Table 1. Dissimilar enzymes catalyzing same biochemical reactions

This is an updated WWW supplement to the article by Michael Y. Galperin, D. Roland Walker and Eugene V. Koonin
"Analogous enzymes: Independent inventions in enzyme evolution", published in Genome Research, vol. 8, pp. 779-790. Free full text

This update was prepared for the paper by M.V. Omelchenko, M.Y. Galperin, Y.I. Wolf and E.V. Koonin "Analogous enzymes: a 2009 update" (manuscript in preparation).

No. EC no. Enzyme name Example PDB SCOP fold Family (Pfam) Ref. Comments
1 1.1.1.1 Alcohol dehydrogenase (NAD+) ADH1B_HUMAN 1HDY GroES-like & Rossmann-fold Zinc-contaning alcohol dehydrogenase PubMed Three distinct structural folds
1.1.1.1 Alcohol dehydrogenase (NAD+) ADH4_YEAST 2BI4 Dehydroquinate synthase-like Iron-contaning alcohol dehydrogenase PubMed
1.1.1.1 Alcohol dehydrogenase (NAD+) ADH_DROME 1MG5 Rossmann-fold Short chain dehydrogenase PubMed
2 1.1.1.2 Alcohol dehydrogenase (NADP+) ADHC_MYCBO 1YQD GroES-like & Rossmann-fold Zinc-contaning alcohol dehydrogenase PubMed Three distinct structural folds
1.1.1.2 Alcohol dehydrogenase (NADP+) AK1A1_HUMAN 2ALR TIM beta/alpha-barrel Aldo/keto reductase PubMed
1.1.1.2 Alcohol dehydrogenase (NADP+) ADH4_SCHPO 1O2D Dehydroquinate synthase-like Iron-contaning alcohol dehydrogenase PubMed
3 1.1.1.27 L-lactate dehydrogenase LDHA_HUMAN 1EZ4 Rossmann-fold & LDH C-terminal domain Lactate & malate dehydrogenases PubMed Two distinct structural folds
1.1.1.27 L-lactate dehydrogenase LDH_RALEH 1VBI L-sulfolactate dehydrogenase-like Malate/L-Lactate dehydrogenases PubMed
4 1.1.1.28 D-lactate dehydrogenase LDHD_ECOLI 2DLD Rossmann-fold & Flavodoxin-like Formate/glycerate dehydrogenases PubMed Two distinct structural folds
1.1.1.28 D-lactate dehydrogenase DLD_ECOLI 1F0X FAD-binding domain & Ferredoxin-like D-lactate dehydrogenase PubMed
5 1.1.1.37 Malate dehydrogenase MDH_HALMA 2J5K Rossmann-fold & LDH C-terminal domain L-lactate/malate dehydrogenases PubMed Two distinct structural folds
1.1.1.37 Malate dehydrogenase MDH_METFE 2G8Y L-sulfolactate dehydrogenase-like Malate/L-Lactate dehydrogenases PubMed
6 1.1.1.42 Isocitrate dehydrogenase (NADP+) IDH_ECOLI 1IDC Isocitrate/Isopropylmalate dehydrogenase-like Isocitrate/isopropylmalate dehydrogenase PubMed Same fold, same superfamily
1.1.1.42 Isocitrate dehydrogenase (NADP+) IDH_AZOVI 1ITW Isocitrate/Isopropylmalate dehydrogenase-like Monomeric isocitrate dehydrogenase PubMed
7 1.1.1.47 Glucose 1-dehydrogenase DHG_BACSU 1GCO Rossmann-fold Short chain dehydrogenase PubMed Two distinct structural folds
1.1.1.47 Glucose 1-dehydrogenase DHG_THEAC 1HDZ GroES-like Alcohol dehydrogenase GroES-like domain PubMed
8 1.1.1.50 3alpha-hydroxysteroid dehydrogenase Q9ZFY9_COMTE 1FJH Rossmann-fold Short chain dehydrogenase PubMed Two distinct structural folds
1.1.1.50 3alpha-hydroxysteroid dehydrogenase AK1C4_HUMAN 2FVL TIM beta/alpha barrel Aldo/keto reductase PubMed
9 1.1.1.62 Estradiol 17ß-dehydrogenase DHB1_HUMAN 1FDS Rossmann-fold Short chain dehydrogenase PubMed Two distinct structural folds
1.1.1.62 Estradiol 17ß-dehydrogenase DHB5_MOUSE 1Q5M TIM beta/alpha barrel Aldo/keto reductase PubMed
10 1.2.1.2 Formate dehydrogenase FDHF_ECOLI 1FDI Formate dehydrogenase/ DMSO reductase Molybdopterin-containing oxidoreductases PubMed Two distinct structural folds
1.2.1.2 Formate dehydrogenase FDH_PSESR 2NAC Rossmann-fold & Flavodoxin-like 2-hydroxyacid dehydrogenases PubMed
11 1.2.99.2 Carbon-monoxide dehydrogenase DCML_OLICO 1N60 CO dehydrogenase ISP C-domain like and others   PubMed Two distinct structural folds
