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EC 7.2.4.4 Details

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EC number

7.2.4.4

Accepted name

biotin-dependent malonate decarboxylase

Reaction

malonate + H⁺ + Na⁺_{[side 1]} = acetate + CO₂ + Na⁺_{[side 2]}

Other name(s)

malonate decarboxylase (with biotin), malonate decarboxylase (ambiguous)

Systematic name

malonate carboxy-lyase (biotin-dependent)

Comment

Two types of malonate decarboxylase are currently known, both of which form multienzyme complexes. The enzyme described here is a membrane-bound biotin-dependent, Na⁺-translocating enzyme [6]. The other type is a biotin-independent cytosolic protein (cf. EC 4.1.1.88, biotin-independent malonate decarboxylase). As free malonate is chemically rather inert, it has to be activated prior to decarboxylation. Both enzymes achieve this by exchanging malonate with an acetyl group bound to an acyl-carrier protiein (ACP), to form malonyl-ACP and acetate, with subsequent decarboxylation regenerating the acetyl-bound form of the enzyme. The ACP subunit of both enzymes differs from that found in fatty-acid biosynthesis by having phosphopantethine attached to a serine side-chain as 2-(5-triphosphoribosyl)-3-dephospho-CoA rather than as phosphopantetheine 4′-phosphate. In the anaerobic bacterium Malonomonas rubra, the components of the multienzyme complex/enzymes involved in carrying out the reactions of this enzyme are as follows: MadA (EC 2.3.1.187, acetyl-S-ACP:malonate ACP transferase), MadB (EC 7.2.4.1, carboxybiotin decarboxylase), MadC/MadD (EC 2.1.3.10, malonyl-S-ACP:biotin-protein carboxyltransferase) and MadH (EC 6.2.1.35, acetate—[acyl-carrier protein] ligase). Two other components that are involved are MadE, the acyl-carrier protein and MadF, the biotin protein. The carboxy group is lost with retention of configuration [5].

History

created 2008 as EC 4.1.1.89, transferred 2018 to EC 7.2.4.4

EC Tree

1 Oxidoreductases

2.1 Transferring one-carbon groups

2.2 Transferring aldehyde or ketonic groups

2.3 Acyltransferases

2.4 Glycosyltransferases

2.5 Transferring alkyl or aryl groups, other than methyl groups

2.5.1 Transferring alkyl or aryl groups, other than methyl groups (only sub-subclass identified to date)

2.5.1.1 dimethylallyltranstransferase

2.5.1.2 thiamine pyridinylase

2.5.1.3 thiamine phosphate synthase

2.5.1.4 adenosylmethionine cyclotransferase

2.5.1.5 galactose-6-sulfurylase

2.5.1.6 methionine adenosyltransferase

2.5.1.7 UDP-N-acetylglucosamine 1-carboxyvinyltransferase

2.5.1.8 tRNA isopentenyltransferase

2.5.1.9 riboflavin synthase

2.5.1.10 (2E,6E)-farnesyl diphosphate synthase

2.5.1.11 trans-octaprenyltranstransferase

2.5.1.12 created 1972, deleted 1976

2.5.1.13 created 1972, deleted 1976

2.5.1.14 created 1972, deleted 1976

2.5.1.15 dihydropteroate synthase

2.5.1.16 spermidine synthase

2.5.1.17 corrinoid adenosyltransferase

2.5.1.18 glutathione transferase

2.5.1.19 3-phosphoshikimate 1-carboxyvinyltransferase

2.5.1.20 rubber cis-polyprenylcistransferase

2.5.1.21 squalene synthase

2.5.1.22 spermine synthase

2.5.1.23 sym-norspermidine synthase

2.5.1.24 discadenine synthase

2.5.1.25 tRNA-uridine aminocarboxypropyltransferase

2.5.1.26 alkylglycerone-phosphate synthase

2.5.1.27 adenylate dimethylallyltransferase (AMP-dependent)

2.5.1.28 dimethylallylcistransferase

2.5.1.29 geranylgeranyl diphosphate synthase

2.5.1.30 heptaprenyl diphosphate synthase

2.5.1.31 ditrans,polycis-undecaprenyl-diphosphate synthase [(2E,6E)-farnesyl-diphosphate specific]

