuoB

microarray

GenExpDB:b2287 (EcoliWiki Page)

Summary of data for nuoB 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 NameResource TypeDescriptionSourceNotes
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Notes

Accessions Related to nuoB Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG12083

EchoBASE (EcoliWiki Page)

EchoBASE:EB2008

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2287

EcoGene (EcoliWiki Page)

EcoGene:EG12083


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Notes

Links

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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.

OrganismHomologs (Statistics)Comments

Anopheles gambiae

  • ENSANGP00000019428 (score: 1.000; bootstrap: 100%)
  • ENSANGP00000017108 (score: 0.655)
  • ENSANGP00000014787 (score: 0.655)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000012479 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT5G11770 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000025870 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00033393 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00012376 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000028874 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000005374 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0218687 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0030718 (score: 1.000; bootstrap: 100%)
  • FBgn0039669 (score: 0.603)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA15185-PA (score: 1.000; bootstrap: 100%)
  • GA21592-PA (score: 0.634)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000015781 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000233627 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000006378 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:1922656 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q6I5H0 (score: 1.000; bootstrap: 64%)
  • Q8W0E8 (score: 0.839)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000017334 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000037256 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000157736 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00019327001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000007999 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

NUOB

From SHIGELLACYC

E. coli O157

NUOB

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF01058


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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 1.8 1.9 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 2.7 2.8 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 3.7 3.8 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. ↑ 7.0 7.1 7.2 7.3 7.4 7.5 7.6 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  8. ↑ 8.00 8.01 8.02 8.03 8.04 8.05 8.06 8.07 8.08 8.09 8.10 8.11 8.12 8.13 8.14 8.15 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70

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