1.2.99.2 Carbon-monoxide dehydrogenase COOS_RHORU 1JQK Prismane protein-like Prismane/CO dehydrogenase family PubMed
12 1.3.1.33 Protochlorophyllide reductase BCHN_RHOCA 3MIN Nitrogenase Fe-Mo fold Protochlorophyllide reductase PubMed The two forms use different electron donors
1.3.1.33 Protochlorophyllide reductase PORB_ARATH 1hdu Rossmann-fold Short chain dehydrogenase PubMed
13 1.5.1.3 Dihydrofolate reductase DYR_BACSU 1MVS Dihydrofolate reductase-like Dihydrofolate reductases PubMed Two distinct structural folds
1.5.1.3 Dihydrofolate reductase FOLM_ECOLI 3edm Rossmann-fold Short chain dehydrogenase PubMed
14 1.6.99.3 NADH dehydrogenase DHNA_BACYN 1XHC FAD/NAD(P)-binding domain NADH dehydrogenase PubMed Two distinct structural folds
1.6.99.3 NADH dehydrogenase NDUS1_HUMAN 2FUG Formate dehydrogenase/ DMSO reductase Complex I 75 kDa subunit family PubMed
15 1.10.3.1 Catechol oxidase DXA2_DROME N/A Corrected to PSMD3_DROME, 26S proteasome regulatory subunit 3 PubMed Misassignment corrected
1.10.3.1 Diphenol oxidase PPO_SPIOL 1BT1 Di-copper centre-containing domain   PubMed
16 1.11.1.5 Cytochrome-c peroxidase CCPR_PSEAE 1EB7 Cytochrome c Di-heme cytochrome c peroxidase PubMed Two distinct structural folds
1.11.1.5 Cytochrome-c peroxidase CCPR_YEAST 1EBE Heme-dependent peroxidases Peroxidase PubMed
17 1.11.1.6 Catalase CATA_HUMAN 1QQW Heme-dependent catalase Heme-dependent catalase PubMed Three distinct structural folds
1.11.1.6 Catalase CATA_ECOLI 2FXG Heme-dependent peroxidases Peroxidase PubMed
1.11.1.6 Catalase MCAT_LACPL 1JKU Ferritin-like Manganese catalase PubMed
18 1.11.1.7 Peroxidase PRDX6_MOUSE 1PRX Thioredoxin Thioredoxin PubMed Three distinct structural folds
1.11.1.7 Peroxidase PERM_HUMAN 1MYP Heme-dependent peroxidases Animal heme peroxidase PubMed
1.11.1.7 Peroxidase YCDB_ECOLI 2D3Q Ferredoxin-like Dyp-type peroxidase-like PubMed
19 1.11.1.10 Chloride peroxidase PRXC_PSEPY 1A88 Alpha/beta-hydrolases Haloperoxidase PubMed Three distinct structural folds
1.11.1.10 Chloride peroxidase PRXC_CURIN 1VNC Acid phosphatase Type 2 phosphatidic acid phosphatase (PAP2) PubMed
1.11.1.10 Chloride peroxidase PRXC_CALFU 2CPO EF Hand-like Cloroperoxidase PubMed
20 1.14.15.3 Alkane 1-monooxygenase ALKB_PSEOL 1AFR Ferritin-like (predicted) Fatty acid desaturase PubMed Two distinct structural folds
1.14.15.3 Alkane 1-monooxygenase CP4AM_HUMAN 1TQN Cytochrome P450 Cytochrome P450 PubMed
21 1.15.1.1 Superoxide dismutase SODF_ECOLI 1ISA Fe,Mn superoxide dismutase Fe,Mn superoxide dismutase PubMed Three distinct structural folds
1.15.1.1 Superoxide dismutase SODC_ECOLI 1ESO Immunoglobulin-like beta-sandwich Cu,Zn superoxide dismutase PubMed
1.15.1.1 Superoxide dismutase SODN_STRSO 1Q0D Four-helical up-and-down bundle Nickel-containing superoxide dismutase PubMed
22 1.17.4.2 Ribonucleoside-triphosphate reductase NRDD_ECOLI 1H7A PFL-like glycyl radical enzymes Anaerobic ribonucleotide reductase PubMed Same fold, same superfamily
1.17.4.2 Ribonucleoside-triphosphate reductase RTPR_LACLE 1L1L PFL-like glycyl radical enzymes B12-dependent (class II) ribonucleotide reductase PubMed
23 1.18.99.1 Hydrogenase
(now EC 1.12.2.1)		 PHNL_DESGI 1FRV HydA/Nqo6-like & HydB/Nqo4-like Ni-Fe hydrogenase PubMed Two distinct structural folds
1.18.99.1 Hydrogenase
(now EC 1.12.7.2)		 PHF1_CLOPA 1FEH Fe-only hydrogenase Iron-only hydrogenase PubMed
24 2.1.1.17 Phosphatidylethanolamine N-methyltransferase PMTA_RHOSH 3DH0 SAM-dependent methyltransferases SAM-dependent methyltransferase PubMed Two distinct structural folds
2.1.1.17 Phosphatidylethanolamine N-methyltransferase PEM1_YEAST N/A Integral membrane protein   PubMed
