MiMeDB: Paracoccus denitrificans PD1222 (MMDBm0002342)

Microbe Identification

Microbe name

Paracoccus denitrificans PD1222

NCBI Taxonomy ID

318586

Microbe Taxonomy

Superkingdom

Bacteria

Kingdom

Eubacteria

Phylum

Proteobacteria

Class

Alphaproteobacteria

Order

Rhodobacterales

Family

Rhodobacteraceae

Genus

Paracoccus

Species

denitrificans

Strain

Microbe Properties

Gram staining properties

Positive

Shape

Bacilli

Mobility

Flagellar presence

Yes

Number of membranes

Oxygen preference

Aerobe

Optimal temperature

Temperature range

Mesophilic

Habitat

Multiple

Biotic relationship

Free living

Cell arrangement

Singles - Pairs - Clusters

Sporulation

Singles - Pairs - Clusters

Metabolism

Hydrogen oxidizer - Stores polyhydroxybutyrate

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
MMDBr0012860	(2R)-2-phosphoglyceric acid	Water	Enolase	Enolization	RHEA	34755880
MMDBr0012887	trans-3-hydroxy-L-proline	1-Pyrroline-2-carboxylic acid	Trans-3-hydroxy-L-proline dehydratase	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0012903	Pyruvic acid	L-Alanine	Hypotaurine/taurine--pyruvate aminotransferase	Amine group addition	RHEA	34755880
MMDBr0012953	(R)-Pantoate	Pantothenic acid	Pantothenate synthetase	Ligation; Phosphorylation; Synthesis	RHEA	34755880
MMDBr0012954	Adenosine triphosphate	Argininosuccinic acid	Argininosuccinate synthase	Synthesis	RHEA	34755880
MMDBr0012970	D-erythro-1-(Imidazol-4-yl)glycerol 3-phosphate	3-(Imidazol-4-yl)-2-oxopropyl phosphate	Imidazoleglycerol-phosphate dehydratase	Hydration/dehydration of C-O bond; Synthesis	RHEA	34755880
MMDBr0012971	beta-D-Fructose 1,6-bisphosphate	beta-D-Fructose 6-phosphate	Fructose-1,6-bisphosphatase/inositol-1-monophosphatase	Aldol addition (or reverse); Dephosphorylation	RHEA	34755880
MMDBr0012975	NAD	Dihydroxyacetone phosphate	Glycerol-3-phosphate dehydrogenase [NAD(+)]	Dehydrogenation	RHEA	34755880
MMDBr0012976	NADP(+)	Dihydroxyacetone phosphate	Glycerol-3-phosphate dehydrogenase [NAD(P)+]	Dehydrogenation	RHEA	34755880
MMDBr0013038	diphosphate	Phosphoribosyl pyrophosphate	Tryptophan biosynthesis protein TrpCD	Transfer of a ribosyl group	RHEA	34755880
MMDBr0013046	(6R)-5,10-methylene-5,6,7,8-tetrahydrofolic acid	(6S)-5,6,7,8-tetrahydrofolic acid	3-methyl-2-oxobutanoate hydroxymethyltransferase	Methylation	RHEA	34755880
MMDBr0013062	(6R)-6-(l-erythro-1,2-dihydroxypropyl)-5,6,7,8-tetrahydro-4a-hydroxypterin	4a-Carbinolamine tetrahydrobiopterin	Putative pterin-4-alpha-carbinolamine dehydratase	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0013098	NADP(+)	Hydrogen Ion	UDP-N-acetylenolpyruvoylglucosamine reductase	Reduction	RHEA	34755880
MMDBr0013152	L-Glutamic acid	D-Glutamate	L-alanine/L-glutamate racemase	Racemization; Synthesis	RHEA	34755880
MMDBr0013163	Glycine	5-Aminolevulinic acid	5-aminolevulinate synthase, mitochondrial	Synthesis	RHEA	34755880
MMDBr0013170	Adenosine monophosphate	ADP	Adenylate kinase	Phosphorylation	RHEA	34755880
MMDBr0013173	diphosphate	Phosphoribosyl pyrophosphate	Bifunctional protein PyrR	Transfer of phosphoribosyl group	RHEA	34755880
