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Product(s) |

Expression|

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Standard Name	nadB
Gene Synonym(s)	ECK2572, b2574, JW2558, nic, nicB^[1], nicB
Product Desc.	L-ASPARTATE-OXID^[2]^[3]; Component of quinolinate synthase complex^[2]^[3] Quinolinate synthase, B protein^[4]
Product Synonyms(s)	quinolinate synthase, L-aspartate oxidase (B protein) subunit^[1], B2574^[2]^[1], Nic^[2]^[1], NicB^[2]^[1], NadB^[2]^[1] , ECK2572, JW2558, nic, nicB, b2574
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): nadB^[2], OP00272
Regulation/Activity
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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	nadB
Mnemonic	Nicotinamide adenine dinucleotide
Synonyms	ECK2572, b2574, JW2558, nic, nicB^[1], nicB
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Notes

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	58.38 minutes, 58.38 minutes	MG1655: 2708442..2710064 <gbrowseImage> name=NC_000913:2708442..2710064 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2631913..2633535 <gbrowseImage> name=NC_012967:2631913..2633535 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2594247..2595869 <gbrowseImage> name=NC_012759:2594247..2595869 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 2709076..2710698 <gbrowseImage> name=NC_007779:2709076..2710698 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2800207..2801829 <gbrowseImage> name=NC_010473:2800207..2801829 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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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
Coding Start (SO:0000323)	MG1655	2708442	Edman degradation	PMID:2187483 PMID:2841129
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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)	Reference	Availability	Comments
ΔnadB (Keio:JW2558)	deletion	deletion	PMID:16738554	Shigen CGSC10033^[5]
nadB::Tn5KAN-I-SceI (FB20859)	Insertion at nt 880 in Plus orientation		PMID:15262929	E. coli Genome Project:FB20859	does not contain pKD46
nadB::Tn5KAN-I-SceI (FB20860)	Insertion at nt 880 in Plus orientation		PMID:15262929	E. coli Genome Project:FB20860	contains pKD46
nadB51::Tn10	Insertion at 2,708,520 bp in MG1655 (NC_000913)		adapted from Nichols et al.^[6]	CAG18480 = CGSC7419^[5]	Synonyms:
nadB7				CGSC:5563
nadB51::Tn10				CGSC:7108
nadB4				CGSC:11547
nadB9999				CGSC:28592
nadB3140::Tn10kan			PMID:2540407	CGSC:38775
nadB0				CGSC:73599
ΔnadB742::kan			PMID:16738554	CGSC:101982
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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
JW2558	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAATACTCTCCCTGAACATTC Primer 2:CCTCTGTTTATGTAATGATTGCC
4A12	Kohara Phage	Genobase	PMID:3038334
zfh-208::Tn10	Linked marker	CAG18481 = CGSC7417^[5]	est. P1 cotransduction: 13% ^[6] Synonyms:zff-208::Tn10
pheA18::Tn10	Linked marker	CAG12158 = CGSC7421^[5]	est. P1 cotransduction: 33% ^[6]
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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:EG10631	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10631	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000624	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947049	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0625	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008471	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	NadB
Synonyms	quinolinate synthase, L-aspartate oxidase (B protein) subunit^[1], B2574^[2]^[1], Nic^[2]^[1], NicB^[2]^[1], NadB^[2]^[1] , ECK2572, JW2558, nic, nicB, b2574
Product description	L-ASPARTATE-OXID^[2]^[3]; Component of quinolinate synthase complex^[2]^[3] Quinolinate synthase, B protein^[4]
EC number (for enzymes)	1.4.3.16^[1]
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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:0005737	cytoplasm	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005288	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0963	C	Seeded from EcoCyc (v14.0)	complete
	GO:0008734	L-aspartate oxidase activity	PMID:2841129	IMP: Inferred from Mutant Phenotype		F	Purification assay for L-aspartate oxidase shown in Table 2.	complete
	GO:0005737	cytoplasm	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0086	C	Seeded from EcoCyc (v14.0)	complete
	GO:0008734	L-aspartate oxidase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005288	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008734	L-aspartate oxidase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:1.4.3.16	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009055	electron carrier activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003953	F	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004112	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005288	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR015939	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0560	P	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	Subunits of quinolinate synthase complex	could be indirect
Protein	tyrR		PMID:16606699	Experiment(s):EBI-1143332
Protein	ulaB		PMID:16606699	Experiment(s):EBI-1143332
Protein	fur		PMID:16606699	Experiment(s):EBI-1143332
Protein	rhsD		PMID:16606699	Experiment(s):EBI-1143332
Protein	narY		PMID:16606699	Experiment(s):EBI-1143332
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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 MNTLPEHSCD VLIIGSGAAG LSLALRLADQ HQVIVLSKGP VTEGSTFYAQ GGIAAVFDET DSIDSHVEDT LIAGAGICDR HAVEFVASNA RSCVQWLIDQ GVLFDTHIQP NGEESYHLTR EGGHSHRRIL HAADATGREV ETTLVSKALN HPNIRVLERS NAVDLIVSDK IGLPGTRRVV GAWVWNRNKE TVETCHAKAV VLATGGASKV YQYTTNPDIS SGDGIAMAWR AGCRVANLEF NQFHPTALYH PQARNFLLTE ALRGEGAYLK RPDGTRFMPD FDERGELAPR DIVARAIDHE MKRLGADCMF LDISHKPADF IRQHFPMIYE KLLGLGIDLT QEPVPIVPAA HYTCGGVMVD DHGRTDVEGL YAIGEVSYTG LHGANRMASN SLLECLVYGW SAAEDITRRM PYAHDISTLP PWDESRVENP DERVVIQHNW HELRLFMWDY VGIVRTTKRL ERALRRITML QQEIDEYYAH FRVSNNLLEL RNLVQVAELI VRCAMMRKES RGLHFTLDYP ELLTHSGPSI LSPGNHYINR
Length	540
Mol. Wt	60.337 kDa
pI	6.3 (calculated)
Extinction coefficient	69,330 - 70,455 (calc based on 17 Y, 8 W, and 9 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	References
Domain	440..526	PF02910 domain	PMID:19920124
Domain	10..392	PF00890 FAD binding domain	PMID:19920124
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<motif_map/>

