List of catalytic mechanisms for hydrolyses and transfer reactions

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130 mechanisms listed.
List of hydrolysis mechanisms (72 mechanisms)
Catalysis
code
Catalysis type No. of
reaction
types
Reaction types
in RLCP
(Links)
1st Nucleophile Cofactor/residue usage SN type Base type Acid type 1st base target cofactor target Stabilizer type Modulator type Dual roles
(Acid-Base/
Nucleophile-Base)
Other features
200Pepsin-like mechanism21.13.200.966WaterEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residuewater-Catalytic residuenon-existentAcid-Base-
1.14.200.137
260Endo-polygalacturonase-like mechanism11.30.260.1001WaterEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residuewater-non-existentCatalytic residue-Modulator-assisted base; two base residues
300Exoglucanase-II-like mechanism21.30.300.2WaterEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residuewater-non-existentnon-existent--
1.40.300.2
3100C-C hydrolase-like hydrolysis mechanism11.51.3100.78WaterEnzyme/SubstrateunclearCatalytic residuenon-existentwater-Catalytic residueCatalytic residue-Scissile bond must be paralled with adjacent double bond
4920Glucoamylase-like mechanism11.30.4920.981WaterEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Catalytic residueCatalytic residue-Base/Acid modulated
4930Uracil-DNA glycosylase-like mechanism11.40.4930.61WaterEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Catalytic residuenon-existent--
4950Goose-l‚™sozyme-like mechanism11.30.4950.1WaterEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Catalytic residuenon-existentAcid-Base-
5000Chitinase-A-like mechanism11.32.5000.73WaterEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Substrate-assistedCatalytic residueAcid-Baseboth Substrate-assisted & residue stabilization
5050Cellulase9A-like mechanism21.30.5050.991WaterEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-non-existentCatalytic residue-Modulator-assisted base; two base residues
1.30.5050.993
5100beta-amylase-like mechanism11.30.5100.2WaterEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-non-existentnon-existent--
7500One zinc beta-lactamase mechanism11.13.7500.450Waterboth residue/substrate & cofactorSN2/associativeCatalytic residueCatalytic residuewaterWater/Atom adjacent to scissile bond Catalytic residuenon-existentAcid-Base-
7590PP2Calpha phosphtase-like mechanism11.15.7590.1491Waterboth residue/substrate & cofactorSN2/associativeCatalytic residueCatalytic residuewaterwaterCatalytic residuenon-existent--
7910Inositol-1-monophosphatase-like mechanism11.15.7910.1164Waterboth residue/substrate & cofactorSN2/associativeCatalytic residueSubstrate-assistedwaterWater/scissile bond/leaving groupCatalytic residuenon-existent--
8000Inorganic pyrophosphatase-like mechanism11.15.8000.2150Waterboth residue/substrate & cofactorSN2/associativeCatalytic residueSubstrate-assistedwaterwaterCatalytic residuenon-existent--
8230DNA topoisomerase-II ATP hydrolysis mechanism4
(super-
mechanism)
1.15.8230.352Waterboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentwaterAtom adjacent to scissile bond/leaving groupCatalytic residuenon-existent--
1.15.8230.361
1.15.8230.362
1.15.8230.371
8240Nuclease P1-like mechanism3
(super-
mechanism)
1.15.8240.1166Waterboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentwaterWater /leaving groupCatalytic residuenon-existent--
1.15.8240.1167
1.15.8240.2170
8300BamHI-like mechanism11.15.8300.1170Waterboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentwaterTwo water molecules (nucleophile & acid)/Atom adjacent to scissile bond/leaving groupnon-existentnon-existent-water protonation to leaving group
8310Phosphotriesterase-like mechanism11.15.8310.1250Waterboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentwaterWater/Atom adjacent to scissile bondnon-existentnon-existent--
9400Type-II restriction enzyme-like mechanism11.15.9400.1180Waterboth residue/substrate & cofactorSN2/associativeSubstrate-assistednon-existentwaterwaterCatalytic residuenon-existent-water protonation to leaving group
