MiMeDB: Rhodobacter capsulatus (MMDBm0000411)

Microbe Identification

Microbe name

Rhodobacter capsulatus

NCBI Taxonomy ID

1061

Microbe Taxonomy

Superkingdom

Bacteria

Kingdom

Eubacteria

Phylum

Proteobacteria

Class

Alphaproteobacteria

Order

Rhodobacterales

Family

Rhodobacteraceae

Genus

Rhodobacter

Species

capsulatus

Strain

Not Available

Microbe Properties

Gram staining properties

Positive

Shape

Not Available

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				Human Oral Microbiome Database (HOMD)	20624719

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
MMDBr0012916	D-Glyceraldehyde 3-phosphate	aldehydo-D-ribose 5-phosphate	Transketolase	Transfer of ketol group	RHEA	34755880
MMDBr0012983	Fe2+	Iron(3+)	Bacterioferritin	Oxidation	RHEA	34755880
MMDBr0012988	5,6-Dimethylbenzimidazole	N1-(5-Phospho-a-D-ribosyl)-5,6-dimethylbenzimidazole	Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase	Transfer of a ribosyl group	RHEA	34755880
MMDBr0013009	Fe2+	Iron(3+)	Cbb3-type cytochrome c oxidase subunit CcoN1	Oxidation	RHEA	34755880
MMDBr0013134	D-Glyceraldehyde 3-phosphate	1-Deoxy-D-xylulose 5-phosphate	1-deoxy-D-xylulose-5-phosphate synthase	Synthesis	RHEA	34755880
MMDBr0013164	alpha-Ketoglutarate	(2R)-Homocitric acid	Homocitrate synthase AksA	Synthesis	RHEA	34755880
MMDBr0013243	D-Ribulose 5-phosphate	Xylulose 5-phosphate	Ribulose-phosphate 3-epimerase	Epimerization	RHEA	34755880
MMDBr0013269	Adenosine triphosphate	ADP	Magnesium-chelatase 60 kDa subunit	Chelation	RHEA	34755880
MMDBr0013292	Adenosine triphosphate	ADP	1-phosphofructokinase	Phosphorylation	RHEA	34755880
MMDBr0013309	Phosphoglycolic acid	Glycolic acid	Phosphoglycolate phosphatase	Dephosphorylation	RHEA	34755880
MMDBr0013347	beta-D-Fructose 1,6-bisphosphate	D-Glyceraldehyde 3-phosphate	Fructose-bisphosphate aldolase	Aldol addition (or reverse)	RHEA	34755880
MMDBr0013550	(S)-malyl-CoA	Acetyl-CoA	Apparent malate synthase	Non-hydrolytic bond cleavage (or its reversal); Synthesis	RHEA	34755880
MMDBr0013688	Mg-protoporphyrin IX	Mg-protoporphyrin IX 13-monomethyl ester	Magnesium-protoporphyrin O-methyltransferase	Methylation	RHEA	34755880
MMDBr0013929	Hydrogen Ion	Carbon dioxide	Uroporphyrinogen decarboxylase	Decarboxylation	RHEA	34755880
MMDBr0013978	Hydrogen peroxide	Water	Bromoperoxidase-catalase	Synthesis	RHEA	34755880
MMDBr0014005	Hydrogen Ion	Carbon dioxide	Urease subunit alpha	Hydrolysis of urea	RHEA	34755880
MMDBr0014021	Hydrogen Ion	Hydrogen peroxide	Methanobactin mb-OB3b	Dismutation	RHEA	34755880
MMDBr0014221	Hydrogen Ion	Fe2+	Deferrochelatase/peroxidase EfeB	Chelation	RHEA	34755880
MMDBr0014295	(2R)-3-phosphoglyceric acid	Carbon dioxide	Ribulose bisphosphate carboxylase large chain	Carboxylation	RHEA	34755880
MMDBr0014413	5-Aminolevulinic acid	Hydrogen Ion	Delta-aminolevulinic acid dehydratase	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0014428	Iron(3+)	Fe2+	Dimethyl sulfoxide/trimethylamine N-oxide reductase	Reduction	RHEA	34755880
MMDBr0014486	(R)-2,3-Dihydroxy-isovalerate	alpha-Ketoisovaleric acid	Dihydroxy-acid dehydratase, mitochondrial	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0014487	(R)-2,3-Dihydroxy-isovalerate	alpha-Ketoisovaleric acid	Dihydroxy-acid dehydratase, mitochondrial	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0014669	FMNH2	5,6-Dimethylbenzimidazole	5,6-dimethylbenzimidazole synthase	Synthesis	RHEA	34755880
MMDBr0014699	Geranyl diphosphate	all-trans-nonaprenyl diphosphate	All-trans-nonaprenyl-diphosphate synthase (geranyl-diphosphate specific)	Synthesis	RHEA	34755880
