CAZypedia celebrates the life of Senior Curator Emeritus Harry Gilbert, a true giant in the field, who passed away in September 2025.
CAZypedia needs your help!
We have many unassigned pages in need of Authors and Responsible Curators. See a page that's out-of-date and just needs a touch-up? - You are also welcome to become a CAZypedian. Here's how.
Scientists at all career stages, including students, are welcome to contribute.
Learn more about CAZypedia's misson here and in this article. Totally new to the CAZy classification? Read this first.
Difference between revisions of "Talk:Glycoside Hydrolase Family 3"
Harry Brumer (talk | contribs) |
Harry Brumer (talk | contribs) |
||
| Line 10: | Line 10: | ||
<biblio> | <biblio> | ||
| − | #Thongpoo2012 pmid=23201198 // Subfamily 4, | + | #Thongpoo2012 pmid=23201198 // Subfamily 4, 3-D homology model, mutagenesis, kinetic analysis, pH profile, azide rescue |
| − | #Bacik2012 pmid=23177201 // | + | #Bacik2012 pmid=23177201 // 1-domain Nag, experimental structure, ligand complex, mobile loop bearing acid/base |
| − | #Litzinger2010 pmid=20826810 // | + | #Litzinger2010 pmid=20826810 // 2-domain Nag, strucuture, mutagenesis, kinetic analysis, pH profile, azide rescue unsuccessful |
| − | #Pozzo2010 pmid=20138890 // Subfamily 5 | + | #Pozzo2010 pmid=20138890 // Subfamily 5, experimental structure, complexes, reduced Km for mutant with PNP-Glc |
| − | #Yoshida2010 pmid=20662765 // Subfamily 5 | + | #Yoshida2010 pmid=20662765 // Subfamily 5, experimental structure, product complex |
| − | #Li2006 pmid=16717412 // | + | #Li2006 pmid=16717412 //Nag - relevant? Appears to be mis-identification. |
| − | #Paal2004 pmid=14561218 //Subfamily 5 | + | #Paal2004 pmid=14561218 //Subfamily 5, kinetic analysis, pH profile, azide rescue |
| − | #Chir2002 pmid=11978178 // Subfamily 5 | + | #Chir2002 pmid=11978178 // Subfamily 5, Glu-473 labelled by N-bromoacetyl-beta-d-glucosylamine |
| − | #Li2002 pmid=11851422 // | + | #Li2002 pmid=11851422 //Subfamily 5, kinetic analysis, pH profile, azide rescue |
#Vocadlo2000 pmid=10625486 | #Vocadlo2000 pmid=10625486 | ||
#Dan2000 pmid=10671536 | #Dan2000 pmid=10671536 | ||
Revision as of 18:15, 14 December 2012
Litzinger et al. (2010) suggested that the acid/base catalyst of 2 domain NagZs (and also 1 domain NagZs) is an Asp-His dyad in the (β/α)8 domain. pmid: 20826810.
Update to Catalytic Residues section needed?
Given the growing amount of information about the identity of the GH3 catalytic residues - and in particular the acid/base - in different enzymes/subfamilies, I wonder if a update of this section isn't needed?
Here are some key acid/base ID references [1, 2, 3, 4, 5, 6, 7, 8, 9], one of which also confirms the catalytic nucleophile [7]. These references are nucleophile-specific studies [10, 11]:
References
Error fetching PMID 23177201:
Error fetching PMID 20138890:
Error fetching PMID 20662765:
Error fetching PMID 16717412:
Error fetching PMID 14561218:
Error fetching PMID 11978178:
Error fetching PMID 11851422:
Error fetching PMID 10625486:
Error fetching PMID 10671536:
- Error fetching PMID 23201198:
Subfamily 4, 3-D homology model, mutagenesis, kinetic analysis, pH profile, azide rescue
- Error fetching PMID 23177201:
1-domain Nag, experimental structure, ligand complex, mobile loop bearing acid/base
- Litzinger S, Fischer S, Polzer P, Diederichs K, Welte W, and Mayer C. (2010). Structural and kinetic analysis of Bacillus subtilis N-acetylglucosaminidase reveals a unique Asp-His dyad mechanism. J Biol Chem. 2010;285(46):35675-84. DOI:10.1074/jbc.M110.131037 |
2-domain Nag, strucuture, mutagenesis, kinetic analysis, pH profile, azide rescue unsuccessful
- Error fetching PMID 20138890:
Subfamily 5, experimental structure, complexes, reduced Km for mutant with PNP-Glc
- Error fetching PMID 20662765:
Subfamily 5, experimental structure, product complex
- Error fetching PMID 16717412:
Nag - relevant? Appears to be mis-identification.
- Error fetching PMID 14561218:
Subfamily 5, kinetic analysis, pH profile, azide rescue
- Error fetching PMID 11978178:
Subfamily 5, Glu-473 labelled by N-bromoacetyl-beta-d-glucosylamine
- Error fetching PMID 11851422:
Subfamily 5, kinetic analysis, pH profile, azide rescue
- Error fetching PMID 10625486:
- Error fetching PMID 10671536:
Harry Brumer (talk) 17:55, 14 December 2012 (PST)