2.5.1.32 15-cis-phytoene synthase

2.5.1.33 trans-pentaprenyltranstransferase

2.5.1.34 4-dimethylallyltryptophan synthase

2.5.1.35 aspulvinone dimethylallyltransferase

2.5.1.36 trihydroxypterocarpan dimethylallyltransferase

2.5.1.37 created 1989, deleted 2004

2.5.1.38 isonocardicin synthase

2.5.1.39 4-hydroxybenzoate polyprenyltransferase

2.5.1.40 created 1992, deleted 1999

2.5.1.41 phosphoglycerol geranylgeranyltransferase

2.5.1.42 geranylgeranylglycerol-phosphate geranylgeranyltransferase

2.5.1.43 nicotianamine synthase

2.5.1.44 homospermidine synthase

2.5.1.45 homospermidine synthase (spermidine-specific)

2.5.1.46 deoxyhypusine synthase

2.5.1.47 cysteine synthase

2.5.1.48 cystathionine γ-synthase

2.5.1.49 O-acetylhomoserine aminocarboxypropyltransferase

2.5.1.50 zeatin 9-aminocarboxyethyltransferase

2.5.1.51 β-pyrazolylalanine synthase

2.5.1.52 L-mimosine synthase

2.5.1.53 uracilylalanine synthase

2.5.1.54 3-deoxy-7-phosphoheptulonate synthase

2.5.1.55 3-deoxy-8-phosphooctulonate synthase

2.5.1.56 N-acetylneuraminate synthase

2.5.1.57 N-acylneuraminate-9-phosphate synthase

2.5.1.58 protein farnesyltransferase

2.5.1.59 protein geranylgeranyltransferase type I

2.5.1.60 protein geranylgeranyltransferase type II

2.5.1.61 hydroxymethylbilane synthase

2.5.1.62 chlorophyll synthase

2.5.1.63 adenosyl-fluoride synthase

2.5.1.64 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase

2.5.1.65 O-phosphoserine sulfhydrylase

2.5.1.66 N²-(2-carboxyethyl)arginine synthase

2.5.1.67 chrysanthemyl diphosphate synthase

2.5.1.68 (2Z,6E)-farnesyl diphosphate synthase

2.5.1.69 lavandulyl diphosphate synthase

2.5.1.70 naringenin 8-dimethylallyltransferase

2.5.1.71 leachianone-G 2′′-dimethylallyltransferase

2.5.1.72 quinolinate synthase

2.5.1.73 O-phospho-L-seryl-tRNA:Cys-tRNA synthase

2.5.1.74 1,4-dihydroxy-2-naphthoate polyprenyltransferase

2.5.1.75 tRNA dimethylallyltransferase

2.5.1.76 cysteate synthase

2.5.1.77 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase

2.5.1.78 6,7-dimethyl-8-ribityllumazine synthase

2.5.1.79 thermospermine synthase

2.5.1.80 7-dimethylallyltryptophan synthase

2.5.1.81 geranylfarnesyl diphosphate synthase

2.5.1.82 hexaprenyl diphosphate synthase [geranylgeranyl-diphosphate specific]

2.5.1.83 hexaprenyl diphosphate synthase [(2E,6E)-farnesyl-diphosphate specific]

2.5.1.84 all-trans-nonaprenyl diphosphate synthase [geranyl-diphosphate specific]

2.5.1.85 all-trans-nonaprenyl diphosphate synthase [geranylgeranyl-diphosphate specific]

2.5.1.86 trans,polycis-decaprenyl diphosphate synthase

2.5.1.87 ditrans,polycis-polyprenyl diphosphate synthase [(2E,6E)-farnesyl diphosphate specific]

2.5.1.88 trans,polycis-polyprenyl diphosphate synthase [(2Z,6E)-farnesyl diphosphate specific]

2.5.1.89 tritrans,polycis-undecaprenyl diphosphate synthase [geranylgeranyl-diphosphate specific]

2.5.1.90 all-trans-octaprenyl-diphosphate synthase

2.5.1.91 all-trans-decaprenyl-diphosphate synthase

2.5.1.92 (2Z,6Z)-farnesyl diphosphate synthase

2.5.1.93 4-hydroxybenzoate geranyltransferase

2.5.1.94 adenosyl-chloride synthase

2.5.1.95 xanthan ketal pyruvate transferase

2.5.1.96 4,4′-diapophytoene synthase

2.5.1.97 pseudaminic acid synthase

2.5.1.98 Rhizobium leguminosarum exopolysaccharide glucosyl ketal-pyruvate-transferase

2.5.1.99 all-trans-phytoene synthase

2.5.1.100 fumigaclavine A dimethylallyltransferase

2.5.1.101 N,N′-diacetyllegionaminate synthase

2.5.1.102 geranyl-pyrophosphate—olivetolic acid geranyltransferase

2.5.1.103 presqualene diphosphate synthase

2.5.1.104 N¹-aminopropylagmatine synthase

2.5.1.105 7,8-dihydropterin-6-yl-methyl-4-(β-D-ribofuranosyl)aminobenzene 5′-phosphate synthase

