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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	gdhA
Gene Synonym(s)	ECK1759, b1761, JW1750^[1], JW1750
Product Desc.	GdhA^[2]^[3]; Component of glutamate dehydrogenase (NADP+)^[2]; glutamate dehydrogenase^[3] Glutamate dehydrogenase^[4]
Product Synonyms(s)	glutamate dehydrogenase, NADP-specific^[1], B1761^[2]^[1], GdhA^[2]^[1] , ECK1759, JW1750, b1761
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): gdhA^[2]
Regulation/Activity
Quick Links
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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	gdhA
Mnemonic	Glutamate dehydrogenase
Synonyms	ECK1759, b1761, JW1750^[1], JW1750
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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	39.67 minutes	MG1655: 1840395..1841738 <gbrowseImage> name=NC_000913:1840395..1841738 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 1819599..1820942 <gbrowseImage> name=NC_012967:1819599..1820942 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 1732454..1733797 <gbrowseImage> name=NC_012759:1732454..1733797 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1844085..1845428 <gbrowseImage> name=NC_007779:1844085..1845428 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 1930966..1932309 <gbrowseImage> name=NC_010473:1930966..1932309 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	1840395	Edman degradation	PMID:6308576 PMID:9298646
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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
ΔgdhA (Keio:JW1750)	deletion	deletion	PMID:16738554	Shigen CGSC9473^[5]
gdhA::Tn5KAN-2 (FB20449)	Insertion at nt 738 in Minus orientation		PMID:15262929	E. coli Genome Project:FB20449	contains pKD46
gdhA::Tn5KAN-2 (FB20450)	Insertion at nt 738 in Minus orientation		PMID:15262929	E. coli Genome Project:FB20450	does not contain pKD46
gdhA1			PMID:7913929	CGSC:6100
gdhA2				CGSC:8758
ΔgdhA759::kan			PMID:16738554	CGSC:101126
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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
JW1750	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGATCAGACATATTCTCTGGA Primer 2:CCAATCACACCCTGCGCCAGCAT
4B8	Kohara Phage	Genobase	PMID:3038334
12H7	Kohara Phage	Genobase	PMID:3038334
zdj-276::Tn10	Linked marker	CAG18464 = CGSC7387^[5]	est. P1 cotransduction: 77% ^[6] Synonyms:zdi-276::Tn10
zea-225::Tn10	Linked marker	CAG18465 = CGSC7388^[5]	est. P1 cotransduction: 32% ^[6] Synonyms:zdj-225::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.

Database	Accession	Notes
EcoCyc	EcoCyc:EG10372	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10372	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000365	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946802	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0367	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005865	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	GdhA
Synonyms	glutamate dehydrogenase, NADP-specific^[1], B1761^[2]^[1], GdhA^[2]^[1] , ECK1759, JW1750, b1761
Product description	GdhA^[2]^[3]; Component of glutamate dehydrogenase (NADP+)^[2]; glutamate dehydrogenase^[3] Glutamate dehydrogenase^[4]
EC number (for enzymes)	1.4.1.4^[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:0004354	glutamate dehydrogenase (NADP+) activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:1.4.1.4	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005488	binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016040	F	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006095	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006096	P	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	PMID:241744	IDA: Inferred from Direct Assay		C		complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006097	P	Seeded from EcoCyc (v14.0)	complete
	GO:0004354	glutamate dehydrogenase (NADP+) activity	PMID:241744	IDA: Inferred from Direct Assay		F		complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR014362	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006537	glutamate biosynthetic process	PMID:241744	IDA: Inferred from Direct Assay		P		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 glutamate dehydrogenase (NADP+)	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.