MMDBr0013179	Adenosine triphosphate	ADP	Replicase large subunit	Synthesis of a primer	RHEA	34755880
MMDBr0013194	Water	Hydroxymethylbilane	Porphobilinogen deaminase	Deamination	RHEA	34755880
MMDBr0013212	7-Aminomethyl-7-carbaguanine	7-Cyano-7-carbaguanine	NADPH-dependent 7-cyano-7-deazaguanine reductase	Reduction	RHEA	34755880
MMDBr0013213	2-C-methyl-D-erythritol 4-phosphate	4-(Cytidine 5'-diphospho)-2-C-methyl-D-erythritol	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase	Transfer of a cytidylyl group	RHEA	34755880
MMDBr0013221	(R)-2,3-Dihydroxy-3-methylpentanoate	(S)-2-ethyl-2-hydroxy-3-oxobutanoic acid	Ketol-acid reductoisomerase, mitochondrial	Isomerization	RHEA	34755880
MMDBr0013224	Hydrogen Ion	diphosphate	Bifunctional protein GlmU	N-Acetylation; Phosphorylation; Isomerization	RHEA	34755880
MMDBr0013245	Acetyl-CoA	CoA	L-serine/homoserine O-acetyltransferase	N-Acetylation; Synthesis	RHEA	34755880
MMDBr0013246	2-C-methyl-D-erythritol 4-phosphate	1-Deoxy-D-xylulose 5-phosphate	1-deoxy-D-xylulose 5-phosphate reductoisomerase	Isomerization	RHEA	34755880
MMDBr0013248	Acetyl-CoA	CoA	Bifunctional protein GlmU	N-Acetylation	RHEA	34755880
MMDBr0013333	Adenosine triphosphate	ADP	Protein ARG5,6, mitochondrial	Phosphorylation	RHEA	34755880
MMDBr0013370	Adenosine triphosphate	ADP	Glutamate 5-kinase	Phosphorylation	RHEA	34755880
MMDBr0013375	Water	formate	S-formylglutathione hydrolase	Hydrolysis of bond	RHEA	34755880
MMDBr0013395	Oxygen	Hydrogen peroxide	Probable pyridoxamine 5'-phosphate oxidase	Oxidation	RHEA	34755880
MMDBr0013405	Iron(3+)	Fe2+	Copper-containing nitrite reductase	Reduction	RHEA	34755880
MMDBr0013431	1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide	5-[(5-phospho-1-deoxy-D-ribulos-1-ylimino)methylamino]-1-(5-phospho-beta-D-ribosyl)imidazole-4-carboxamide	1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase	Isomerization	RHEA	34755880
MMDBr0013458	Guanosine triphosphate	Guanosine diphosphate	Adenylosuccinate synthetase	Synthesis	RHEA	34755880
MMDBr0013466	Water	Hydrogen peroxide	Probable pyridoxamine 5'-phosphate oxidase	Oxidation	RHEA	34755880
MMDBr0013470	(2R)-2-phosphoglyceric acid	(2R)-3-phosphoglyceric acid	2,3-bisphosphoglycerate-independent phosphoglycerate mutase	Intramolecular transfer of functional group	RHEA	34755880
MMDBr0013518	Water	ADP-D-ribose	NAD(+) hydrolase AbTIR	Hydrolysis of bond	RHEA	34755880
MMDBr0013519	Water	ADP-D-ribose	NAD(+) hydrolase AbTIR	Hydrolysis of bond	RHEA	34755880
MMDBr0013526	Pantothenic acid	(R)-4'-phosphopantothenic acid	Bifunctional enzyme BirA/CoaX	Phosphorylation	RHEA	34755880
MMDBr0013529	Adenosine triphosphate	ADP	UDP-N-acetylmuramoylalanine--D-glutamate ligase	Ligation	RHEA	34755880
MMDBr0013547	Adenosine triphosphate	ADP	CTP synthase	Synthesis	RHEA	34755880
MMDBr0013549	Adenosine monophosphate	Phosphoribosyl pyrophosphate	Adenine phosphoribosyltransferase	Transfer of a ribosyl group	RHEA	34755880
MMDBr0013589	Inositol	Hydrogen Ion	Inositol 2-dehydrogenase	Dehydrogenation	RHEA	34755880
MMDBr0013611	D-Glyceraldehyde 3-phosphate	beta-D-Fructose 6-phosphate	Transaldolase	Transfer of aldol group	RHEA	34755880