Structure
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Structures

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

Models

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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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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:16130499	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947049	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008471	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P10902	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10631	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10631	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947049	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000624	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0625	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	Reference(s)
Protein	E. coli K-12 MC4100	2.65E+02	molecules/cell	Medium: median data from rich and minimal media Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other:	emPAI	PMID:18304323
Protein	E. coli K-12 MG1655	2317	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	363	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	1749	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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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)
nadB
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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_000913:2708422..2708462 source=MG1655 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:b2574 (EcoliWiki Page)	NCBI GEO profiles for nadB
microarray	GenExpDB:b2574 (EcoliWiki Page)	Summary of data for nadB 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 nadB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10631	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0625	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2574
EcoGene	EcoGene:EG10631	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000624	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008471	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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
Arabidopsis thaliana	AT5G14760 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q6Z836 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
E. coli O157	NADB	From ECOO157CYC
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Do-It-Yourself Web Tools

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)	PF02910 domain
Pfam (EcoliWiki Page)	PF00890 FAD binding domain
Superfamily (EcoliWiki Page)	SUPERFAMILY:46977
Superfamily (EcoliWiki Page)	SUPERFAMILY:51905
Panther (EcoliWiki Page)	PTHR11632:SF6
Superfamily (EcoliWiki Page)	SUPERFAMILY:56425
EcoCyc	EcoCyc:EG10631	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10631	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000624	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0625	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008471	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 ^1.11 ^1.12 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 ^2.11 ^2.12 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^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
↑ ^4.0 ^4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 ^5.3 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 ^6.2 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).

nadB:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to nadB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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