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Table 2 Summary of gold and silver standard families

From: A gold standard set of mechanistically diverse enzyme superfamilies

Superfamily Family EC number* Number of sequences (gold/silver) Number of structures
Amidohydrolase Aryldialkylphosphatase 3.1.8.1 2/3 0
  Phosphotriesterase 3.1.8.1 7/8 12
  Membrane dipeptidase 3.4.13.19 1/1 2
  N-acetylglucosamine-6-phosphate deacetylase 3.5.1.25 1/54 2
  Urease 3.5.1.5 100/107 35
  N-acyl-D-amino-acid deacylase 3.5.1.81 3/11 8
  D-hydantoinase 3.5.2.2 10/25 4
  L-hydantoinase 3.5.2.2 3/3 1
  Dihydroorotase1 3.5.2.3 3/79 0
  Dihydroorotase2 3.5.2.3 13/13 0
  Dihydroorotase3 3.5.2.3 7/43 1
  Allantoinase 3.5.2.5 4/7 0
  Imidazolonepropionase 3.5.2.7 1/29 0
  Cytosine deaminase 3.5.4.1 9/24 7
  Adenine deaminase 3.5.4.2 1/24 0
  Guanine deaminase 3.5.4.3 11/34 0
  Adenosine deaminase 3.5.4.4 10/20 17
  AMP deaminase 3.5.4.6 28/31 0
  Hydroxydechloroatrazine ethylaminohydrolase 3.5.99.3 1/2 0
  N-isopropylammelide isopropylaminohydrolase 3.5.99.4 1/1 0
  1-Aminocyclopropane-1-carboxylate deaminase 3.5.99.7 1/1 0
  Atrazine chlorohydrolase 3.8.1.8 1/1 0
  Glucuronate isomerase 5.3.1.12 1/2 1
  Ammelide aminohydrolase NA 2/2 0
  Isoaspartyl dipeptidase NA 5/5 5
  Melamine deaminase NA 1/1 0
  N-acetylgalactosamine-6-phosphate deacetylase NA 3/5 0
  S-triazine hydrolase NA 1/1 0
  TrzN NA 1/1 0
Crotonase Histone acetyltransferase 2.3.1.48 11/12 0
  3-Hydroxyisobutyryl-CoA hydrolase 3.1.2.4 2/70 0
  4-Chlorobenzoate dehalogenase 3.8.1.7 1/7 2
  Methylmalonyl-CoA decarboxylase 4.1.1.41 1/6 2
  Cyclohexa-1,5-dienecarbonyl-CoA hydratase 4.2.1.100 1/3 0
  Enoyl-CoA hydratase 4.2.1.17 54/293 7
  Methylglutaconyl-CoA hydratase 4.2.1.18 2/5 1
  Methylglutaconyl-CoA hydratase 2 4.2.1.18 2/11 0
  Dodecenoyl-CoA delta-isomerase (mitochondrial) 5.3.3.8 2/13 1
  Dodecenoyl-CoA delta-isomerase (peroxisomal) 5.3.3.8 1/3 4
  Cyclohex-1-enecarboxyl-CoA hydratase NA 1/2 0
  1,4-Dihydroxy-2-napthoyl-CoA synthase NA 2/56 4
  2-Ketocyclohexanecarboxyl-CoA hydrolase NA 1/1 0
  Crotonobetainyl-CoA hydratase NA 2/15 0
  Delta(3,5)-delta(2,4)-dienoyl-CoA isomerase NA 3/24 1
  Feruloyl-CoA hydratase/lyase NA 5/18 0
Enolase Enolase 4.2.1.11 215/375 20
  Glucarate dehydratase 4.2.1.40 26/31 7
  Galactonate dehydratase 4.2.1.6 5/27 0
  Methylaspartate ammonia-lyase 4.3.1.2 5/8 4
  Mandelate racemase 5.1.2.2 2/3 6
  Muconate cycloisomerase 5.5.1.1 14/26 5
  Chloromuconate cycloisomerase 5.5.1.7 10/15 3
  Dipeptide epimerase NA 2/57 3
  Ortho-succinylbenzoate synthase NA 6/75 4
Haloacid dehalogenase Polynucleotide 5'-hydroxyl-kinase carboxy-terminal phosphatase 2.7.1.78 1/1 1
  Trehalose-phosphatase 3.1.3.12 1/2 0
  Histidinol-phosphatase 3.1.3.15 1/2 0
  Phosphoglycolate phosphatase 3.1.3.18 1/14 0
  Phosphoglycolate phosphatase 2 3.1.3.18 1/10 0
  Sucrose-phosphatase 3.1.3.24 5/13 0
  Phosphoserine phosphatase 3.1.3.3 2/56 9
  Deoxy-D-mannose-octulosonate 8-phosphate phosphatase 3.1.3.45 2/16 2
  5'-Nucleotidase 3.1.3.5 1/1 3
  2-Deoxyglucose-6-phosphatase 3.1.3.68 1/2 0
  Mannosyl-3-phosphoglycerate phosphatase 3.1.3.70 1/3 0
  Phosphonoacetaldehyde hydrolase 3.11.1.1 3/9 6
  P-type atpase 3.6.3.- 91/735 8
  2-Haloacid dehalogenase 3.8.1.2 7/20 8
  Beta-phosphoglucomutase 5.4.2.6 1/21 3
  Pyridoxal phosphatase NA 1/1 0
  Enolase-phosphatase NA 1/20 0
  Epoxide hydrolase N-terminal phosphatase NA 2/2 6
  Glycerol-3-phosphate phosphatase NA 1/3 0
  mdp-1 NA 1/2 2
Vicinal oxygen chelate 3,4-Dihydroxyphenylacetate 2,3-dioxygenase 1.13.11.15 4/9 6
  Catechol 2,3-dioxygenase 1.13.11.2 32/53 0
  4-Hydroxyphenylpyruvate dioxygenase 1.13.11.27 26/69 7
  2,3-Dihydroxybiphenyl dioxygenase 1.13.11.39 23/26 16
  4-Hydroxymandelate synthase 1.13.11.46 1/6 0
  Fosfomycin resistance protein FosA 2.5.1.18 2/4 6
  Glyoxalase I 4.4.1.5 12/58 9
  Methylmalonyl-CoA epimerase 5.1.99.1 5/9 2
  3-Methylcatechol 2,3-dioxygenase NA 7/10 1
  2,6-Dichlorohydroquinone dioxygenase NA 3/3 0
  2,3-Dihydroxy-p-cumate-3,4-dioxygenase NA 2/3 0
  2,2',3-Trihydroxybiphenyl dioxygenase NA 4/4 0
  1,2-Dihydroxynaphthalene dioxygenase NA 6/17 0
  3-Isopropylcatechol-2,3-dioxygenase NA 2/3 0
  2,4,5-Trihydroxytoluene oxygenase NA 2/3 0
  Fosfomycin resistance protein FosB NA 1/9 0
  Fosfomycin resistance protein FosX NA 2/4 1
  1. *Enzyme Commission Number for the primary reaction catalyzed by the family. Some families catalyze a characterized reaction for which no EC number has yet been assigned. The EC numbers for these families are designated as NA (not available).