MMDBr0014718	(R)-2,3-Dihydroxy-3-methylpentanoate	2-Keto-3-methyl-valerate	Dihydroxy-acid dehydratase, mitochondrial	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0014719	(R)-2,3-Dihydroxy-3-methylpentanoate	2-Keto-3-methyl-valerate	Dihydroxy-acid dehydratase, mitochondrial	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0015020	demethylspheroidene	Hydrogen Ion	Demethylspheroidene O-methyltransferase	Methylation	RHEA	34755880
MMDBr0015325	Guanosine triphosphate	diphosphate	Molybdenum cofactor guanylyltransferase	Synthesis	RHEA	34755880
MMDBr0015518	D-Ribulose 1,5-bisphosphate	(2R)-3-phosphoglyceric acid	Ribulose bisphosphate carboxylase large chain	Carboxylation	RHEA	34755880
MMDBr0015625	(2R,3S)-beta-methylmalyl-CoA	glyoxylate	L-malyl-CoA/beta-methylmalyl-CoA lyase	Non-hydrolytic bond cleavage (or its reversal)	RHEA	34755880
MMDBr0016462	(8S)-3',8-cyclo-7,8-dihydroguanosine 5'-triphosphate	Cyclic pyranopterin monophosphate	Cyclic pyranopterin monophosphate synthase	Synthesis	RHEA	34755880
MMDBr0016522	NADP(+)	Hydrogen Ion	Flavodoxin/ferredoxin--NADP reductase	Reduction	RHEA	34755880
MMDBr0016907	Adenosine triphosphate	ADP	ATP synthase subunit alpha	ATP hydrolysis; Synthesis	RHEA	34755880
MMDBr0017876	Adenosine triphosphate	ADP	Glutamine synthetase	Synthesis	RHEA	34755880
MMDBr0017886	Water	Indole	Probable tryptophanase	Non-hydrolytic bond cleavage	RHEA	34755880
MMDBr0017913	Adenosine triphosphate	Adenosine monophosphate	Glutamine-dependent NAD(+) synthetase	Synthesis	RHEA	34755880
MMDBr0024380	Iron(3+)	Hydrogen Ion	Ubiquinol-cytochrome c reductase iron-sulfur subunit	Reduction	RHEA	34755880
MMDBr0024403	Hydrogen Ion	Carbon dioxide	3-oxoacyl-[acyl-carrier-protein] synthase 3	Synthesis	RHEA	34755880
MMDBr0024493	NAD	Hydrogen Ion	Dihydrolipoyl dehydrogenase	Dehydrogenation	RHEA	34755880
MMDBr0024650	Hydrogen Ion	di-mu-Sulfido-diiron(2+)	Ferredoxin--NADP reductase	Dehydrogenation; Reduction	RHEA	34755880
MMDBr0024686	Water	Hydrogen Ion	Nitrogenase iron protein	Nitrogen fixation	RHEA	34755880
MMDBr0024705	Water	Hydrogen Ion	Molybdenum import ATP-binding protein ModC	Transport	RHEA	34755880
MMDBr0024706	Water	Hydrogen Ion	Hydroxylamine reductase	Reduction	RHEA	34755880
MMDBr0024757	L-Histidine	Pyruvic acid	Phosphoenolpyruvate-protein phosphotransferase	Transfer of phosphate group	RHEA	34755880
MMDBr0024833	Tetra-mu3-sulfido-tetrairon(2+)	Water	Light-independent protochlorophyllide reductase iron-sulfur ATP-binding protein	Reduction	RHEA	34755880
MMDBr0024838	Water	Dimethyl sulfoxide	Putative dimethyl sulfoxide reductase catalytic subunit A	Reduction	RHEA	34755880
MMDBr0024966	L-Threonine	Hydrogen Ion	FAD:protein FMN transferase	Transfer of the FMN moiety of FAD	RHEA	34755880
MMDBr0025318	D-Fructofuranose	L-Histidine	PTS system fructose-specific EIIB component	Phosphorylation	RHEA	34755880
MMDBr0025326	Guanosine triphosphate	Hydrogen Ion	Probable GTP 3',8-cyclase	Cycle formation	RHEA	34755880
MMDBr0025568	Water	Hydrogen Ion	Probable carbamoyltransferase HypF	Transfer of a carbamoyl group	RHEA	34755880
MMDBr0025569	Adenosine triphosphate	Hydrogen Ion	Carbamoyl dehydratase HypE	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0025650	Hydrogen Ion	Hydrogen Ion	NADH-quinone oxidoreductase subunit C/D	Redox reaction	RHEA	34755880

Genome Data

Genome Link

MMDBm0000411

Genome Length

3792372 bp

# Predicted Proteins

3656

GenBank Sequence Modification Date

17-FEB-2022

MiMeDB Deposition Date

2022-08-29 16:10:02 UTC

Reference

PMID: 17704766

Source Links

GenBank

NC_014034