MMDBr0013622	Glycine	glyoxylate	L-aspartate--glyoxylate aminotransferase	Amine group addition	RHEA	34755880
MMDBr0013623	glyoxylate	Glycine	L-aspartate--glyoxylate aminotransferase	Amine group addition	RHEA	34755880
MMDBr0013642	(S)-2,3,4,5-tetrahydrodipicolinate	(S)-2-succinylamino-6-oxoheptanedioic acid	2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase	Transfer of succinyl moiety	RHEA	34755880
MMDBr0013659	Guanosine triphosphate	7,8-dihydroneopterin 3'-triphosphate	Bifunctional protein FolKE	Hydrolysis	RHEA	34755880
MMDBr0013674	Adenosine triphosphate	ADP	Succinate--CoA ligase [ADP-forming] subunit alpha, mitochondrial	Ligation	RHEA	34755880
MMDBr0013681	NADP(+)	3-Dehydroshikimic acid	Pentafunctional AROM polypeptide	Dehydrogenation	RHEA	34755880
MMDBr0013755	D-Ribose-5-phosphate	Water	Pseudouridine-5'-phosphate glycosidase	Transfer of a glycosyl group	RHEA	34755880
MMDBr0013768	4-(Cytidine 5'-diphospho)-2-C-methyl-D-erythritol	2-Phospho-4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol	4-diphosphocytidyl-2-C-methyl-D-erythritol kinase	Phosphorylation	RHEA	34755880
MMDBr0013770	Water	Phosphoribosyl formamidocarboxamide	Bifunctional purine biosynthesis protein PurH	Hydrolysis; Synthesis	RHEA	34755880
MMDBr0013790	Adenosine triphosphate	ADP	Phosphoenolpyruvate carboxykinase (ATP)	Phosphorylation	RHEA	34755880
MMDBr0013801	Phosphoenolpyruvic acid	Phosphate	UDP-N-acetylglucosamine 1-carboxyvinyltransferase	Synthesis	RHEA	34755880
MMDBr0013840	Hydrogen Ion	12,18-didecarboxysiroheme	Siroheme decarboxylase alpha subunit	Decarboxylation	RHEA	34755880
MMDBr0013851	Adenosine triphosphate	ADP	Cytochrome c biogenesis ATP-binding export protein CcmA	Transport	RHEA	34755880
MMDBr0013886	Carbamoylphosphate	Hydrogen Ion	Ornithine carbamoyltransferase	Transfer of a carbamoyl group	RHEA	34755880
MMDBr0013895	L-Glutamic-gamma-semialdehyde	Hydrogen Ion	Gamma-glutamyl phosphate reductase	Reduction	RHEA	34755880
MMDBr0013921	(R)-4'-phosphopantetheine	3'-dephospho-CoA	Phosphopantetheine adenylyltransferase	Dephosphorylation	RHEA	34755880
MMDBr0013929	Hydrogen Ion	Carbon dioxide	Uroporphyrinogen decarboxylase	Decarboxylation	RHEA	34755880
MMDBr0013946	Carbamoylphosphate	Hydrogen Ion	Protein pyrABCN	Transfer of a carbamoyl group	RHEA	34755880
MMDBr0013952	1-(5-phosphoribosyl)-5'-AMP	1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide	Histidine biosynthesis bifunctional protein HisIE	Hydrolysis; Synthesis	RHEA	34755880
MMDBr0013966	(6S)-5,6,7,8-tetrahydrofolic acid	(6S)-10-formyltetrahydrofolic acid	C-1-tetrahydrofolate synthase, cytoplasmic	Ligation; Synthesis	RHEA	34755880
MMDBr0013978	Hydrogen peroxide	Water	Bromoperoxidase-catalase	Synthesis	RHEA	34755880
MMDBr0014005	Hydrogen Ion	Carbon dioxide	Urease subunit alpha	Hydrolysis of urea	RHEA	34755880
MMDBr0014061	5-O-(1-Carboxyvinyl)-3-phosphoshikimate	Chorismate	Chorismate synthase	Synthesis	RHEA	34755880
MMDBr0014076	4-Hydroxyproline	cis-4-Hydroxy-D-proline	Trans-3-hydroxy-L-proline dehydratase	Epimerization	RHEA	34755880
MMDBr0014083	Shikimate 3-phosphate	5-O-(1-Carboxyvinyl)-3-phosphoshikimate	Pentafunctional AROM polypeptide	Synthesis; Dehydration and isomerisation; Oxidation; Phosphorylation; Transfer of a carboxyvinyl group	RHEA	34755880
