Lexicon

The entries listed below comprise a lexicon of key terms and concepts in CAZypedia. Specifically, the aim of the lexicon is to provide a precise definition of various specialized terms unique to carbohydrate chemistry [1, 2], as well as a general overview of the catalytic mechanisms of the major CAZyme classes [3, 4, 5, 6].

Lexicon entries

There are currently 33 Lexicon entries in CAZypedia.
Jump to: Curator Approved Lexicon pages • Lexicon pages under construction

A

• Absolute configuration (D/L nomenclature)
• Alpha-glucan lyases
• Anomeric centre (alpha and beta)

C

• Carbohydrate Bioengineering Meetings
• Carbohydrate-active enzymes
• Carbohydrate-binding modules
• Catalytic nucleophile
• Cellulosome
• Chitosanase
• Clans
• Cohesin-dockerin interactions
• Conformational itinerary
• Conformational nomenclature

F

• Families

G

• General acid/base
• Glycoside hydrolases
• Glycosyltransferases

I

• Inverting glycoside hydrolase mechanism

N

• Neighboring group participation

O

• Oxazolinium ion
• Oxocarbenium ion

P

• Phosphorylases
• Polysaccharide epimerases
• Polysaccharide Lyases

R

• Reaction intermediate
• Retaining glycoside hydrolase mechanism

S

• Secondary Binding Site
• Sequence-based classification
• Sub-site nomenclature
• Surface Binding Site
• Syn/anti lateral protonation

T

• Transglycosylases
• Transition state

Curator Approved

30 Lexicon entries have been Curator Approved.^(definition)

A

• Absolute configuration (D/L nomenclature)
• Alpha-glucan lyases
• Anomeric centre (alpha and beta)

C

• Carbohydrate Bioengineering Meetings
• Carbohydrate-active enzymes
• Carbohydrate-binding modules
• Catalytic nucleophile
• Cellulosome
• Clans
• Cohesin-dockerin interactions
• Conformational itinerary
• Conformational nomenclature

F

• Families

G

• General acid/base
• Glycoside hydrolases
• Glycosyltransferases

I

• Inverting glycoside hydrolase mechanism

N

• Neighboring group participation

O

• Oxazolinium ion
• Oxocarbenium ion

P

• Phosphorylases
• Polysaccharide epimerases

R

• Reaction intermediate
• Retaining glycoside hydrolase mechanism

S

• Sequence-based classification
• Sub-site nomenclature
• Surface Binding Site
• Syn/anti lateral protonation

T

• Transglycosylases
• Transition state

Under construction

1 Lexicon entries are currently under construction.^(definition)

P

• Polysaccharide Lyases

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References

1. Robert V. Stick and Spencer J. Williams. (2009) Carbohydrates. Elsevier Science.
3. McCarter JD and Withers SG. (1994). Mechanisms of enzymatic glycoside hydrolysis. Curr Opin Struct Biol. 1994;4(6):885-92. DOI:10.1016/0959-440x(94)90271-2 |
4. Vocadlo DJ and Davies GJ. (2008). Mechanistic insights into glycosidase chemistry. Curr Opin Chem Biol. 2008;12(5):539-55. DOI:10.1016/j.cbpa.2008.05.010 |

5. Sinnott, M.L. (1990) Catalytic mechanisms of enzymic glycosyl transfer. Chem. Rev. 90, 1171-1202. DOI: 10.1021/cr00105a006

6. Lairson LL, Henrissat B, Davies GJ, and Withers SG. (2008). Glycosyltransferases: structures, functions, and mechanisms. Annu Rev Biochem. 2008;77:521-55. DOI:10.1146/annurev.biochem.76.061005.092322 |