9500Iron(III)-zinc(II) purple acid phosphatase-like mechanism21.15.9500.540Waterboth residue/substrate & cofactorSN2/associativenon-existentCatalytic residue-waterCatalytic residuenon-existent--
1.15.9500.580
10000Two zinc beta-lactamase mechanism11.13.10000.1220Waterboth residue/substrate & cofactorSN2/associativenon-existentnon-existent-Water/atom adjacent to scissile bond/leaving groupCatalytic residuenon-existent-Water protonation to leaving group
10100DNA-topoisomerase-I/3'-5' exonuclease-like mechanism11.15.10100.1172Waterboth residue/substrate & cofactorSN2/associativenon-existentnon-existent-Water/atom adjacent to scissile bond/leaving groupnon-existentCatalytic residue--
10105Glyoxalase-II-like mechanism11.14.10105.1251Waterboth residue/substrate & cofactorSN2/associativenon-existentnon-existent-Water/Intermediate(atom adjacent to scissile bond)non-existentCatalytic residue--
10880Muramoyl-pentapeptide-carboxypeptidase-like mechanism11.13.10880.280Waterboth residue/substrate & cofactorunclearCatalytic residueCatalytic residuewaterWater/Atom adjacent to scissile bond Catalytic residueCatalytic residueAcid-Base-
10900Thermolysin-like mechanism21.13.10900.462Waterboth residue/substrate & cofactorunclearCatalytic residueCatalytic residuewaterWater/Atom adjacent to scissile bondCatalytic residuenon-existentAcid-Base-
1.13.10900.463
11100Serralysin-like mechanism4
(super-
mechanism)
1.13.11100.261Waterboth residue/substrate & cofactorunclearCatalytic residueCatalytic residuewaterwaterCatalytic residuenon-existentAcid-Base-
1.13.11100.285
1.13.11100.286
1.13.11100.561
11110Carboxypeptidase A-like mechanism11.13.11110.262Waterboth residue/substrate & cofactorunclearCatalytic residueCatalytic residuewaterwaterCatalytic residuenon-existentAcid-BaseBase-Acid-Stabilizer
11200Deoxyribonuclease-1-like mechanism11.15.11200.472Waterboth residue/substrate & cofactorunclearCatalytic residueCatalytic residuewaterwaternon-existentCatalytic residue--
11370ER-Man(9)-alpha-mannosidase-like mechanism11.30.11370.560Waterboth residue/substrate & cofactorunclearCatalytic residueCatalytic residuewaterwaternon-existentnon-existent--
11400Adamalysin-II-like mechanism21.13.11400.1261Waterboth residue/substrate & cofactorunclearCatalytic residueCatalytic residuewaterwaternon-existentnon-existentAcid-Base-
1.13.11400.460
14410Serine/threonine protein phosphatase 2B-like mechanism11.15.14410.1770Waterboth residue/substrate & cofactorSN1/dissociativeCatalytic residueCatalytic residuewaterWater/leaving groupCatalytic residueCatalytic residueAcid-Base-
29990beta-lactamase OXA10 mechanism11.13.29990.17catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueNucleophile (residue/substrate)-Catalytic residueCatalytic residue-Protonation to 1st leaving group & 2nd leaving group (nucleophile)
30000Trypsin-like mechanism22
(super-
mechanism)
1.12.30000.10catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueNucleophile (residue/substrate)-Catalytic residueCatalytic residueAcid-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile)
1.12.30000.14
1.12.30000.24
1.12.30000.26
1.12.30000.27
1.12.30000.45
1.13.30000.10
1.13.30000.12
1.13.30000.13
1.13.30000.16
1.13.30000.39
1.13.30000.41
1.13.30000.42
1.13.30000.44
1.13.30000.45
1.13.30000.46
1.13.30000.9
1.14.30000.10
1.14.30000.45
1.19.30000.10
1.19.30000.41
1.35.30000.63
30005DmpA-like mechanism21.13.30005.18catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueNucleophile (residue/substrate)-Catalytic residueCatalytic residueAcid-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile); Modulators assist base/nucleophile
1.13.30005.34
3001020S-proteasome-like mechanism21.13.30010.30catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueNucleophile (residue/substrate)-Catalytic residueCatalytic residueAcid-Base-
1.13.30010.35
30015DD-carboxypeptidase-like mechanism11.13.30015.15catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueNucleophile (residue/substrate)-Catalytic residueCatalytic residueAcid-BaseProtonation to 1st leaving group; Base-Modulator acts as 1st base; Acid-base acts as 2nd base
30100Caspase-1-like mechanism3
(super-
mechanism)