MMDBr0014114	N-(5-Phospho-D-ribosyl)anthranilate	1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate	Phosphoribosyl isomerase A	Isomerization	RHEA	34755880
MMDBr0014117	N-Acetyl-L-glutamate 5-semialdehyde	Hydrogen Ion	Protein ARG5,6, mitochondrial	Reduction	RHEA	34755880
MMDBr0014133	Adenosine triphosphate	ADP	sn-glycerol-3-phosphate import ATP-binding protein UgpC	Transport	RHEA	34755880
MMDBr0014160	3-deoxy-D-arabino-heptulosonate-7-phosphate	3-Dehydroquinate	Pentafunctional AROM polypeptide	Phosphorylation; Synthesis	RHEA	34755880
MMDBr0014167	(R)-2,3-Dihydroxy-isovalerate	(2S)-2-acetolactic acid	Ketol-acid reductoisomerase, mitochondrial	Isomerization	RHEA	34755880
MMDBr0014180	(6S)-10-formyltetrahydrofolic acid	(6S)-5,6,7,8-tetrahydrofolic acid	Bifunctional purine biosynthesis protein PurH	Synthesis	RHEA	34755880
MMDBr0014216	S-(Hydroxymethyl)glutathione	Formaldehyde	Putative glutathione-dependent formaldehyde-activating enzyme	Condensation	RHEA	34755880
MMDBr0014225	Water	LL-2,6-Diaminoheptanedioate	Succinyl-diaminopimelate desuccinylase	Hydrolysis of carbon-nitrogen bond	RHEA	34755880
MMDBr0014251	(6R)-5,10-methylene-5,6,7,8-tetrahydrofolic acid	5,10-Methenyltetrahydrofolate	C-1-tetrahydrofolate synthase, cytoplasmic	Synthesis	RHEA	34755880
MMDBr0014256	1-(5-phosphoribosyl)-ATP	1-(5-phosphoribosyl)-5'-AMP	Phosphoribosyl-ATP pyrophosphatase	Dephosphorylation; Synthesis	RHEA	34755880
MMDBr0014295	(2R)-3-phosphoglyceric acid	Carbon dioxide	Ribulose bisphosphate carboxylase large chain	Carboxylation	RHEA	34755880
MMDBr0014323	Adenosine triphosphate	ADP	Bifunctional enzyme MurC/Ddl	Ligation	RHEA	34755880
MMDBr0014333	alpha-D-Glucosamine 1-phosphate	D-glucosamine 6-phosphate	Phosphoglucosamine mutase	Intramolecular transfer of functional group	RHEA	34755880
MMDBr0014365	4-Imidazolone-5-propionic acid	Formiminoglutamic acid	Imidazolonepropionase	Non-hydrolytic bond cleavage (or its reversal)	RHEA	34755880
MMDBr0014367	Adenine	Hypoxanthine	Adenine deaminase	Deamination	RHEA	34755880
MMDBr0014369	5,10-Methenyltetrahydrofolate	(6S)-10-formyltetrahydrofolic acid	C-1-tetrahydrofolate synthase, cytoplasmic	Reversible cyclization	RHEA	34755880
MMDBr0014377	alpha-Ketoglutarate	3-(Imidazol-4-yl)-2-oxopropyl phosphate	Histidinol-phosphate aminotransferase	Amine group addition	RHEA	34755880
MMDBr0014392	2-Phospho-4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol	2-C-Methyl-D-erythritol-2,4-cyclodiphosphate	Bifunctional enzyme IspD/IspF	Synthesis	RHEA	34755880
MMDBr0014407	Argininosuccinic acid	fumarate	Bifunctional protein ArgHA	Non-hydrolytic bond cleavage (or its reversal)	RHEA	34755880
MMDBr0014447	Adenosine triphosphate	ADP	UMP-CMP kinase	Phosphorylation	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
MMDBr0017917	5-Aminoimidazole ribonucleotide	4-Amino-2-methyl-5-phosphomethylpyrimidine	Phosphomethylpyrimidine synthase	Synthesis	RHEA	34755880
MMDBr0014545	Acetaldehyde	Acetic acid	Acetaldehyde dehydrogenase	Dehydrogenation	RHEA	34755880
MMDBr0017926	Adenosine triphosphate	ADP	CTP synthase	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
