MiMeDB: Dickeya dadantii 3937 (MMDBm0001562)

Microbe Identification

Microbe name

Dickeya dadantii 3937

NCBI Taxonomy ID

198628

Microbe Taxonomy

Superkingdom

Bacteria

Kingdom

Eubacteria

Phylum

Proteobacteria

Class

Gammaproteobacteria

Order

Enterobacteriales

Family

Enterobacteriaceae

Genus

Dickeya

Species

dadantii

Strain

3937

Microbe Properties

Gram staining properties

Positive

Shape

Bacilli

Mobility

Yes

Flagellar presence

Yes

Number of membranes

Oxygen preference

Facultative

Optimal temperature

Temperature range

Mesophilic

Habitat

HostAssociated

Biotic relationship

Free living

Cell arrangement

Not Available

Sporulation

Nonsporulating

Metabolism

Not Available

Energy source

Not Available

Host and Biospecimens

Host	Body site	Biospecimen	Details	Data Source	Reference
Human	Gut	Feces	Expected but not quantified

Health Effects

Host	Related Health Condition	Biospecimen	Microbal response/effect	Data Source	Reference

Related Metabolites

Metabolic Reactions

Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference
MMDBr0012954	Adenosine triphosphate	Argininosuccinic acid	Argininosuccinate synthase	Synthesis	RHEA	34755880
MMDBr0013355	2-Dehydro-3-deoxy-D-gluconate	2-Keto-3-deoxy-6-phosphogluconic acid	2-dehydro-3-deoxygluconokinase	Phosphorylation	RHEA	34755880
MMDBr0013467	aldehydo-D-glucose 6-phosphate	6-Phosphonoglucono-D-lactone	Glucose-6-phosphate 1-dehydrogenase	Dehydrogenation	RHEA	34755880
MMDBr0013616	2-Keto-3-deoxy-6-phosphogluconic acid	D-Glyceraldehyde 3-phosphate	2-dehydro-3-deoxy-phosphogluconate aldolase	Aldol addition (or reverse)	RHEA	34755880
MMDBr0013876	NADPH	Hydrogen Ion	Flavohemoprotein	NO detoxification	RHEA	34755880
MMDBr0013877	NADH	Hydrogen Ion	Flavohemoprotein	NO detoxification	RHEA	34755880
MMDBr0013973	4-(4-deoxy-alpha-D-galact-4-enuronosyl)-D-galacturonic acid	5-Dehydro-4-deoxy-D-glucuronate	Oligogalacturonate lyase	Non-hydrolytic bond cleavage (or its reversal)	RHEA	34755880
MMDBr0014393	5-Dehydro-4-deoxy-D-glucuronate	(4S)-4,6-Dihydroxy-2,5-dioxohexanoate	4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase	Isomerization	RHEA	34755880
MMDBr0014427	2-Dehydro-3-deoxy-D-gluconate	(4S)-4,6-Dihydroxy-2,5-dioxohexanoate	2-dehydro-3-deoxy-D-gluconate 5-dehydrogenase	Dehydrogenation	RHEA	34755880
MMDBr0014964	Fe(III)-enterobactin	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]	Iron(III) enterobactin esterase	Ester hydrolysis	RHEA	34755880
MMDBr0014965	Fe(III)-enterobactin	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]	Iron(III) enterobactin esterase	Ester hydrolysis	RHEA	34755880
MMDBr0015006	(4R)-4-hydroxy-2-oxoglutarate	glyoxylate	KHG/KDPG aldolase	Aldol addition (or reverse)	RHEA	34755880
MMDBr0015422	(4S)-4-hydroxy-2-oxoglutarate	glyoxylate	KHG/KDPG aldolase	Aldol addition (or reverse)	RHEA	34755880
MMDBr0016986	Fe(III)-enterobactin	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]3	Iron(III) enterobactin esterase	Ester hydrolysis	RHEA	34755880
MMDBr0016987	Fe(III)-enterobactin	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]3	Iron(III) enterobactin esterase	Ester hydrolysis	RHEA	34755880
MMDBr0016988	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]3	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]2	Iron(III) enterobactin esterase	Ester hydrolysis	RHEA	34755880
MMDBr0016989	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]3	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]2	Iron(III) enterobactin esterase	Ester hydrolysis	RHEA	34755880
MMDBr0016990	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]2	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]	Iron(III) enterobactin esterase	Ester hydrolysis	RHEA	34755880
MMDBr0016991	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]2	Fe(III)-[N-(2,3-dihydroxybenzoyl)-L-serine]	Iron(III) enterobactin esterase	Ester hydrolysis	RHEA	34755880
MMDBr0024341	S-Adenosylmethionine	Hydrogen Ion	Acyl-homoserine-lactone synthase	Synthesis	RHEA	34755880
MMDBr0024386	Selenocysteine	Hydrogen Ion	Cysteine desulfurase	Desulfuration	RHEA	34755880
MMDBr0024471	Water	L-Cysteine	Peptide methionine sulfoxide reductase MsrA	Reduction	RHEA	34755880
MMDBr0024628	Adenosine triphosphate	Hydrogen Ion	Phenylalanine--tRNA ligase beta subunit	Ligation	RHEA	34755880
MMDBr0024644	Water	L-Cysteine	Peptide methionine sulfoxide reductase MsrA	Reduction	RHEA	34755880
MMDBr0025103	S-Adenosylmethionine	Hydrogen Ion	Ribosomal RNA small subunit methyltransferase E	Methylation	RHEA	34755880
MMDBr0025248	lipid A (E. coli)	hepta-acyl lipid A	Lipid A palmitoyltransferase PagP	Transfer of a fatty acid residue	RHEA	34755880
MMDBr0025249	(2-N,3-O-bis(3-Hydroxytetradecanoyl)-4-O-phosphono-beta-D-glucosaminyl)-(1->6)-(2-N,3-O-bis(3-hydroxytetradecanoyl)-beta-D-glucosaminyl phosphate)	Lipid IVb	Lipid A palmitoyltransferase PagP	Transfer of a fatty acid residue	RHEA	34755880
MMDBr0025250	Lipid IIA	lipid IIB	Lipid A palmitoyltransferase PagP	Transfer of a fatty acid residue	RHEA	34755880

Genome Data

Genome Link

Not Available

Genome Length

Not Available

# Predicted Proteins

GenBank Sequence Modification Date

17-FEB-2022

MiMeDB Deposition Date

Reference

PMID: 17704766

Source Links

GenBank