2olc
From Proteopedia
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|PDB= 2olc |SIZE=350|CAPTION= <scene name='initialview01'>2olc</scene>, resolution 2.000Å | |PDB= 2olc |SIZE=350|CAPTION= <scene name='initialview01'>2olc</scene>, resolution 2.000Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=ADP:ADENOSINE-5'-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=CPS:3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE'>CPS</scene>, <scene name='pdbligand=HO:HOLMIUM+ATOM'>HO</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/S-methyl-5-thioribose_kinase S-methyl-5-thioribose kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.100 2.7.1.100] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/S-methyl-5-thioribose_kinase S-methyl-5-thioribose kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.100 2.7.1.100] </span> |
|GENE= mtnK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis]) | |GENE= mtnK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2olc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2olc OCA], [http://www.ebi.ac.uk/pdbsum/2olc PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2olc RCSB]</span> | ||
}} | }} | ||
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[[Category: Ku, S Y.]] | [[Category: Ku, S Y.]] | ||
[[Category: Smith, G D.]] | [[Category: Smith, G D.]] | ||
| - | [[Category: ADP]] | ||
| - | [[Category: CPS]] | ||
| - | [[Category: HO]] | ||
[[Category: kinase adp-2ho complex]] | [[Category: kinase adp-2ho complex]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:19:34 2008'' |
Revision as of 01:19, 31 March 2008
| |||||||
| , resolution 2.000Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , | ||||||
| Gene: | mtnK (Bacillus subtilis) | ||||||
| Activity: | S-methyl-5-thioribose kinase, with EC number 2.7.1.100 | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of 5-methylthioribose kinase in complex with ADP-2Ho
Overview
Trivalent holmium ions were shown to isomorphously replace magnesium ions to form an ADP-2Ho complex in the nucleotide-binding domain of Bacillus subtilis 5-methylthioribose (MTR) kinase. This nucleotide-holmium complex provided sufficient phasing power to allow SAD and SIRAS phasing of this previously unknown structure using the L(III) absorption edge of holmium. The structure of ADP-2Ho reveals that the two Ho ions are approximately 4 A apart and are likely to share their ligands: the phosphoryl O atoms of ADP and a water molecule. The structure determination of MTR kinase using data collected using Cu Kalpha X-radiation was also attempted. Although the heavy-atom substructure determination was successful, interpretation of the map was more challenging. The isomorphous substitution of holmium for magnesium in the MTR kinase-nucleotide complex suggests that this could be a useful phasing tool for other metal-dependent nucleotide-containing proteins.
About this Structure
2OLC is a Single protein structure of sequence from Bacillus subtilis. Full crystallographic information is available from OCA.
Reference
ADP-2Ho as a phasing tool for nucleotide-containing proteins., Ku SY, Smith GD, Howell PL, Acta Crystallogr D Biol Crystallogr. 2007 Apr;63(Pt 4):493-9. Epub 2007, Mar 16. PMID:17372354
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