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
MMDBr0014763	7-Deaza-7-carboxyguanine	7-Cyano-7-carbaguanine	7-cyano-7-deazaguanine synthase	Synthesis	RHEA	34755880
MMDBr0014776	Farnesyl pyrophosphate	diphosphate	Protoheme IX farnesyltransferase, mitochondrial	Farnesylation	RHEA	34755880
MMDBr0014783	di-trans,octa-cis-undecaprenyl diphosphate	di-trans,octa-cis-undecaprenyl phosphate	Undecaprenyl-diphosphatase BcrC	Dephosphorylation	RHEA	34755880
MMDBr0014825	di-trans,octa-cis-undecaprenyl phosphate	di-trans-octa-cis-undecaprenyl diphospho-N-acetyl-alpha-D-muramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine	Phospho-N-acetylmuramoyl-pentapeptide-transferase	Transfer of phospho-N-acetylmuramoyl-pentapeptide	RHEA	34755880
MMDBr0014937	Adenosine triphosphate	ADP	Zinc import ATP-binding protein ZnuC	ATP hydrolysis	RHEA	34755880
MMDBr0015026	di-trans-octa-cis-undecaprenyl diphospho-N-acetyl-alpha-D-muramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine	di-trans-octa-cis-undecaprenyl diphospho-[N-acetyl-alpha-D-glucosaminyl-(1->4)]-N-acetyl-alpha-D-muramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine	UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase	UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase; UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase 1; UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase 2; UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase 3	RHEA	34755880
MMDBr0015135	4-(phosphooxy)-L-threonine	3-Amino-2-oxopropyl phosphate	4-hydroxythreonine-4-phosphate dehydrogenase	Dehydrogenation	RHEA	34755880
MMDBr0015136	3-Isopropylmalate	2-Isopropylmalic acid	3-isopropylmalate dehydratase large subunit gloJ	Isomerization	RHEA	34755880
MMDBr0015149	S-Adenosylmethionine	Hydrogen Ion	Siroheme synthase	Methylation; Synthesis	RHEA	34755880
MMDBr0015518	D-Ribulose 1,5-bisphosphate	(2R)-3-phosphoglyceric acid	Ribulose bisphosphate carboxylase large chain	Carboxylation	RHEA	34755880
MMDBr0015855	L-Aspartic acid	Hydrogen Ion	Iminosuccinate reductase	Reduction	RHEA	34755880
MMDBr0015856	Hydrogen Ion	L-Aspartic acid	Iminosuccinate reductase	Reduction	RHEA	34755880
MMDBr0015916	1-Hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate	2-C-Methyl-D-erythritol-2,4-cyclodiphosphate	4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin)	Synthesis	RHEA	34755880
MMDBr0016327	trans-4-hydroxy-L-proline betaine	cis-4-hydroxy-D-proline betaine	4-hydroxyproline betaine 2-epimerase	Epimerization	RHEA	34755880
MMDBr0016568	Proline betaine	D-proline betaine	4-hydroxyproline betaine 2-epimerase	Epimerization	RHEA	34755880
MMDBr0016907	Adenosine triphosphate	ADP	ATP synthase subunit alpha	ATP hydrolysis; Synthesis	RHEA	34755880
MMDBr0016924	Hypotaurine	2-sulfinoacetaldehyde	Hypotaurine/taurine--pyruvate aminotransferase	Amine group addition	RHEA	34755880
MMDBr0017173	(3S)-3-hydroxy-D-aspartic acid	Water	beta-hydroxyaspartate dehydratase	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0017174	(3S)-3-hydroxy-D-aspartic acid	Water	beta-hydroxyaspartate dehydratase	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0017834	(1S,2R)-1-C-(indol-3-yl)glycerol 3-phosphate	D-Glyceraldehyde 3-phosphate	Tryptophan synthase	Synthesis	RHEA	34755880