25 2.3.1.15 Glycerol-3-phosphate O-acyltransferase PLSB_ECOLI N/A   Acyltransferase PubMed Same catalytic domain
2.3.1.15 Glycerol-3-phosphate O-acyltransferase PLSB_CUCMO 1K30 Glycerol-3-phosphate 1-acyltransferase Glycerol-3-phosphate 1-acyltransferase PubMed
26 2.3.1.28 Chloramphenicol O-acetyltransferase CAT4_AGRTU 1XAT Single-stranded left-handed beta-helix Galactoside acetyltransferase PubMed Two distinct structural folds
2.3.1.28 Chloramphenicol O-acetyltransferase CAT3_ECOLX 3CLA CoA-dependent acyltransferases Chloramphenicol acetyltransferase PubMed
27 2.3.1.43 Phosphatidylcholine-sterol O-acyltransferase LCAT_HUMAN 1ex9 Alpha/beta hydrolase fold (predicted)   PubMed Two distinct structural folds
2.3.1.43 Phosphatidylcholine-sterol O-acyltransferase GCAT_AERHY 1vig Eukaryotic type KH-domain (predicted)   PubMed
28 2.3.2.13 Protein-glutamine gamma-glutamyltransferase F13A_HUMAN TGAS_STRMB 1FIE
1IU4		 Cysteine proteinases Transglutaminase, microbial transglutaminase PubMed Two distinct structural folds
2.3.2.13 Protein-glutamine gamma-glutamyltransferase TGL_BACSU 1ssq Single-stranded left-handed beta-helix (predicted)   PubMed
29 2.4.1.25 4-a-glucanotransferase MALQ_ECOLI 1FP8 TIM beta/alpha-barrel Glycosyl hydrolase family 77 PubMed Two distinct structural folds
2.4.1.25 4-a-glucanotransferase MALQ_THELI 1K1X 7-stranded beta/alpha barrel Glycosyl hydrolase family 57 PubMed
30 2.5.1.18 Glutathione S-transferase GST_ECOLI GSTK1_HUMAN 1A0F
1R4W		 Thioredoxin & GST C-terminal domain Glutathione S-transferase, class beta, class kappa PubMed Three distinct structural folds
2.5.1.18 Glutathione S-transferase MGST1_HUMAN 2H8A MAPEG domain MAPEG family PubMed
2.5.1.18 Glutathione S-transferase FOSA_SERMA 1NPB Glyoxalase/Bleomycin resistance protein Antibiotic resistance proteins PubMed
31 2.6.1.44 Alanine-glyoxylate aminotransferase SPYA_HUMAN 1H0C PLP-dependent transferases Cystathionine synthase-like PubMed Same fold, same superfamily
2.6.1.44 Alanine-glyoxylate aminotransferase AGT2_RAT 1Z3Z PLP-dependent transferases GABA-aminotransferase PubMed
32 2.7.1.2 Glucose kinase GLK_ECOLI 1SZ2 Ribonuclease H-like motif Glucokinase PubMed Same fold, same superfamily
2.7.1.2 Glucose kinase GLK_STRCO 1WOK Ribonuclease H-like motif ROK family PubMed
2.7.1.2 Glucose kinase HXK1_HUMAN 1DGK Ribonuclease H-like motif Hexokinase PubMed
33 2.7.1.4 Fructokinase SCRK_ECOLX 1TZ6 Ribokinase-like PfkB family carbohydrate kinase PubMed Two distinct structural folds
2.7.1.4 Fructokinase SCRK_STRMU 1XC3 Ribonuclease H-like motif Actin-like ATPase domain PubMed
34 2.7.1.11 6-Phosphofructokinase K6PF1_ECOLI 1PFK Phosphofructokinase Phosphofructokinase PubMed Two distinct structural folds
2.7.1.11 6-Phosphofructokinase K6PF2_ECOLI 3CQD Ribokinase-like PfkB family carbohydrate kinase PubMed
35 2.7.1.12 Gluconokinase GNTK_ECOLI 1KNQ P-loop NTPases Gluconate kinase PubMed Two distinct structural folds
2.7.1.12 Gluconokinase GNTK_BACSU 2ITM Ribonuclease H-like motif Glycerol kinase PubMed
36 2.7.1.107 Diacylglycerol kinase KDGL_ECOLI
N/A
 Integral membrane protein Prokaryotic diacylglycerol kinase PubMed Two distinct structural folds
2.7.1.107 Diacylglycerol kinase DGKG_HUMAN 2qv7 NAD kinase (predicted) Diacylglycerol kinase catalytic domain PubMed
37 2.7.4.3 Adenylate kinase KAD_ECOLI 1AKE P-loop NTPases Adenylate kinase PubMed Same structural family
2.7.4.3 Adenylate kinase KADA_METVO 1NKS P-loop NTPases Archaeal adenylate kinase PubMed
38 2.7.7.2 FAD synthetase FAD1_YEAST 3G5A Adenine nucleotide alpha hydrolase (predicted) PAPS reductase PubMed Same fold, different superfamilies, discussed in Huerta et al.