1.13.30100.19catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueNucleophile (residue/substrate)-Catalytic residuenon-existentAcid-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile)
1.13.30100.40
1.13.30100.49
30110Asparagine-synthetase-B glutamine hydrolysis mechanism11.13.30110.56catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueNucleophile (residue/substrate)-Catalytic residuenon-existentAcid-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile) through water
30120Plasminogen-like mechanism11.13.30120.22catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueNucleophile (residue/substrate)-non-existentCatalytic residueAcid-Base-
30185Penicillin acylase-like mechanism11.13.30185.55catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residuewater-Catalytic residueCatalytic residueNucleophile-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile) through water
30190Pectinesterase A-like mechanism11.12.30190.70catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residuewater-Catalytic residueCatalytic residueAcid-Base-
30200Prostatic acid phosphatase-like mechanism21.15.30200.81catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residuewater-Catalytic residuenon-existentAcid-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile)
1.15.30200.84
30800L-2-haloacid dehalogenase-like mechanism11.20.30800.980catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residuenon-existentwater-Catalytic residueCatalytic residue-Stabilizer for leaving group & stabilizer for intermediate
30810Halogenase-like mechanism21.20.30810.950catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residuenon-existentwater-Catalytic residueCatalytic residueAcid-Base-
1.20.30810.951
320003-phytase-like mechanism11.15.32000.86catalytic residueEnzyme/SubstrateSN2/associativenon-existentCatalytic residue--non-existentnon-existent--
33000Adipocyte acid phosphatase-like mechanism11.15.33000.50catalytic residueEnzyme/SubstrateunclearCatalytic residueCatalytic residuewater-Catalytic residuenon-existentAcid-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile)
33100Lysozyme-C-like mechanism11.30.33100.2catalytic residueEnzyme/SubstrateunclearCatalytic residueCatalytic residuewater-non-existentnon-existentAcid-Base-
36000alpha-amylase-like mechanism11.30.36000.3catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Catalytic residueCatalytic residueAcid-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile); Modulator-Stabilizer
36010Exoglucanase/xylanase-A-like mechanism11.30.36010.970catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Catalytic residueCatalytic residueAcid-BaseStabilization of leaving group
36020Gentiobiase-like mechanism11.30.36020.973catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Catalytic residueCatalytic residueAcid-BaseStabilization of transition-state
36030Tyrosine-protein-phosphatase-like mechanism11.15.36030.52catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Catalytic residueCatalytic residueAcid-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile)
36040beta-D-glucan-exohydrolase-like mechanism11.30.36040.982catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Catalytic residueCatalytic residueAcid-BaseNucleophile-Stabilizer
36100M-phase-inducer-phosphatase-1-like mechanism11.15.36100.51catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Catalytic residuenon-existentAcid-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile)
361104-hydroxybenzoyl-CoA thioesterase-like mechanism11.14.36110.975catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Catalytic residuenon-existentAcid-Base-
36200Lactase-like mechanism11.30.36200.973catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-non-existentCatalytic residue--
36210Sialidase-like mechanism3
(super-
mechanism)
1.30.36210.971catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-non-existentCatalytic residueAcid-BaseModulation of nucleophile
1.30.36210.990
1.31.36210.99
36211Endoglucanase-E1-like mechanism3
(super-
mechanism)
1.30.36211.1000catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-non-existentCatalytic residueAcid-BaseModulation of nucleophile & acid-base
1.30.36211.974
1.30.36211.992