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 MDQTYSLESF LNHVQKRDPN QTEFAQAVRE VMTTLWPFLE QNPKYRQMSL LERLVEPERV IQFRVVWVDD RNQIQVNRAW RVQFSSAIGP YKGGMRFHPS VNLSILKFLG FEQTFKNALT TLPMGGGKGG SDFDPKGKSE GEVMRFCQAL MTELYRHLGA DTDVPAGDIG VGGREVGFMA GMMKKLSNNT ACVFTGKGLS FGGSLIRPEA TGYGLVYFTE AMLKRHGMGF EGMRVSVSGS GNVAQYAIEK AMEFGARVIT ASDSSGTVVD ESGFTKEKLA RLIEIKASRD GRVADYAKEF GLVYLEGQQP WSLPVDIALP CATQNELDVD AAHQLIANGV KAVAEGANMP TTIEATELFQ QAGVLFAPGK AANAGGVATS GLEMAQNAAR LGWKAEKVDA RLHHIMLDIH HACVEHGGEG EQTNYVQGAN IAGFVKVADA MLAQGVI
Length	447
Mol. Wt	48.58 kDa
pI	6.4 (calculated)
Extinction coefficient	42,400 - 42,900 (calc based on 10 Y, 5 W, and 4 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	202..445	PF00208 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase	PMID:19920124
Domain	57..187	PF02812 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain	PMID:19920124
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<motif_map/>

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

Structures

<beststructure> gene=gdhA 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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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:16129715	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946802	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005865	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P00370	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10372	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10372	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946802	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000365	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0367	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	Notes	Reference(s)
Protein	E. coli K-12 MC4100	3.68E+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 EMG2	140	molecules/cell	Medium: MOPS glucose minimal Temperature (°C): 37 Doubling time (min): Growth phase: Exponential OD: OD600 = 0.2 to 0.25 other: aerated	Quantitative protein sequencing	Spot ID: M94	PMID: 9298646
Protein	E. coli K-12 MG1655	373	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	5645	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	645	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)
gdhA
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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_000913:1840375..1840415 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:b1761 (EcoliWiki Page)	NCBI GEO profiles for gdhA
microarray	GenExpDB:b1761 (EcoliWiki Page)	Summary of data for gdhA 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 gdhA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10372	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0367	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1761
EcoGene	EcoGene:EG10372	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000365	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005865	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
Anopheles gambiae	ENSANGP00000021599 (score: 1.000; bootstrap: 100%) ENSANGP00000025315 (score: 0.474)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000006619 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Arabidopsis thaliana	AT1G51720 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000009923 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00028507 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00014095 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000006270 (score: 1.000; bootstrap: 100%) ENSCAFP00000023709 (score: 0.789)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000019611 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Danio rerio	ZDB-GENE-030114-2 (score: 1.000; bootstrap: 100%) ZDB-CDNA-040425-337 (score: 1.000; bootstrap: 100%) ZDB-CDNA-040425-3419 (score: 1.000; bootstrap: 100%) ZDB-CDNA-040425-336 (score: 0.996) ZDB-GENE-030828-1 (score: 0.996)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0231438 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0039071 (score: 1.000; bootstrap: 100%) FBgn0001098 (score: 0.362)	From Inparanoid:20070104
Drosophila pseudoobscura	GA18181-PA (score: 1.000; bootstrap: 100%) GA18802-PA (score: 0.373)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000003139 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Homo sapiens	ENSP00000327589 (score: 1.000; bootstrap: 100%) ENSP00000277865 (score: 0.953)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000029068 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000003357 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Mus musculus	MGI:95753 (score: 1.000; bootstrap: 100%) MGI:3646831 (score: 0.250)	From Inparanoid:20070104
Oryza gramene	Q5JKR7 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000004733 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000013789 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Saccharomyces cerevisiae	YOR375C (score: 1.000; bootstrap: 100%) YAL062W (score: 0.801)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPCC6222c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000158102 (score: 1.000; bootstrap: 100%) NEWSINFRUP00000143914 (score: 0.536)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00024997001 (score: 1.000; bootstrap: 100%) GSTENP00009556001 (score: 0.511)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000017881 (score: 1.000; bootstrap: 100%) ENSXETP00000017876 (score: 0.390)	From Inparanoid:20070104
E. coli O157	GDHA	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)	PF00208 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase
Pfam (EcoliWiki Page)	PF02812 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain
Superfamily (EcoliWiki Page)	SUPERFAMILY:51735
Panther (EcoliWiki Page)	PTHR11606:SF4
Superfamily (EcoliWiki Page)	SUPERFAMILY:53223
EcoCyc	EcoCyc:EG10372	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10372	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000365	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0367	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005865	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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^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
↑ ^3.0 ^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 CGSC: The Coli Genetics Stock Center
↑ ^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).

gdhA: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 gdhA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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