2.7.7.2 FAD synthetase RIBF_CORAM 1S4M Adenine nucleotide alpha hydrolase FAD synthetase PubMed
39 2.7.7.4 Sulfate adenylyltransferase CYSN_ECOLI CYSD_ECOLI 1ZUN P-loop NTPases and Adenine nucleotide alpha hydrolase   PubMed CysD and MET3 belong to the same superfamily
2.7.7.4 Sulfate adenylyltransferase MET3_YEAST 1JEE Adenine nucleotide alpha hydrolase ATP-sulfurylase PubMed
40 2.7.7.9 UTP-glucose-1-phosphate uridylyltransferase GALU_ECOLI 2E3D Nucleotide-diphospho-sugar transferases Nucleotidyl transferase PubMed Two distinct structural folds
2.7.7.9 UTP-glucose-1-phosphate uridylyltransferase UGPA_HUMAN 2icy Single-stranded left-handed beta-helix UTP-glucose-1-phosphate uridylyltransferase PubMed
41 2.7.7.12 Galactose-1-phosphate uridylyltransferase GAL7_ECOLI 1GUP HIT-like Galactose-1-phosphate uridylyltransferase 1 PubMed Same fold, same superfamily
2.7.7.12 Galactose-1-phosphate uridylyltransferase GALT_LACHE 1gup HIT-like (predicted) Galactose-1-phosphate uridylyltransferase 2 PubMed
42 2.7.7.19 Polynucleotide adenylyltransferase PCNB_ECOLI 1MIY Nucleotidyltransferase & Poly A polymerase C-terminal region-like Poly A polymerase C-terminal region-like PubMed Same fold, same superfamily (catalytic domain)
2.7.7.19 Polynucleotide adenylyltransferase PAP_HUMAN 1Q78 Nucleotidyltransferase & PAP/OAS1 substrate-binding domain & Ferredoxin-like Poly(A) polymerase, PAP, middle domain& PubMed
43 2.7.7.25 tRNA adenylyltransferase CCA_ECOLI 1VFG Nucleotidyltransferase & Poly A polymerase C-terminal region-like Bacterial CCA-adding enzyme type 1 PubMed Same fold, same superfamily (catalytic domain)
2.7.7.25 tRNA adenylyltransferase CCA_SULSH 1UET Nucleotidyltransferase & PAP/OAS1 substrate-binding domain & Ferredoxin-like Archaeal tRNA CCA-adding enzyme substrate-binding domain PubMed
44 2.7.8.8 CDP-diacylglycerol--serine O-phosphatidyltransferase PSS_ECOLI 1BYR Phospholipase D/nuclease Phospholipase D Active site motif PubMed Two distinct structural folds
2.7.8.8 CDP-diacylglycerol--serine O-phosphatidyltransferase PSS_YEAST N/A Integral membrane protein CDP-alcohol phosphatidyltransferase PubMed
45 3.1.2.15 Ubiquitin thiolesterase UBP5_HUMAN 2G43 Cysteine proteinases Ubiquitin carboxyl-terminal hydrolase PubMed Different activities: cleave polyubiquitin chains linked, respectively, to Lys-48 and Lys-63
3.1.2.15 Ubiquitin thiolesterase STALP_HUMAN 2ZNR Cytidine deaminase-like (predicted) JAB1/MPN/Mov34 metalloenzyme PubMed
46 3.1.3.48 Protein-tyrosine-phosphatase PTPA_STRCO 1D1P Phosphotyrosine protein phosphatases I-like Low-molecular-weight phosphotyrosine protein phosphatases PubMed Five distinct structural folds
3.1.3.48 Protein-tyrosine-phosphatase PTPRD_HUMAN 1LAR Phosphotyrosine protein phosphatases II Higher-molecular-weight phosphotyrosine protein phosphatases PubMed
3.1.3.48 Protein-tyrosine-phosphatase MPIP3_HUMAN 1QB0 Rhodanese/Cell cycle control phosphatase Cell cycle control phosphatase PubMed
3.1.3.48 Protein-tyrosine-phosphatase YWQE_BACSU 2ANU 7-stranded beta/alpha barrel PHP domain PubMed
3.1.3.48 Protein-tyrosine-phosphatase EYA3_MOUSE 1JUD HAD-like HAD-like hydrolase PubMed
47 3.2.1.1 Alpha-amylase AMY1_ECOLI 1EA9 TIM beta/alpha-barrel & Glycosyl hydrolase Alpha-amylase PubMed Two distinct structural folds
3.2.1.1 Alpha-amylase AMYA_PYRFU 1K1X 7-stranded beta/alpha barrel Glycosyl hydrolase family 57 PubMed
48 3.2.1.4 Cellulase GUNA_PSEFL 1UT9 Alpha/alpha toroid Glycosyl hydrolase family 9 (cellulase E) PubMed At least four distinct structural folds
3.2.1.4 Cellulase GUNA_CLOCE 1EDG TIM beta/alpha-barrel Beta-glycanases PubMed
3.2.1.4 Cellulase GUN1_STRHA 2BOD 7-stranded beta/alpha barrel Glycosyl hydrolase family 6 PubMed
3.2.1.4 Cellulase GUNM_CLOTM 2FVG Phosphorylase/hydrolase Cellulase M GenBank
3.2.1.4 Cellulase GUN_ASPAC 1KS4 Concanavalin A-like lectins/glucanases Glycosyl hydrolase family 11 (cellulase G) PubMed
3.2.1.4 Cellulase GUNE_RUMFL 1L0H Acyl carrier protein-like (predicted)   PubMed
3.2.1.4 Cellulase GUNA_PAELA 2EQD TIM beta/alpha-barrel (predicted)   PubMed