36300Endo-beta-(1->3)-(1->4) glucanase-like mechanism11.30.36300.2catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-non-existentnon-existentAcid-Base-
38700Phospholipase-A1-like mechanism11.12.38700.511catalytic residueboth residue/substrate & cofactorSN2/associativeCatalytic residueCatalytic residueNucleophile (residue/substrate)Atom adjacent to scissile bond (intermediate)Catalytic residueCatalytic residueAcid-Base-
39000SER Ca(2+)-ATPase-1-like mechanism11.15.39000.353catalytic residueboth residue/substrate & cofactorSN2/associativeCatalytic residueCatalytic residuewaterNucleophile (residue/substrate)Catalytic residuenon-existentAcid-Base-
55100Myrosinase-MA1-like mechanism11.60.55100.9000catalytic residueCofactor onlyunclearSubstrate-assistednon-existentwaterwaterCatalytic residueCatalytic residue--
60000Ribonuclease-U2-like mechanism21.15.60000.82SubstrateEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueNucleophile (residue/substrate)-Catalytic residuenon-existentAcid-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile)
1.15.60000.85
60200Hevamine-A-like mechanism11.32.60200.73SubstrateEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residuewater-Catalytic residuenon-existentAcid-Base-
68200Chitobiase-like mechanism11.32.68200.2SubstrateEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residuewater-Catalytic residueCatalytic residueAcid-Base-
72000Phosphoinositide phospholipase-C-delta-1-like mechanism11.15.72000.565Substrateboth residue/substrate & cofactorSN2/associativeCatalytic residueCatalytic residueNucleophile (residue/substrate)1st nucleophile/Atom adjacent to scissile bondCatalytic residuenon-existentAcid-Base-

List of transfer reaction mechanisms (58 mechanisms)
Catalysis
code
Catalysis type No. of
reaction
types
Reaction types
in RLCP
(Links)
1st Nucleophile Cofactor/residue usage SN type Base type Acid type 1st base target cofactor target Stabilizer type Modulator type Dual roles
(Acid-Base/
Nucleophile-Base)
Other features
790Bacterial PI-PLC-like mechanism13.100.790.76acceptorEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residueCatalytic residue--
800Alcohol sulfotransferase-like mechanism13.203.800.83acceptorEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residueCatalytic residueAcid-BaseModulator-oriented stabilizer
805Dihydrolipoamide-succinyltransferase-like mechanism23.1177.805.79acceptorEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residueCatalytic residueAcid-BaseModulator-assisted base-acid
3.1177.805.87
810Modification methylase-HaeIII methyl transfer mechanism13.797.810.4110acceptorEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residueCatalytic residueAcid-BaseModulator-base deprotonation of acceptor atom & acid-base acting on the two-bonds away from acceptor atom
900Serotonin N-acetyltransferase-like mechanism13.1147.900.95acceptorEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residuenon-existent-Base activation of acceptor through proton shuttle and water
1800Methionyl-tRNA formyltransferase-like mechanism13.1144.1800.89acceptorEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residuetransferred group-Catalytic residueCatalytic residueAcid-BaseModulator-Base-assisted proton transfer through water (proton shuttle)
6000Histone acetyltransferase type B-like mechanism13.1147.6000.72acceptorEnzyme/SubstrateSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrate-Catalytic residueCatalytic residue--
6010Glucosamine-1-phosphate N-acetyltransferase-like mechanism13.1147.6010.88acceptorEnzyme/SubstrateSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrate-Catalytic residueCatalytic residue--
6090Glutaminyl-tRNA synthetase acyl transfer mechanism13.1103.6090.130acceptorEnzyme/SubstrateSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrate-Catalytic residuenon-existent-Stabilization of transferred group/leaving group
6300Modification methylase RsrI-like mechanism23.1107.6300.74acceptorEnzyme/SubstrateSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrate-non-existentnon-existent--
3.747.6300.267
6310Modification methylase-PvuII-like mechanism13.747.6310.11acceptorEnzyme/SubstrateSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrate-non-existentnon-existent-Base activation of acceptor through proton shuttle and water
