1odi: Difference between revisions
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[[Image:1odi.gif|left|200px]] | [[Image:1odi.gif|left|200px]] | ||
'''PURINE NUCLEOSIDE PHOSPHORYLASE FROM THERMUS THERMOPHILUS''' | {{Structure | ||
|PDB= 1odi |SIZE=350|CAPTION= <scene name='initialview01'>1odi</scene>, resolution 2.40Å | |||
|SITE= <scene name='pdbsite=AC1:Adn+Binding+Site+For+Chain+F'>AC1</scene> | |||
|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene> and <scene name='pdbligand=ADN:ADENOSINE'>ADN</scene> | |||
|ACTIVITY= [http://en.wikipedia.org/wiki/S-methyl-5-thioadenosine_phosphorylase S-methyl-5-thioadenosine phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.28 2.4.2.28] | |||
|GENE= | |||
}} | |||
'''PURINE NUCLEOSIDE PHOSPHORYLASE FROM THERMUS THERMOPHILUS''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
1ODI is a [ | 1ODI is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ODI OCA]. | ||
==Reference== | ==Reference== | ||
Crystal structure of purine nucleoside phosphorylase from Thermus thermophilus., Tahirov TH, Inagaki E, Ohshima N, Kitao T, Kuroishi C, Ukita Y, Takio K, Kobayashi M, Kuramitsu S, Yokoyama S, Miyano M, J Mol Biol. 2004 Apr 9;337(5):1149-60. PMID:[http:// | Crystal structure of purine nucleoside phosphorylase from Thermus thermophilus., Tahirov TH, Inagaki E, Ohshima N, Kitao T, Kuroishi C, Ukita Y, Takio K, Kobayashi M, Kuramitsu S, Yokoyama S, Miyano M, J Mol Biol. 2004 Apr 9;337(5):1149-60. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15046984 15046984] | ||
[[Category: S-methyl-5-thioadenosine phosphorylase]] | [[Category: S-methyl-5-thioadenosine phosphorylase]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
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[[Category: riken structural genomics/proteomics initiative]] | [[Category: riken structural genomics/proteomics initiative]] | ||
[[Category: rsgi]] | [[Category: rsgi]] | ||
[[Category: structural | [[Category: structural genomic]] | ||
''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 13:09:22 2008'' | ||
Revision as of 14:09, 20 March 2008
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| , resolution 2.40Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | |||||||
| Ligands: | and | ||||||
| Activity: | S-methyl-5-thioadenosine phosphorylase, with EC number 2.4.2.28 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
PURINE NUCLEOSIDE PHOSPHORYLASE FROM THERMUS THERMOPHILUS
OverviewOverview
The purine nucleoside phosphorylase from Thermus thermophilus crystallized in space group P4(3)2(1)2 with the unit cell dimensions a = 131.9 A and c = 169.9 A and one biologically active hexamer in the asymmetric unit. The structure was solved by the molecular replacement method and refined at a 1.9A resolution to an r(free) value of 20.8%. The crystals of the binary complex with sulfate ion and ternary complexes with sulfate and adenosine or guanosine were also prepared and their crystal structures were refined at 2.1A, 2.4A and 2.4A, respectively. The overall structure of the T.thermophilus enzyme is similar to the structures of hexameric enzymes from Escherichia coli and Sulfolobus solfataricus, but significant differences are observed in the purine base recognition site. A base recognizing aspartic acid, which is conserved among the hexameric purine nucleoside phosphorylases, is Asn204 in the T.thermophilus enzyme, which is reminiscent of the base recognizing asparagine in trimeric purine nucleoside phosphorylases. Isothermal titration calorimetry measurements indicate that both adenosine and guanosine bind the enzyme with nearly similar affinity. However, the functional assays show that as in trimeric PNPs, only the guanosine is a true substrate of the T.thermophilus enzyme. In the case of adenosine recognition, the Asn204 forms hydrogen bonds with N6 and N7 of the base. While in the case of guanosine recognition, the Asn204 is slightly shifted together with the beta(9)alpha(7) loop and predisposed to hydrogen bond formation with O6 of the base in the transition state. The obtained experimental data suggest that the catalytic properties of the T.thermophilus enzyme are reminiscent of the trimeric rather than hexameric purine nucleoside phosphorylases.
About this StructureAbout this Structure
1ODI is a Single protein structure of sequence from Thermus thermophilus. Full crystallographic information is available from OCA.
ReferenceReference
Crystal structure of purine nucleoside phosphorylase from Thermus thermophilus., Tahirov TH, Inagaki E, Ohshima N, Kitao T, Kuroishi C, Ukita Y, Takio K, Kobayashi M, Kuramitsu S, Yokoyama S, Miyano M, J Mol Biol. 2004 Apr 9;337(5):1149-60. PMID:15046984
Page seeded by OCA on Thu Mar 20 13:09:22 2008
Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)
OCA- Pages with broken file links
- S-methyl-5-thioadenosine phosphorylase
- Single protein
- Thermus thermophilus
- Inagaki, E.
- Miyano, M.
- RSGI, RIKEN Structural Genomics/Proteomics Initiative.
- Tahirov, T H.
- ADN
- SO4
- Adenosine
- Alpha-beta protein
- Nucleoside phosphorylase
- Riken structural genomics/proteomics initiative
- Rsgi
- Structural genomic