49 3.2.1.8 Endo-1,4-ß-xylanase XYNA_BUTFI 1XAS TIM beta/alpha-barrel beta-glycanases PubMed Two distinct structural folds
3.2.1.8 Endo-1,4-ß-xylanase XYNA2_CLOSR 1QH6 Concanavalin A-like lectins/ glucanases Glycosyl hydrolase family 11 (cellulase G) PubMed
50 3.2.1.11 Dextranase DEXT_STRDO N/A     PubMed Two distinct structural folds
3.2.1.11 Dextranase DEXT_PENMI 1OGM Single-stranded right-handed beta-helix Glycosyl hydrolase family 28 PubMed
51 3.2.1.14 Chitinase CHIA_SERMA 1RD6 TIM beta/alpha barrel Type II chitinase PubMed Two distinct structural folds
3.2.1.14 Chitinase CHI1_ORYSA 2BAA Lysozyme-like Family 19 glycosidase PubMed
52 3.2.1.17 Lysozyme LYS_CLOAB 1JFX TIM beta/alpha barrel 1,4-beta-N-acetylmuraminidase PubMed Two distinct structural folds
3.2.1.17 Lysozyme LYS_BPP1 1XJT Lysozyme-like Phage lysozyme PubMed
3.2.1.17 Lysozyme ACMA_LACLM 2ZYC Lysozyme-like Glycosyl hydrolase family 73 PubMed
3.2.1.17 Lysozyme LYB_BACSU N/A N/A   PubMed
53 3.2.1.20 Alpha-glucosidase MALT_CANAL 1JI1 TIM beta/alpha barrel & Glycosyl-hydrolase domain Glycosyl hydrolase family 13 PubMed Two distinct structural folds
3.2.1.20 Alpha-glucosidase AGLA_THEMA 1OBB Rossmann-fold & LDH C-terminal domain Glycosyl hydrolase family 4 PubMed
54 3.2.1.21 Beta-glucosidase BGLA_THEMA 1OIF TIM beta/alpha barrel Glycosyl hydrolase family 1 PubMed Two distinct structural folds
3.2.1.21 Beta-glucosidase BGLS_BUTFI 1OBB Rossmann-fold & LDH C-terminal domain Glycosyl hydrolase family 3 PubMed
55 3.2.1.22 Alpha-galactosidase AGAL_STRMU 1ZY9 TIM beta/alpha barrel Glycosyl hydrolase family 36 PubMed Two distinct structural folds
3.2.1.22 Alpha-galactosidase AGAL_ECOLI 1OBB Rossmann-fold & LDH C-terminal_domain Glycosyl hydrolase family 4 PubMed
56 3.2.1.23 Beta-galactosidase BGAL_ECOLI 1BGL TIM beta/alpha-barrel Glycosyl hydrolase family 2 PubMed Same fold, same superfamily
3.2.1.23 Beta-galactosidase BGAL_SULAC   TIM beta/alpha-barrel Glycosyl hydrolase family 1 PubMed
57 3.2.1.28 Alpha,alpha-trehalase TREA_ECOLI 2JG0 Alpha/alpha toroid Glycosyl hydrolase family 37 PubMed Same fold, same superfamily
3.2.1.28 Alpha,alpha-trehalase TREA_EMENI 1H54 Alpha/alpha_toroid (predicted) Glycosyl hydrolase family 65 PubMed
58 3.2.1.35 Hyaluronidase HYAL2_HUMAN 1FCU TIM beta/alpha barrel Glycosyl hydrolase family 56 PubMed Two distinct structural folds
3.2.1.35 Hyaluronidase HYLP2_BPH45 2PK1 Triple-stranded beta-helix Hyaluronidase_1 PubMed
3.2.1.35 Hyaluronidase HEMO_PIG 1HXN 4-bladed beta-propeller Hemopexin domain PubMed Most likely a mistake
59 3.2.1.37 Xylan 1,4-ß-xylosidase XYNB_BACPU 1YIF 5-bladed beta-propeller Glycosyl hydrolase family 43 PubMed Three distinct structural folds
3.2.1.37 Xylan 1,4-ß-xylosidase XYNB_THESA 1PX8 TIM beta/alpha barrel Glycosyl hydrolase family 39 PubMed
3.2.1.37 Xylan 1,4-ß-xylosidase XYLA1_BACST N/A N/A Glycosyl hydrolase family 52 PubMed
60 3.2.1.39 Glucan endo-1,3-ß-D-glucosidase E13A_ARATH 2CYG TIM beta/alpha barrel Glycosyl hydrolase family 17 PubMed Three distinct structural folds
3.2.1.39 Glucan endo-1,3-ß-D-glucosidase E13B_BACCI 1UPS Concanavalin A-like lectins/ glucanases Glycosyl hydrolase family 16 PubMed
3.2.1.39 Glucan endo-1,3-ß-D-glucosidase E13B_CELCE N/A N/A Glycosyl hydrolase family 64 PubMed
61 3.2.1.55 Alpha-N-arabinofuranosidase ABFA_STRLI 2C7F TIM beta/alpha barrel Glycosyl hydrolase family 51 PubMed Three distinct structural folds
3.2.1.55 Alpha-N-arabinofuranosidase XYLB_BUTFI 1YRZ Concanavalin A-like lectins/glucanases & 5-bladed beta-propeller Glycosyl hydrolase family 43 PubMed
3.2.1.55 Alpha-N-arabinofuranosidase XYNC_PSEFL N/A 5-bladed beta-propeller (predicted) Glycosyl hydrolase family 62 PubMed
62 3.2.1.58 Glucan 1,3-ß-glucosidase EXG_CANAL 2PB1 TIM beta/alpha barrel Glycosyl hydrolase family 5 (cellulase A) PubMed Two distinct structural folds
3.2.1.58 Glucan 1,3-ß-glucosidase EXG1_COCCA 3EQO Single-stranded right-handed beta-helix Glycosyl hydrolase family 55 PubMed
63 3.2.1.73 Licheninase GUB_NICPL 2CYG TIM beta/alpha barrel Glycosyl hydrolase family 17 PubMed Three distinct structural folds