2.5.1.106 tryprostatin B synthase

2.5.1.107 verruculogen prenyltransferase

2.5.1.108 2-(3-amino-3-carboxypropyl)histidine synthase

2.5.1.109 brevianamide F prenyltransferase (deoxybrevianamide E-forming)

2.5.1.110 12α,13α-dihydroxyfumitremorgin C prenyltransferase

2.5.1.111 4-hydroxyphenylpyruvate 3-dimethylallyltransferase

2.5.1.112 adenylate dimethylallyltransferase (ADP/ATP-dependent)

2.5.1.113 [CysO sulfur-carrier protein]-thiocarboxylate-dependent cysteine synthase

2.5.1.114 tRNA^Phe (4-demethylwyosine³⁷-C7) aminocarboxypropyltransferase

2.5.1.115 homogentisate phytyltransferase

2.5.1.116 homogentisate geranylgeranyltransferase

2.5.1.117 homogentisate solanesyltransferase

2.5.1.118 β-(isoxazolin-5-on-2-yl)-L-alanine synthase

2.5.1.119 β-(isoxazolin-5-on-4-yl)-L-alanine synthase

2.5.1.120 aminodeoxyfutalosine synthase

2.5.1.121 5,10-dihydrophenazine-1-carboxylate 9-dimethylallyltransferase

2.5.1.122 4-O-dimethylallyl-L-tyrosine synthase

2.5.1.123 flaviolin linalyltransferase

2.5.1.124 6-linalyl-2-O,3-dimethylflaviolin synthase

2.5.1.125 7-geranyloxy-5-hydroxy-2-methoxy-3-methylnaphthalene-1,4-dione synthase

2.5.1.126 norspermine synthase

2.5.1.127 caldopentamine synthase

2.5.1.128 N⁴-bis(aminopropyl)spermidine synthase

2.5.1.129 flavin prenyltransferase

2.5.1.130 2-carboxy-1,4-naphthoquinone phytyltransferase

2.5.1.131 (4-{4-[2-(γ-L-glutamylamino)ethyl]phenoxymethyl}furan-2-yl)methanamine synthase

2.5.1.132 3-deoxy-D-glycero-D-galacto-nonulopyranosonate 9-phosphate synthase

2.5.1.133 bacteriochlorophyll a synthase

2.5.1.134 cystathionine β-synthase (O-acetyl-L-serine)

2.5.1.135 validamine 7-phosphate valienyltransferase

2.5.1.136 2-acylphloroglucinol 4-prenyltransferase

2.5.1.137 2-acyl-4-prenylphloroglucinol 6-prenyltransferase

2.5.1.138 coumarin 8-geranyltransferase

2.5.1.139 umbelliferone 6-dimethylallyltransferase

2.5.1.140 N-(2-amino-2-carboxyethyl)-L-glutamate synthase

2.5.1.141 heme o synthase

2.5.1.142 nerylneryl diphosphate synthase

2.5.1.143 pyridinium-3,5-biscarboxylic acid mononucleotide synthase

2.5.1.144 S-sulfo-L-cysteine synthase (O-acetyl-L-serine-dependent)

2.5.1.145 phosphatidylglycerol—prolipoprotein diacylglyceryl transferase

2.5.1.146 3-geranyl-3-[(Z)-2-isocyanoethenyl]indole synthase

2.5.1.147 5-amino-6-(D-ribitylamino)uracil—L-tyrosine 4-hydroxyphenyl transferase

2.5.1.148 lycopaoctaene synthase

2.5.1.149 lycopene elongase/hydratase (flavuxanthin-forming)

2.5.1.150 lycopene elongase/hydratase (dihydrobisanhydrobacterioruberin-forming)

2.5.1.151 alkylcobalamin dealkylase

2.5.1.152 D-histidine 2-aminobutanoyltransferase

2.5.1.153 adenosine tuberculosinyltransferase

2.5.1.154 corrinoid adenosyltransferase EutT

2.5.1.155 phosphoglycerol geranylfarnesyltransferase

2.5.1.156 geranylfarnesylglycerol-phosphate geranylfarnesyltransferase

2.6 Transferring nitrogenous groups

2.6.1 Transaminases

2.6.2 Amidinotransferases (deleted sub-subclass)

2.6.3 Oximinotransferases

2.6.99 Transferring other nitrogenous groups

2.7 Transferring phosphorus-containing groups

2.8 Transferring sulfur-containing groups

2.9 Transferring selenium-containing groups

2.10 Transferring molybdenum- or tungsten-containing groups

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Release 2023.1 (January 2023)