20000Cap specific mRNA (nucleoside-2'-O-)-methyltransferase-like mechanism13.707.20000.110acceptorEnzyme/SubstrateSN2/associativenon-existentnon-existent--non-existentSubstrate-assisted--
29000rRNA adenine N-6-methyltransferase-like mechanism13.747.29000.21acceptorEnzyme/SubstrateunclearCatalytic residuenon-existentResidue/Acceptor in substrate-Catalytic residueCatalytic residue-Nucleophile activated by modulator (hybridization change from sp2 to sp3); Base deprotonation of acceptor group occurs in the end
37500Histone acetyltransferase HPA2-like mechanism13.1147.37500.97acceptorEnzyme/Substrateunclearnon-existentCatalytic residue--Catalytic residueCatalytic residue-Modulator deprotonation of acceptor group
45300Anhydrosialidase-like mechanism13.900.45300.71acceptorEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residueCatalytic residueAcid-BaseModulator assists bond cleavage between transferred group & leaving group
47600NMT-like mechanism13.1147.47600.180acceptorEnzyme/SubstrateSN1/dissociativeCatalytic residueSubstrate-assistedResidue/Acceptor in substrate-Catalytic residueCatalytic residue--
50000Aspartate--ammonia ligase acyl transfer mechanism13.1143.50000.64acceptorEnzyme/SubstrateSN1/dissociativeCatalytic residuenon-existentResidue/Acceptor in substrate-Catalytic residuenon-existent-Base deprotonation of acceptor group occurs in the end
50030NAD+ ADP-ribosyltransferase-like mechanism13.955.50030.967acceptorEnzyme/SubstrateSN1/dissociativeCatalytic residuenon-existentResidue/Acceptor in substrate-Catalytic residuenon-existent-Susbstrate-assisted stabilization of leaving group
699006-phosphofructokinase-like mechanism13.103.69900.359acceptorboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrateboth transferred group and leaving groupCatalytic residueCatalytic residue--
70000Thymidine kinase-like mechanism23.103.70000.350acceptorboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrateleaving group (and transferred group)Catalytic residuenon-existent--
3.103.70000.357
70020N-acylneuraminate cytidylyltransferase-like mechanism13.103.70020.355acceptorboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrateleaving groupCatalytic residuenon-existent--
70030NH(3)-dependent NAD+ synthetase acyl transfer mechanism13.1143.70030.3060acceptorboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrateboth transferred group and leaving groupCatalytic residuenon-existent--
70035Shikimate kinase-II-like mechanism6
(super-
mechanism)
3.103.70035.351acceptorboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrateboth transferred group and leaving groupCatalytic residuenon-existent--
3.103.70035.355
3.103.70035.360
3.103.70035.364
3.103.70035.366
3.103.70035.456
70200Poly(A) polymerase-alpha-like mechanism13.103.70200.1160acceptorboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrateacceptor/transferred/leaving groupsnon-existentnon-existent--
70210DNA beta-glucosyltransferase-like mechanism23.903.70210.354acceptorboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrateleaving groupnon-existentnon-existent--
3.903.70210.640
705008-amino-7-oxononanoate synthase acyl transfer mechanism13.1187.70500.5510acceptorboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrateResidue/Acceptor in substrateCatalytic residuenon-existent--
70800Adenylyl-sulfate kinase-like mechanism13.103.70800.502acceptorboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substratetransferred groupCatalytic residuenon-existent-Base activation of acceptor group through proton-shuttle
78000HPP kinase-like mechanism13.103.78000.1130acceptorboth residue/substrate & cofactorSN2/associativeSubstrate-assistednon-existentResidue/Acceptor in substrateacceptor/transferred/leaving groupsCatalytic residuenon-existent--
78010Hydroxyethylthiazole-kinase-like mechanism13.103.78010.320acceptorboth residue/substrate & cofactorSN2/associativeSubstrate-assistednon-existentResidue/Acceptor in substrateboth transferred group and leaving groupCatalytic residuenon-existent--