3.2.1.73 Licheninase GUB_BACSU 1GBG Concanavalin A-like lectins/glucanases Glycosyl hydrolase family 16 PubMed
3.2.1.73 Licheninase GUB_BACCI 1V5C Alpha/alpha toroid Glycosyl hydrolase family 8 (cellulase D) PubMed
64 3.2.1.78 Mannan endo-1,4-ß-mannosidase MANA_PSEFL 1GW1 TIM beta/alpha barrel Glycosyl hydrolase family 26 PubMed Same fold, same superfamily
3.2.1.78 Mannan endo-1,4-ß-mannosidase MANB_CALSA 1BQC TIM beta/alpha barrel Glycosyl hydrolase family 5 PubMed
65 3.2.1.81 ß-agarase AGAR_STRCO 1QOX TIM beta/alpha barrel Glycosyl hydrolase family 1 PubMed Predicted two distinct structural folds
3.2.1.81 ß-agarase AGAA_VIBS7 N/A N/A Glycosyl hydrolase family 50 PubMed
3.2.1.81 ß-agarase AGAR_ALTAT N/A N/A Glycosyl hydrolase family 86 PubMed
66 3.2.1.86 6-phospho-ß-glucosidase BGLB_ECOLI 1QOX TIM beta/alpha barrel Glycosyl hydrolase family 1 PubMed Two distinct structural folds
3.2.1.86 6-phospho-ß-glucosidase CHBF_ECOLI 1S6Y Rossmann-fold & LDH C-terminal domain Glycosyl hydrolase family 4 PubMed
67 3.2.2.21 DNA-3-methyladenine glycosylase 3MG2_ECOLI 1MPG DNA-glycosylase & TBP-like   PubMed Two distinct structural folds
3.2.2.21 DNA-3-methyladenine glycosylase 3MG_HUMAN 1F4R FMT C-terminal domain-like   PubMed
68 3.5.1.1 Asparaginase ASPG1_YEAST 1HFW Glutaminase/Asparaginase Glutaminase/Asparaginase PubMed At least two distinct structural folds
3.5.1.1 Asparaginase ASPG_HUMAN 1APY Ntn_hydrolase-like (Glycosyl)asparaginase PubMed
3.5.1.1 Asparaginase Q9RFN5_RHIET N/A N/A L-asparaginase II PubMed
69 3.5.1.4 Amidase AMID_PSECL 1OCK Amidase signature Amidase PubMed Two distinct structural folds
3.5.1.4 Amidase AMIE_PSEAE 2UXY Carbon-nitrogen hydrolase Carbon-nitrogen hydrolase PubMed
70 3.5.1.11 Penicillin acylase PAC_ECOLX 1PNL Ntn hydrolase-like Penicillin amidase PubMed Same fold, same supefamily
3.5.1.11 Penicillin acylase PAC_BACSH 2PVA Ntn hydrolase-like Linear amide C-N hydrolases PubMed
71 3.5.1.28 N-acetylmuramoyl-L-alanine amidase AMPD_ECOLI 1J3G N-acetylmuramoyl-L-alanine amidase-like N-acetylmuramoyl-L-alanine amidase-like PubMed Two distinct structural folds
3.5.1.28 N-acetylmuramoyl-L-alanine amidase AMIB_ECOLI 1JWQ Phosphorylase/hydrolase-like Zn-dependent exopeptidases PubMed
72 3.5.2.6 ß-Lactamase AMPC_ECOLI 2BLS Beta-lactamase/ transpeptidase-like Beta-lactamase PubMed Two distinct structural folds
3.5.2.6 ß-Lactamase BLAB_BACCE 1BC2 Metallo-hydrolase/ oxidoreductase Zn metallo-beta-lactamase PubMed
73 3.6.1.1 Inorganic diphosphatase IPYR_ARATH 1TWL OB-fold Pyrophosphatase PubMed Four distinct structural folds
3.6.1.1 Inorganic diphosphatase AVP1_ARATH N/A Integral membrane protein Inorganic H+ pyrophosphatase PubMed
3.6.1.1 Inorganic diphosphatase PPAC_BACSU 1WPM DHH phosphoesterases DHH hydrolase PubMed
3.6.1.1 Inorganic diphosphatase PPAX_BACSU 2HDO HAD-like HAD-like hydrolase PubMed
74 3.6.1.5 Apyrase APY_AEDAE 1HP1 5-nucleotidase & Metallo-dependent phosphatases 5'-nucleotidase PubMed Three distinct structural folds
3.6.1.5 Apyrase ENTP3_HUMAN 1T6C Ribonuclease H-like Actin-like ATPase domain PubMed
3.6.1.5 Apyrase APY_CIMLE 2H2N 5-bladed beta-propeller Apyrase PubMed
75 3.6.1.11 Exopolyphosphatase PPX_ECOLI 1U6Z HD-domain/PDEase-like & Ribonuclease H-like Ppx associated domain PubMed Two distinct structural folds
3.6.1.11 Exopolyphosphatase PPX1_YEAST 1K20 DHH phosphoesterases Mn-dependent inorganic pyrophosphatase PubMed
76 3.6.1.17 Bis(5'-nucleosyl) -tetraphosphatase (asymmetrical) APH1_SCHPO 1FHI HIT-like HIT family PubMed Three distinct structural folds
3.6.1.17 Bis(5'-nucleosyl) -tetraphosphatase (asymmetrical) AP4A_HUMAN 1XSA Nudix MutT-like PubMed
3.6.1.17 Bis(5'-nucleosyl) -tetraphosphatase (asymmetrical) PRPE_BACSU 1G5B Metallo-dependent phosphatases Protein serine/threonine phosphatase PubMed
77 3.8.1.2 2-Haloalkanoate dehalogenase HAD1_PSEUC 1QQ5 HAD-like HAD-like hydrolase PubMed Different stereospecificity
3.8.1.9 2-Haloalkanoate dehalogenase HADD_PSEPU 3BJX N/A Haloacid dehalogenase DehI PubMed
78 3.8.1.3 Haloacetate dehalogenase DEH1_MORSB 1G5F Alpha/beta-hydrolases Alpha/beta hydrolase_1 PubMed Two distinct structural folds