MMDBr0017852	Adenosine triphosphate	ADP	Glutamate--cysteine ligase EgtA	Ligation	RHEA	34755880
MMDBr0017869	Coproporphyrinogen III	5'-Deoxyadenosine	Coproporphyrinogen III oxidase, anaerobic 1	Oxidation	RHEA	34755880
MMDBr0017871	(6R)-5,10-methylene-5,6,7,8-tetrahydrofolic acid	(6S)-5,6,7,8-tetrahydrofolic acid	Serine hydroxymethyltransferase	Methylation	RHEA	34755880
MMDBr0017874	Water	L-Glutamic acid	Thermolabile glutaminase	Synthesis	RHEA	34755880
MMDBr0017879	Adenosine triphosphate	2-formamido-N(1)-(5-O-phospho-beta-D-ribosyl)acetamidine	Phosphoribosylformylglycinamidine synthase	Synthesis	RHEA	34755880
MMDBr0017890	L-Proline	1-Pyrroline-2-carboxylic acid	Delta(1)-pyrroline-2-carboxylate reductase	Reduction	RHEA	34755880
MMDBr0017891	L-Proline	1-Pyrroline-2-carboxylic acid	Delta(1)-pyrroline-2-carboxylate reductase	Reduction	RHEA	34755880
MMDBr0017897	Adenosine triphosphate	diphosphate	S-adenosylmethionine synthase	Synthesis	RHEA	34755880
MMDBr0017903	L-Histidine	Ammonium	Histidine ammonia-lyase	Non-hydrolytic bond cleavage (or its reversal)	RHEA	34755880
MMDBr0017916	5-[(5-phospho-1-deoxy-D-ribulos-1-ylimino)methylamino]-1-(5-phospho-beta-D-ribosyl)imidazole-4-carboxamide	AICAR	Imidazole glycerol phosphate synthase subunit HisH	Synthesis	RHEA	34755880
MMDBr0024345	Adenosine triphosphate	Hydrogen Ion	Tyrosine--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024389	Adenosine triphosphate	diphosphate	Leucine--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024401	L-Serine	Hydrogen Ion	Holo-[acyl-carrier-protein] synthase	Dehydrogenation; Synthesis	RHEA	34755880
MMDBr0024403	Hydrogen Ion	Carbon dioxide	3-oxoacyl-[acyl-carrier-protein] synthase 3	Synthesis	RHEA	34755880
MMDBr0024411	Adenosine triphosphate	Hydrogen Ion	Type-2 serine--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024418	Adenosine triphosphate	diphosphate	Alanine--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024424	S-Adenosylmethionine	S-Adenosylhomocysteine	Protein-L-isoaspartate O-methyltransferase	Methylation	RHEA	34755880
MMDBr0024449	Adenosine triphosphate	diphosphate	Methionine--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024474	Adenosine triphosphate	diphosphate	Proline--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024483	Water	Hydrogen Ion	Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit C	Amide group addition	RHEA	34755880
MMDBr0024522	Adenosine triphosphate	diphosphate	Glycine--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024539	Hydrogen Ion	5'-Deoxyadenosine	Lipoyl synthase	Synthesis	RHEA	34755880
MMDBr0024546	Hydrogen Ion	(6S)-5,6,7,8-tetrahydrofolic acid	Methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO	Methylation	RHEA	34755880
MMDBr0024559	Adenosine triphosphate	Hydrogen Ion	Histidine--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024568	Water	Hydrogen Ion	Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit C	Amide group addition	RHEA	34755880