80000Folylpolyglutamate synthase acyl transfer mechanism13.1143.80000.1190acceptorboth residue/substrate & cofactorSN2/associativeSubstrate-assistednon-existentResidue/Acceptor in substrateboth transferred group and leaving groupnon-existentnon-existent-Base deprotonation of acceptor group in intermediate completes reaction
90000Gro-PCT-like mechanism5
(super-
mechanism)
3.103.90000.335acceptorboth residue/substrate & cofactorSN2/associativenon-existentnon-existent-leaving groupCatalytic residuenon-existent-Stabilization of transferred group/leaving group
3.113.90000.331
3.113.90000.394
3.113.90000.397
3.1143.90000.1132
90010Adenylate-kinase-like mechanism5
(super-
mechanism)
3.133.90010.334acceptorboth residue/substrate & cofactorSN2/associativenon-existentnon-existent-both transferred group and acceptor group Catalytic residuenon-existent--
3.133.90010.373
3.133.90010.389
3.133.90010.393
3.133.90010.394
90020DNA polymerase-like mechanism9
(super-
mechanism)
3.103.90020.1131acceptorboth residue/substrate & cofactorSN2/associativenon-existentnon-existent-acceptor/transferred/leaving groupsCatalytic residuenon-existent--
3.103.90020.1134
3.103.90020.1135
3.103.90020.1136
3.103.90020.1140
3.103.90020.1141
3.113.90020.1181
3.113.90020.1182
3.130.90020.2100
90021Reverse transcriptase-like mechanism13.103.90021.1120acceptorboth residue/substrate & cofactorSN2/associativenon-existentnon-existent-acceptor/transferred/leaving groupsCatalytic residuenon-existent-Stabilization of leaving group
90030Thymidylate-kinase-like mechanism14
(super-
mechanism)
3.110.90030.330acceptorboth residue/substrate & cofactorSN2/associativenon-existentnon-existent-both transferred group and leaving groupCatalytic residuenon-existent--
3.113.90030.1133
3.113.90030.2130
3.113.90030.2131
3.113.90030.330
3.123.90030.312
3.133.90030.334
3.133.90030.336
3.133.90030.381
3.133.90030.383
3.133.90030.392
3.133.90030.394
3.133.90030.395
3.133.90030.398
90280Serine hydroxymethyltransferase-like mechanism13.748.90280.5472acceptorboth residue/substrate & cofactorSN2/associativenon-existentnon-existent-both transferred group and leaving groupnon-existentCatalytic residue--
90500Catechol O-methyltransferase-like mechanism13.707.90500.391acceptorboth residue/substrate & cofactorSN2/associativenon-existentnon-existent-Residue/Acceptor in substrateCatalytic residuenon-existent--
106000PI3-kinase-p110-like mechanism13.103.106000.1163acceptorboth residue/substrate & cofactorunclearCatalytic residuenon-existentResidue/Acceptor in substrateboth transferred group and leaving groupCatalytic residuenon-existent--
120000Uracil phosphoribosyltransferase-like mechanism13.943.120000.356acceptorboth residue/substrate & cofactorunclearSubstrate-assistednon-existentResidue/Acceptor in substrateleaving groupCatalytic residueCatalytic residue--
126600Phosphorylase-kinase-like mechanism13.103.126600.1165acceptorboth residue/substrate & cofactorSN1/dissociativeCatalytic residueCatalytic residueResidue/Acceptor in substrateboth transferred group and leaving groupCatalytic residuenon-existentAcid-Base-
130000Insulin receptor-like mechanism3
(super-
mechanism)
3.103.130000.1161acceptorboth residue/substrate & cofactorSN1/dissociativeCatalytic residuenon-existentResidue/Acceptor in substrateboth transferred group and leaving groupnon-existentCatalytic residue--
3.103.130000.1162
3.103.130000.358
131000Xanthine phosphoribosyltransferase-like mechanism13.943.131000.356acceptorboth residue/substrate & cofactorSN1/dissociativeCatalytic residuenon-existentResidue/Acceptor in substrateboth transferred group and leaving groupCatalytic residuenon-existent--
163000NH(3)-dependent NAD+ synthetase phosphoryl transfer mechanism13.113.163000.1110acceptorCofactor onlySN2/associativenon-existentnon-existent-both transferred group and leaving groupnon-existentnon-existent--
219000DNA topoisomerase III autotransfer mechanism13.100.219000.96catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueboth or other site-Catalytic residueCatalytic residueAcid-BaseModulator deprotonation of acceptor group
219010DNA topoisomerase I autotransfer mechanism13.100.219010.98catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueboth or other site-Catalytic residueCatalytic residueAcid-BaseModulator deprotonation of acceptor group & Modulation of general acid