3.8.1.3 Haloacetate dehalogenase DEH2_MORSB 1JUD HAD-like HAD-like hydrolase PubMed
79 4.1.1.17 Ornithine decarboxylase DCOS_ECOLI 1ORD PLP-dependent transferase Orn/Lys/Arg decarboxylase, class I PubMed Two distinct structural folds
4.1.1.17 Ornithine decarboxylase DCOR_HUMAN 1D7K TIM beta/alpha barrel Orn/Lys/Arg decarboxylase class II PubMed
80 4.1.1.19 Arginine decarboxylase ADIA_ECOLI 2VYC PLP-dependent transferase Orn/Lys/Arg decarboxylase, class I 8383109, 19298070 Three distinct structural folds
4.1.1.19 Arginine decarboxylase SPEA_ECOLI 1TWI TIM beta/alpha barrel Orn/Lys/Arg decarboxylase class II PubMed
4.1.1.19 Arginine decarboxylase PDAD_METJA 1N2M Pyruvoyl-dependent histidine and arginine decarboxylases Pyruvoyl-dependent ArgDC PubMed
81 4.1.1.22 Histidine decarboxylase DCHS_ENTAE 1JS3 PLP-dependent transferase Pyridoxal-dependent decarboxylase PubMed Two distinct structural folds
4.1.1.22 Histidine decarboxylase DCHS_LACS3 1HQ6 Pyruvoyl-dependent histidine and arginine decarboxylases Histidine decarboxylase PubMed
82 4.1.1.50 S-adenosylmethionine decarboxylase SPED_ECOLI 1TLU S-adenosylmethionine decarboxylase SAM decarboxylase PubMed Same fold, same superfamily
4.1.1.50 S-adenosylmethionine decarboxylase DCAM_HUMAN 1MSV S-adenosylmethionine decarboxylase SAM decarboxylase PubMed
83 4.1.2.13 Fructose 1,6-bisphosphate aldolase ALF_ECOLI 1DOS TIM beta/alpha barrel Fructose-bisphosphate aldolase class II PubMed Same fold, same superfamily
4.1.2.13 Fructose 1,6-bisphosphate aldolase ALDOA_HUMAN 1ALD TIM beta/alpha barrel Fructose-bisphosphate aldolase class I PubMed
84 4.1.2.15 Phospho-2-keto-3-deoxyheptonate aldolase AROG_ECOLI 1GG1 TIM beta/alpha barrel DAHP synthetase I PubMed Same fold, same superfamily
4.1.2.15 Phospho-2-keto-3-deoxyheptonate aldolase AROF_STRCO 2B7O TIM beta/alpha barrel Class-II DAHP synthetase PubMed
85 4.1.2.40 Tagatose 1,6-bisphosphate aldolase KBAY_ECOLI 1GVF TIM beta/alpha barrel Fructose-bisphosphate aldolase class II PubMed Same fold, same superfamily
4.1.2.40 Tagatose 1,6-bisphosphate aldolase LACD_LACLA 1TO3 TIM beta/alpha barrel DeoC/LacD family aldolase PubMed
86 4.2.1.1 Carbonate dehydratase CYNT_ECOLI 1EKJ Resolvase-like beta-carbonic anhydrase PubMed Three distinct structural folds
4.2.1.1 Carbonate dehydratase CAH1_HUMAN 2FOY Carbonic anhydrase   PubMed
4.2.1.1 Carbonate dehydratase CAH_METTE 1QQ0 Single-stranded left-handed beta-helix gamma-carbonic anhydrase-like PubMed
87 4.2.1.2 Fumarate hydratase FUMA_ECOLI 2ISB The swivelling beta/beta/alpha domain Class I fumarase family PubMed Two distinct structural folds
4.2.1.2 Fumarate hydratase FUMC_ECOLI 1FUO L-aspartase-like L-aspartase/fumarase PubMed
88 4.2.1.10 3-dehydroquinate dehydratase AROQ_ACTPL 1UQR Flavodoxin-like Type II 3-dehydroquinate dehydratase PubMed Two distinct structural folds
4.2.1.10 3-dehydroquinate dehydratase AROD_ECOLI 1QFE TIM beta/alpha barrel Class I aldolase PubMed
89 4.2.1.13 L-serine ammonia-lyase (now EC 4.3.1.17) SDHL_ECOLI 2IQQ FwdE/GAPDH domain FeS-dependent L-serine dehydratase PubMed Two distinct structural folds
4.2.1.13 L-serine ammonia-lyase (now EC 4.3.1.17) SDHL_HUMAN 1PWH Tryptophan synthase beta subunit-like PLP-dependent enzymes DeoC/LacD family aldolase PubMed
90 4.2.1.51 Prephenate dehydratase PHEA_ECOLI 2QMW Periplasmic binding protein-like II Prephenate dehydratase PubMed Same fold, same superfamily
4.2.1.51 Prephenate dehydratase PHEC_PSEAE 1XT8 Periplasmic binding protein-like II Bacterial extracellular solute-binding proteins PubMed
91 4.2.2.2 Pectate lyase PEL3_ERWCA 1PLU Single-stranded right-handed beta-helix Pectate lyase C PubMed Two distinct structural folds, different families
4.2.2.2 Pectate lyase PELP_PECCC 2V8K Alpha/alpha toroid Periplasmic pectate lyase PubMed
4.2.2.2 Pectate lyase PELL_ERWCH 1RU4 Single-stranded right-handed beta-helix Polysaccharide lyase family 9 PubMed
4.2.2.2 Pectate lyase Q47471_ERWCA 3B4N Single-stranded right-handed beta-helix Pectate lyase (transeliminase) PubMed
92 4.2.2.3 Poly(ß-D-mannuronate) lyase ALGL_PSEFL 1QAZ Alpha/alpha toroid Chondroitin AC/alginate lyase PubMed Three distinct structural folds
