1agm: Difference between revisions
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[[Image:1agm.gif|left|200px]] | [[Image:1agm.gif|left|200px]] | ||
'''REFINED STRUCTURE FOR THE COMPLEX OF ACARBOSE WITH GLUCOAMYLASE FROM ASPERGILLUS AWAMORI VAR. X100 TO 2.4 ANGSTROMS RESOLUTION''' | {{Structure | ||
|PDB= 1agm |SIZE=350|CAPTION= <scene name='initialview01'>1agm</scene>, resolution 2.30Å | |||
|SITE= | |||
|LIGAND= <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene> | |||
|ACTIVITY= [http://en.wikipedia.org/wiki/Glucan_1,4-alpha-glucosidase Glucan 1,4-alpha-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.3 3.2.1.3] | |||
|GENE= | |||
}} | |||
'''REFINED STRUCTURE FOR THE COMPLEX OF ACARBOSE WITH GLUCOAMYLASE FROM ASPERGILLUS AWAMORI VAR. X100 TO 2.4 ANGSTROMS RESOLUTION''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
1AGM is a [ | 1AGM is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Aspergillus_awamori Aspergillus awamori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AGM OCA]. | ||
==Reference== | ==Reference== | ||
Refined structure for the complex of acarbose with glucoamylase from Aspergillus awamori var. X100 to 2.4-A resolution., Aleshin AE, Firsov LM, Honzatko RB, J Biol Chem. 1994 Jun 3;269(22):15631-9. PMID:[http:// | Refined structure for the complex of acarbose with glucoamylase from Aspergillus awamori var. X100 to 2.4-A resolution., Aleshin AE, Firsov LM, Honzatko RB, J Biol Chem. 1994 Jun 3;269(22):15631-9. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8195212 8195212] | ||
[[Category: Aspergillus awamori]] | [[Category: Aspergillus awamori]] | ||
[[Category: Glucan 1,4-alpha-glucosidase]] | [[Category: Glucan 1,4-alpha-glucosidase]] | ||
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[[Category: hydrolase]] | [[Category: hydrolase]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 09:57:15 2008'' | ||
Revision as of 10:57, 20 March 2008
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| , resolution 2.30Å | |||||||
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| Ligands: | |||||||
| Activity: | Glucan 1,4-alpha-glucosidase, with EC number 3.2.1.3 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
REFINED STRUCTURE FOR THE COMPLEX OF ACARBOSE WITH GLUCOAMYLASE FROM ASPERGILLUS AWAMORI VAR. X100 TO 2.4 ANGSTROMS RESOLUTION
OverviewOverview
The three-dimensional structure of the pseudotetrasaccharide acarbose complexed with glucoamylase II(471) from Aspergillus awamori var. X100 has been determined to 2.4-A resolution. The model includes residues corresponding to 1-471 of glucoamylase I from Aspergillus niger, a single molecule of bound acarbose, and 535 sites for water molecules. The crystallographic R factor from refinement is 0.124, and the root-mean-squared deviation in bond distances is 0.013 A. Electron density for a single molecule of bound acarbose defines what may be the first four subsites in the binding of extended maltooligosaccharides. Hydrogen bonds between acarbose and the enzyme involve Arg54, Asp55, Arg305, carbonyl177, main chain amide121, Glu179, Glu180, and carbonyl179. Glu179 forms a salt link to the imino linkage between the first and second residues of acarbose. This buried salt link probably contributes significantly to the unusually tight association (Kd approximately 10(-12) M) of acarbose with glucoamylase. In addition, a significant hydrophobic contact between the third residue of acarbose and the side chain of Trp120 distorts the three-center angle of the glucosidic linkage between the second and third residues of acarbose. A water molecule (water500) hydrogen bonds to Glu400 and the 6-hydroxyl of the valienamine moiety of acarbose and is at an approximate distance of 3.7 A from the "anomeric" carbon of the inhibitor. The relevance of the acarbose-glucoamylase complex to the mechanism of enzymic hydrolysis of oligosaccharides is discussed.
About this StructureAbout this Structure
1AGM is a Single protein structure of sequence from Aspergillus awamori. Full crystallographic information is available from OCA.
ReferenceReference
Refined structure for the complex of acarbose with glucoamylase from Aspergillus awamori var. X100 to 2.4-A resolution., Aleshin AE, Firsov LM, Honzatko RB, J Biol Chem. 1994 Jun 3;269(22):15631-9. PMID:8195212
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