2200006-O-methylguanine-DNA methyltransferase-like mechanism13.770.220000.47catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residueCatalytic residue-No acceptor group in substrates (Nucleophile=acceptor); Single displacement; Stabilization of leaving group
220190Arylamine N-acetyltransferase-like mechanism13.1107.220190.41catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residueCatalytic residueAcid-Base-
220195Cofactor-dependent-phosphoglycerate-mutase-like mechanism23.100.220195.81catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residueCatalytic residueAcid-BaseModulator-activation of nucleophile
3.1144.220195.34
220200Glycine amidinotransferase-like mechanism13.1244.220200.43catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residueCatalytic residueAcid-BaseProtonation to 1st leaving group & 2nd leaving group (nucleophile); Deprotonation of nucleophile & acceptor group; Acid-Base-Stabilizer
220700TGT-like mechanism13.944.220700.2catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-non-existentnon-existentAcid-Base-
230000PTS system-mannose-specific IIAB-like mechanism13.105.230000.86catalytic residueEnzyme/SubstrateSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substrate-non-existentnon-existent--
250000PTS system-like mechanism3
(super-
mechanism)
3.105.250000.48catalytic residueEnzyme/SubstrateSN2/associativenon-existentnon-existent--Catalytic residuenon-existent--
3.105.250000.90
3.105.250000.91
275800Cyclodextrin-glycosyltransferase-like mechanism13.900.275800.990catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residueCatalytic residueAcid-BaseA dual role in modulation & stabilization
275890Endonuclease III glycosyl transfer mechanism13.940.275890.113catalytic residueEnzyme/SubstrateSN1/dissociativeCatalytic residueCatalytic residueResidue/Acceptor in substrate-Catalytic residuenon-existent-No acceptor group in substrates (Nucleophile=acceptor); Single displacement
290000Nucleoside deoxyribosyltransferase-like mechanism13.944.290000.2catalytic residueEnzyme/SubstrateSN1/dissociativenon-existentCatalytic residue--Catalytic residuenon-existent--
300000mRNA capping enzyme-like mechanism13.133.300000.396catalytic residueboth residue/substrate & cofactorSN2/associativeCatalytic residueCatalytic residueResidue/Acceptor in substratetransferred groupCatalytic residuenon-existentAcid-Base-
305000DNA topoisomerase II autotransfer mechanism23.100.305000.501catalytic residueboth residue/substrate & cofactorSN2/associativeCatalytic residuenon-existentResidue/Acceptor in substratetransferred groupCatalytic residuenon-existent--
3.133.305000.384
310400Succinyl-CoA synthetase phosphoryl transfer mechanism13.113.310400.385catalytic residueboth residue/substrate & cofactorSN2/associativenon-existentnon-existent-leaving groupCatalytic residueCatalytic residue--

Copyright: Nozomi Nagano, JST & CBRC-AIST
Funded by PRESTO/Japan Science and Technology Agency (JST) (December 2001 - November 2004)
Funded by Grant-in-Aid for Publication of Scientific Research Results/Japan Society for the Promotion of Science (JSPS) (April 2005 - March 2006)
Funded by Grant-in-Aid for Scientific Research (B)/Japan Society for the Promotion of Science (JSPS) (April 2005 - March 2008)
Funded by BIRD/Japan Science and Technology Agency (JST) (September 2005 - September 2008)
Funded by BIRD/Japan Science and Technology Agency (JST) (October 2007 - September 2010)
Funded by Grant-in-Aid for Publication of Scientific Research Results/Japan Society for the Promotion of Science (JSPS) (April 2011 - March 2012)
Funded by Grant-in-Aid for Publication of Scientific Research Results/Japan Society for the Promotion of Science (JSPS) (April 2012 - March 2013)
Supported by the commission for the Development of Artificial Gene Synthesis Technology for Creating Innovative Biomaterial from the Ministry of Economy, Trade and Industry (METI) (October 2012 - March 2016)
Funded by the project commissioned by the New Energy and Industrial Technology Development Organization (NEDO) (April 2016 -)