MMDBr0024578	Adenosine triphosphate	diphosphate	Cysteine--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024590	Adenosine triphosphate	ADP	Nucleoside diphosphate kinase	Phosphorylation	RHEA	34755880
MMDBr0024593	ADP-alpha-D-glucose	Hydrogen Ion	Probable glycogen synthase	Synthesis	RHEA	34755880
MMDBr0024597	L-Aspartic acid	diphosphate	Aspartate--tRNA(Asp/Asn) ligase	Ligation	RHEA	34755880
MMDBr0024628	Adenosine triphosphate	Hydrogen Ion	Phenylalanine--tRNA ligase beta subunit	Ligation	RHEA	34755880
MMDBr0024630	S-Adenosylmethionine	Hydrogen Ion	Ribosomal RNA small subunit methyltransferase A	Methylation	RHEA	34755880
MMDBr0024656	Adenosine triphosphate	diphosphate	Arginine--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024706	Water	Hydrogen Ion	Hydroxylamine reductase	Reduction	RHEA	34755880
MMDBr0024707	di-mu-Sulfido-diiron(1+)	5'-Deoxyadenosine	Biotin synthase	Synthesis	RHEA	34755880
MMDBr0024721	Hydrogen Ion	Phosphate	L-seryl-tRNA(Sec) selenium transferase	Transfer of L-seryl-tRNA(Sec) selenium	RHEA	34755880
MMDBr0024745	L-Glutamic acid	diphosphate	Glutamate--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024778	(6S)-10-formyltetrahydrofolic acid	Hydrogen Ion	Methionyl-tRNA formyltransferase	Transfer of a formyl group	RHEA	34755880
MMDBr0024782	Water	Hydrogen Ion	4-hydroxy-3-methylbut-2-enyl diphosphate reductase	Reduction	RHEA	34755880
MMDBr0024787	Adenosine triphosphate	Hydrogen Ion	Threonine--tRNA ligase	Ligation	RHEA	34755880
MMDBr0024789	Water	Hydrogen Ion	4-hydroxy-3-methylbut-2-enyl diphosphate reductase	Reduction	RHEA	34755880
MMDBr0024808	1-Deoxy-D-xylulose 5-phosphate	Water	Thiazole synthase	Synthesis	RHEA	34755880
MMDBr0024813	Dimethylallylpyrophosphate	diphosphate	tRNA dimethylallyltransferase	Transfer of a dimethylallyl group	RHEA	34755880
MMDBr0024834	S-Adenosylmethionine	Hydrogen Ion	Ubiquinone/menaquinone biosynthesis C-methyltransferase UbiE	Methylation	RHEA	34755880
MMDBr0024971	L-Threonylcarbamoyladenylate	Hydrogen Ion	tRNA N6-adenosine threonylcarbamoyltransferase	Synthesis	RHEA	34755880
MMDBr0024974	S-Adenosylmethionine	Hydrogen Ion	tRNA-2-methylthio-N(6)-dimethylallyladenosine synthase	Synthesis	RHEA	34755880
MMDBr0024977	S-Adenosylmethionine	Hydrogen Ion	Ribosomal protein S12 methylthiotransferase RimO	Methylthiolation	RHEA	34755880
MMDBr0025060	Adenosine triphosphate	Hydrogen Ion	Type-2 serine--tRNA ligase	Ligation	RHEA	34755880
MMDBr0025066	S-Adenosylmethionine	Hydrogen Ion	Demethylmenaquinone methyltransferase	Methylation	RHEA	34755880
MMDBr0025071	S-Adenosylmethionine	S-Adenosylhomocysteine	tRNA (guanine-N(7)-)-methyltransferase	Methylation	RHEA	34755880
MMDBr0025075	S-Adenosylmethionine	Hydrogen Ion	Ribosomal RNA large subunit methyltransferase E	Methylation	RHEA	34755880
MMDBr0025078	S-Adenosylmethionine	S-Adenosylhomocysteine	Ribosomal RNA small subunit methyltransferase G	Methylation	RHEA	34755880
MMDBr0025085	S-Adenosylmethionine	Hydrogen Ion	Putative ribosomal RNA large subunit methyltransferase H	Methylation	RHEA	34755880
MMDBr0025102	di-mu-Sulfido-diiron(1+)	5'-Deoxyadenosine	Ribosomal RNA large subunit methyltransferase N	Methylation	RHEA	34755880
MMDBr0025105	S-Adenosylmethionine	Hydrogen Ion	Ribosomal RNA small subunit methyltransferase H	Methylation	RHEA	34755880
