MiMeDB: Paracoccus denitrificans (MMDBm0000327)

Microbe Identification

Microbe name

Paracoccus denitrificans

NCBI Taxonomy ID

266

Microbe Taxonomy

Superkingdom

Bacteria

Kingdom

Eubacteria

Phylum

Proteobacteria

Class

Alphaproteobacteria

Order

Rhodobacterales

Family

Rhodobacteraceae

Genus

Paracoccus

Species

denitrificans

Strain

Not Available

Microbe Properties

Gram staining properties

Positive

Shape

Cocci

Mobility

Not Available

Flagellar presence

Not Available

Number of membranes

Not Available

Oxygen preference

Not Available

Optimal temperature

Not Available

Temperature range

Not Available

Habitat

Not Available

Biotic relationship

Not Available

Cell arrangement

Not Available

Sporulation

Not Available

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
MMDBr0013009	Fe2+	Iron(3+)	Cbb3-type cytochrome c oxidase subunit CcoN1	Oxidation	RHEA	34755880
MMDBr0013170	Adenosine monophosphate	ADP	Adenylate kinase	Phosphorylation	RHEA	34755880
MMDBr0013385	Fe2+	Iron(3+)	Ferric reductase A	Reduction	RHEA	34755880
MMDBr0013889	Acetyl-CoA	Acetyl phosphate	Phosphate acetyltransferase EutD	N-Acetylation	RHEA	34755880
MMDBr0013939	NADP(+)	Hydrogen Ion	Alcohol dehydrogenase class-3	Dehydrogenation	RHEA	34755880
MMDBr0013940	NAD	Hydrogen Ion	Alcohol dehydrogenase class-3	Dehydrogenation	RHEA	34755880
MMDBr0014062	Acetyl-CoA	Acetoacetyl-CoA	Acetyl-CoA acetyltransferase	Acylation; Acetylation	RHEA	34755880
MMDBr0014216	S-(Hydroxymethyl)glutathione	Formaldehyde	Putative glutathione-dependent formaldehyde-activating enzyme	Condensation	RHEA	34755880
MMDBr0014755	(3S)-3-hydroxy-D-aspartic acid	Glycine	3-hydroxy-D-aspartate aldolase	Aldol addition (or reverse)	RHEA	34755880
MMDBr0014756	Glycine	(3S)-3-hydroxy-D-aspartic acid	3-hydroxy-D-aspartate aldolase	Aldol addition (or reverse)	RHEA	34755880
MMDBr0014757	(3R)-3-hydroxy-D-aspartic acid	Glycine	3-hydroxy-D-aspartate aldolase	Aldol addition (or reverse)	RHEA	34755880
MMDBr0014776	Farnesyl pyrophosphate	diphosphate	Protoheme IX farnesyltransferase, mitochondrial	Farnesylation	RHEA	34755880
MMDBr0014976	Water	Formaldehyde	Methylamine dehydrogenase heavy chain	Dehydrogenation	RHEA	34755880
MMDBr0015889	Iron(3+)	Fe2+	Nitrous-oxide reductase	Reduction	RHEA	34755880
MMDBr0024380	Iron(3+)	Hydrogen Ion	Ubiquinol-cytochrome c reductase iron-sulfur subunit	Reduction	RHEA	34755880
MMDBr0024393	Adenosine triphosphate	Hydrogen Ion	Putative biotin ligase	Ligation	RHEA	34755880
MMDBr0024569	alpha-Ketoglutarate	L-Glutamic acid	Aromatic-amino-acid aminotransferase 1	Amine group addition	RHEA	34755880
MMDBr0024698	Water	Hydrogen Ion	Quinohemoprotein amine dehydrogenase subunit gamma	Dehydrogenation	RHEA	34755880
MMDBr0024699	Water	Hydrogen Ion	Quinohemoprotein amine dehydrogenase subunit gamma	Dehydrogenation	RHEA	34755880
MMDBr0024713	NADP(+)	Hydrogen Ion	Acetoacetyl-CoA reductase	Reduction	RHEA	34755880
MMDBr0024761	FADH2	Hydrogen Ion	Electron transfer flavoprotein-ubiquinone oxidoreductase	Redox reaction	RHEA	34755880
MMDBr0024999	Succinic acid	fumarate	Succinate dehydrogenase flavoprotein subunit	Dehydrogenation; Reduction	RHEA	34755880
MMDBr0025372	Iron(3+)	Hydrogen Ion	Methanol dehydrogenase [cytochrome c] subunit 1	Dehydrogenation	RHEA	34755880
MMDBr0025650	Hydrogen Ion	Hydrogen Ion	NADH-quinone oxidoreductase subunit C/D	Redox reaction	RHEA	34755880

Genome Data

Genome Link

MMDBm0000327

Genome Length

2893029 bp

# Predicted Proteins

2895

GenBank Sequence Modification Date

17-FEB-2022

MiMeDB Deposition Date

2022-08-29 16:33:45 UTC

Reference

PMID: 17704766

Source Links

GenBank

NC_008686