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1m5w
From Proteopedia
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|PDB= 1m5w |SIZE=350|CAPTION= <scene name='initialview01'>1m5w</scene>, resolution 1.96Å | |PDB= 1m5w |SIZE=350|CAPTION= <scene name='initialview01'>1m5w</scene>, resolution 1.96Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=DXP:1-DEOXY-D-XYLULOSE-5-PHOSPHATE'>DXP</scene> | + | |LIGAND= <scene name='pdbligand=DXP:1-DEOXY-D-XYLULOSE-5-PHOSPHATE'>DXP</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= PDXJ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]) | |GENE= PDXJ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1ho1|1HO1]], [[1ho4|1HO4]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1m5w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1m5w OCA], [http://www.ebi.ac.uk/pdbsum/1m5w PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1m5w RCSB]</span> | ||
}} | }} | ||
| Line 26: | Line 29: | ||
[[Category: Pohl, E.]] | [[Category: Pohl, E.]] | ||
[[Category: Yeh, J I.]] | [[Category: Yeh, J I.]] | ||
| - | [[Category: DXP]] | ||
| - | [[Category: PO4]] | ||
[[Category: multi-binding state]] | [[Category: multi-binding state]] | ||
[[Category: protein-substrate complex]] | [[Category: protein-substrate complex]] | ||
[[Category: tim barrel]] | [[Category: tim barrel]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:11:47 2008'' |
Revision as of 19:11, 30 March 2008
| |||||||
| , resolution 1.96Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , | ||||||
| Gene: | PDXJ (Escherichia coli) | ||||||
| Related: | 1HO1, 1HO4
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
1.96 A Crystal Structure of Pyridoxine 5'-Phosphate Synthase in Complex with 1-deoxy-D-xylulose phosphate
Overview
We report the 1.96 A crystal structure of pyridoxine 5'-phosphate synthase (PdxJ) in complex with 1-deoxy-D-xylulose phosphate (dXP). The octameric enzyme possesses eight distinct binding sites, and three different binding states are observed. The observation of these three states supports a mechanism in which precise conformational changes of a peptide loop and groups of active site residues modulate binding and specificity. The differences in protein conformation when one or two substrates are bound can be correlated with a condensation mechanism that leads productively to the formation of pyridoxine 5'-phosphate (PNP). "Snapshots" of the progression from the apo form to a singly occupied "transitional binding" state and, subsequently, to a fully occupied, reactive state are revealed and indicate how the enzyme structure can be related to a plausible catalytic mechanism and, moreover, to favorable energetics of reaction.
About this Structure
1M5W is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.
Reference
Multistate binding in pyridoxine 5'-phosphate synthase: 1.96 A crystal structure in complex with 1-deoxy-D-xylulose phosphate., Yeh JI, Du S, Pohl E, Cane DE, Biochemistry. 2002 Oct 1;41(39):11649-57. PMID:12269807
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