MMDBr0025145	di-mu-Sulfido-diiron(1+)	5'-Deoxyadenosine	Probable dual-specificity RNA methyltransferase RlmN	Methylation	RHEA	34755880
MMDBr0025193	Adenosine triphosphate	ADP	Nucleoside diphosphate kinase	Phosphorylation	RHEA	34755880
MMDBr0025216	Hydrogen Ion	NAD	NAD(P)H dehydrogenase (quinone)	Dehydrogenation; Redox reaction; Reduction	RHEA	34755880
MMDBr0025217	Hydrogen Ion	NADP(+)	NAD(P)H dehydrogenase (quinone)	Dehydrogenation; Redox reaction; Reduction	RHEA	34755880
MMDBr0025258	Adenosine triphosphate	Hydrogen Ion	tRNA-specific 2-thiouridylase MnmA	2-Thiolation of uridine	RHEA	34755880
MMDBr0025326	Guanosine triphosphate	Hydrogen Ion	Probable GTP 3',8-cyclase	Cycle formation	RHEA	34755880
MMDBr0025514	Acetyl-CoA	Malonyl-CoA	Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha	Carboxylation	RHEA	34755880
MMDBr0025638	Adenosine triphosphate	Hydrogen Ion	tRNA-cytidine(32) 2-sulfurtransferase	Sulfuration	RHEA	34755880
MMDBr0025639	Adenosine triphosphate	Hydrogen Ion	tRNA-cytidine(32) 2-sulfurtransferase	Sulfuration	RHEA	34755880
MMDBr0025650	Hydrogen Ion	Hydrogen Ion	NADH-quinone oxidoreductase subunit C/D	Redox reaction	RHEA	34755880
MMDBr0025777	Hydrogen Ion	(6S)-5,6,7,8-tetrahydrofolic acid	Methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO	Methylation	RHEA	34755880
MMDBr0025806	Water	Fe(II)-heme a	Heme A synthase	Synthesis	RHEA	34755880
MMDBr0025807	Water	Fe(II)-heme a	Heme A synthase	Synthesis	RHEA	34755880
MMDBr0026022	Adenosine monophosphate	Adenosine	5'-nucleotidase SurE	Hydrolysis of nucleotide; Dephosphorylation	RHEA	34755880
MMDBr0026023	Cytidine monophosphate	Adenosine	5'-nucleotidase SurE	Hydrolysis of nucleotide; Dephosphorylation	RHEA	34755880
MMDBr0026024	Uridine 5'-monophosphate	Uridine	5'-nucleotidase SurE	Hydrolysis of nucleotide; Dephosphorylation	RHEA	34755880
MMDBr0026025	Guanosine monophosphate	Guanosine	5'-nucleotidase SurE	Hydrolysis of nucleotide; Dephosphorylation	RHEA	34755880
MMDBr0026046	Uridine 5'-diphosphate	Uridine triphosphate	Nucleoside diphosphate kinase	Phosphorylation	RHEA	34755880
MMDBr0026047	Uridine 5'-diphosphate	Cytidine triphosphate	Nucleoside diphosphate kinase	Phosphorylation	RHEA	34755880
MMDBr0026048	Guanosine 3',5'-bis(diphosphate)	Guanosine triphosphate	Nucleoside diphosphate kinase	Phosphorylation	RHEA	34755880
MMDBr0026085	Deoxyuridine-5'-diphosphate	Deoxyuridine triphosphate	Nucleoside diphosphate kinase	Phosphorylation	RHEA	34755880
MMDBr0026086	2'-Deoxycytidine 5'-diphosphate	Deoxycytidine 5'-triphosphate	Nucleoside diphosphate kinase	Phosphorylation	RHEA	34755880
MMDBr0026087	2'-Deoxyadenosine 5'-diphosphate	Deoxyadenosine triphosphate	Nucleoside diphosphate kinase	Phosphorylation	RHEA	34755880
MMDBr0026088	2'-Deoxyguanosine 5'-diphosphate	2'-Deoxyguanosine 5'-triphosphate	Nucleoside diphosphate kinase	Phosphorylation	RHEA	34755880

Genome Data

Genome Link

MMDBm0002342

Genome Length

1754813 bp

# Predicted Proteins

1754

GenBank Sequence Modification Date

17-FEB-2022

MiMeDB Deposition Date

2022-12-08 23:21:01 UTC

Reference

PMID: 17704766

Source Links

GenBank

NC_008687