4.2.2.3 Poly(ß-D-mannuronate) lyase ALYA_KLEPN 1VAV Concanavalin A-like lectins/glucanases Concanavalin A-like lectins/glucanases PubMed
4.2.2.3 Poly(ß-D-mannuronate) lyase ALYP_PSESO 1OFM Single-stranded right-handed beta-helix   PubMed
93 4.2.99.18 DNA-(apurinic or apyrimidinic site) lyase END3_ECOLI 2ABK DNA-glycosylase Endonuclease III PubMed Four distinct structural folds
4.2.99.18 DNA-(apurinic or apyrimidinic site) lyase APEX1_HUMAN 1E9N DNase I-like DNase I-like PubMed
4.2.99.18 DNA-(apurinic or apyrimidinic site) lyase APN1_YEAST 1QTW TIM beta/alpha barrel Endonuclease IV PubMed
4.2.99.18 DNA-(apurinic or apyrimidinic site) lyase FPG_ECOLI 1K82 MutM-like DNA repair proteins MutM-like DNA repair proteins PubMed
94 4.6.1.1 Adenylate cyclase CYAA_ECOLI N/A N/A Adenylate_cyclase class I PubMed Four distinct structural folds
4.6.1.1 Adenylate cyclase CYAA_BORPE 1PKO Immunoglobulin-like beta-sandwich Anthrax toxin LF (class II AC) PubMed
4.6.1.1 Adenylate cyclase CYA1_HUMAN 1CS4 Ferredoxin-like Adenylate/guanylate cyclase (class III AC) PubMed
4.6.1.1 Adenylate cyclase O69199_AERHY 2FJT CYTH-like phosphatases CYTH domain (class IV AC) PubMed
95 5.2.1.8 Peptidylprolyl isomerase PPIA_ECOLI 1CLH Cyclophilin-like Cyclophilin PubMed Two distinct structural folds
5.2.1.8 Peptidylprolyl isomerase FKBA_ECOLI 1Q6H FKBP-like FKBP-type PPIase PubMed
96 5.3.1.8 Mannose-6-phosphate isomerase MANA_STRMU 1QWR Double-stranded beta-helix RmlC-like cupins PubMed Three distinct structural folds
5.3.1.8 Mannose-6-phosphate isomerase MANA_RHIME 2GZ6 Six-hairpin glycosidases GlcNAc 2-epimerase PubMed
5.3.1.8 Mannose-6-phosphate isomerase PGMI_SULAC 1TZB SIS domain SIS_domain PubMed
97 5.4.2.1 Phosphoglycerate mutase GPMA_ECOLI 1E59 Phosphoglycerate mutase Phosphoglycerate mutase PubMed Two distinct structural folds
5.4.2.1 Phosphoglycerate mutase GPMI_PSESM 1EJJ Alkaline phosphatase-like 2,3-BPG-independent phosphoglycerate mutase PubMed
98 5.4.2.8 Phosphomannomutase RFBK_SALTY 1K2Y Phosphoglucomutase Phosphoglucomutase PubMed Two distinct structural folds
5.4.2.8 Phosphomannomutase PMM1_HUMAN 2FUC HAD-like Eukaryotic phosphomannomutase PubMed
99 5.4.99.5 Chorismate mutase CHMU_ENTAG 2AO2 Chorismate mutase II Secreted chorismate mutase-like PubMed Two distinct structural folds
5.4.99.5 Chorismate mutase CHMU_BACSU 1COM Bacillus chorismate mutase-like Chorismate mutase PubMed
100 5.5.1.1 Muconate cycloisomerase CATB_PSEPU 1MUC TIM beta/alpha barrel & Enolase N-terminal domain D-glucarate dehydratase-like PubMed Two distinct structural folds
5.5.1.1 Muconate cycloisomerase MLE_TRICU 1JOF 7-bladed beta-propeller WD40/YVTN repeat PubMed
101 5.99.1.2 DNA topoisomerase TOP1_ECOLI 1CY1 Prokaryotic type I DNA topoisomerase Prokaryotic type I DNA topoisomerase PubMed Two distinct structural folds
5.99.1.2 DNA topoisomerase TOP1_HUMAN 1LPQ DNA-breaking-rejoining enzymes Eukaryotic DNA topoisomerase I PubMed
102 6.1.1.6 Lysine-tRNA ligase SYK1_ECOLI 1BBU Class II aaRS and biotin synthetases Class II aminoacyl-tRNA synthetase PubMed Two distinct structural folds
6.1.1.6 Lysine-tRNA ligase SYK_PYRHO 1IRX Adenine nucleotide alpha hydrolase Class I lysyl-tRNA synthetase PubMed
103 6.1.1.14 Glycine-tRNA ligase SYGA_ECOLI SYGB_ECOLI 1J5W Class II aaRS and biotin synthetases Glycyl-tRNA synthetase, alpha and beta subunits PubMed Same fold, same superfamily
6.1.1.14 Glycine-tRNA ligase SYG_HUMAN 1ATI Class II aaRS and biotin synthetases Class-II aminoacyl-tRNA synthetase PubMed
104 6.3.2.2 Glutamate-cysteine ligase GSH1_ECOLI 1VA6 Glutamine synthetase/ guanido kinase Glutamate-cysteine ligase PubMed Predicted same fold
6.3.2.2 Glutamate-cysteine ligase GSH1_HUMAN N/A Glutamine synthetase (predicted) Glutamate-cysteine ligase PubMed
105 6.3.2.3 Glutathione synthase GSHB_ECOLI 1GSA PreATP-grasp domain & ATP-grasp Prokaryotic glutathione synthetase PubMed Same fold, same superfamily, circular permutation
6.3.2.3 Glutathione synthase GSHB_HUMAN 2HGS PreATP-grasp domain & ATP-grasp Eukaryotic glutathione synthetase PubMed