1rk2: Difference between revisions
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[[Image:1rk2.jpg|left|200px]] | [[Image:1rk2.jpg|left|200px]] | ||
'''E. COLI RIBOKINASE COMPLEXED WITH RIBOSE AND ADP, SOLVED IN SPACE GROUP P212121''' | {{Structure | ||
|PDB= 1rk2 |SIZE=350|CAPTION= <scene name='initialview01'>1rk2</scene>, resolution 2.25Å | |||
|SITE= | |||
|LIGAND= <scene name='pdbligand=RIB:RIBOSE'>RIB</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene> and <scene name='pdbligand=ADP:ADENOSINE-5'-DIPHOSPHATE'>ADP</scene> | |||
|ACTIVITY= [http://en.wikipedia.org/wiki/Ribokinase Ribokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.15 2.7.1.15] | |||
|GENE= RBSK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]) | |||
}} | |||
'''E. COLI RIBOKINASE COMPLEXED WITH RIBOSE AND ADP, SOLVED IN SPACE GROUP P212121''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
1RK2 is a [ | 1RK2 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RK2 OCA]. | ||
==Reference== | ==Reference== | ||
Induced fit on sugar binding activates ribokinase., Sigrell JA, Cameron AD, Mowbray SL, J Mol Biol. 1999 Jul 30;290(5):1009-18. PMID:[http:// | Induced fit on sugar binding activates ribokinase., Sigrell JA, Cameron AD, Mowbray SL, J Mol Biol. 1999 Jul 30;290(5):1009-18. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10438599 10438599] | ||
[[Category: Escherichia coli]] | [[Category: Escherichia coli]] | ||
[[Category: Ribokinase]] | [[Category: Ribokinase]] | ||
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[[Category: RIB]] | [[Category: RIB]] | ||
[[Category: carbohydrate kinase]] | [[Category: carbohydrate kinase]] | ||
[[Category: domain re- | [[Category: domain re-arrangement]] | ||
[[Category: induced fit]] | [[Category: induced fit]] | ||
[[Category: ribose]] | [[Category: ribose]] | ||
[[Category: transferase]] | [[Category: transferase]] | ||
''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 13:52:39 2008'' | ||
Revision as of 14:52, 20 March 2008
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| , resolution 2.25Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , and | ||||||
| Gene: | RBSK (Escherichia coli) | ||||||
| Activity: | Ribokinase, with EC number 2.7.1.15 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
E. COLI RIBOKINASE COMPLEXED WITH RIBOSE AND ADP, SOLVED IN SPACE GROUP P212121
OverviewOverview
The enzyme ribokinase phosphorylates ribose at O5* as the first step in its metabolism. The original X-ray structure of Escherichia coli ribokinase represented the ternary complex including ribose and ADP. Structures are presented here for the apo enzyme, as well as the ribose-bound state and four new ternary complex forms. Combined, the structures suggest that large and small conformational changes play critical roles in the function of this kinase. An initially open apo form can allow entry of the ribose substrate. After ribose binding, the active site lid is observed in a closed conformation, with the sugar trapped underneath. This closure and associated changes in the protein appear to assist ribokinase in recognition of the co-substrate ATP as the next step. Binding of the nucleotide brings about further, less dramatic adjustments in the enzyme structure. Additional small movements are almost certainly required during the phosphoryltransfer reaction. Evidence is presented that some types of movements of the lid are allowed in the ternary complex, which may be critical to the creation and breakdown of the transition state. Similar events are likely to take place during catalysis by other related carbohydrate kinases, including adenosine kinase.
About this StructureAbout this Structure
1RK2 is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.
ReferenceReference
Induced fit on sugar binding activates ribokinase., Sigrell JA, Cameron AD, Mowbray SL, J Mol Biol. 1999 Jul 30;290(5):1009-18. PMID:10438599
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