1rlt
From Proteopedia
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|PDB= 1rlt |SIZE=350|CAPTION= <scene name='initialview01'>1rlt</scene>, resolution 2.20Å | |PDB= 1rlt |SIZE=350|CAPTION= <scene name='initialview01'>1rlt</scene>, resolution 2.20Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=AF3:ALUMINUM+FLUORIDE'>AF3</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= YBIV, B0822 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]) | |GENE= YBIV, B0822 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1rlm|1RLM]], [[1rlo|1RLO]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1rlt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rlt OCA], [http://www.ebi.ac.uk/pdbsum/1rlt PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1rlt RCSB]</span> | ||
}} | }} | ||
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[[Category: Silversmith, R E.]] | [[Category: Silversmith, R E.]] | ||
[[Category: Wemmer, D E.]] | [[Category: Wemmer, D E.]] | ||
| - | [[Category: ACT]] | ||
| - | [[Category: AF3]] | ||
| - | [[Category: GOL]] | ||
| - | [[Category: MG]] | ||
[[Category: aluminum fluoride]] | [[Category: aluminum fluoride]] | ||
[[Category: had family]] | [[Category: had family]] | ||
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[[Category: transition-state analogue]] | [[Category: transition-state analogue]] | ||
| - | ''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 23:29:58 2008'' |
Revision as of 20:29, 30 March 2008
| |||||||
| , resolution 2.20Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , | ||||||
| Gene: | YBIV, B0822 (Escherichia coli) | ||||||
| Related: | 1RLM, 1RLO
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Transition State Analogue of ybiV from E. coli K12
Overview
The protein YbiV from Escherichia coli K12 MG1655 is a hypothetical protein with sequence homology to the haloacid dehalogenase (HAD) superfamily of proteins. Although numerous members of this family have been identified, the functions of few are known. Using the crystal structure, sequence analysis, and biochemical assays, we have characterized YbiV as a HAD phosphatase. The crystal structure of YbiV reveals a two-domain protein, one with the characteristic HAD hydrolase fold, the other an inserted alpha/beta fold. In an effort to understand the mechanism, we also solved and report the structures of YbiV in complex with beryllofluoride (BeF3-) and aluminum trifluoride (AlF3), which have been shown to mimic the phosphorylated intermediate and transition state for hydrolysis, respectively, in analogy to other HAD phosphatases. Analysis of the structures reveals the substrate-binding cavity, which is hydrophilic in nature. Both structure and sequence homology indicate YbiV may be a sugar phosphatase, which is supported by biochemical assays that measured the release of free phosphate on a number of sugar-like substrates. We also investigated available genomic and functional data in an effort to determine the physiological substrate.
About this Structure
1RLT is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.
Reference
YbiV from Escherichia coli K12 is a HAD phosphatase., Roberts A, Lee SY, McCullagh E, Silversmith RE, Wemmer DE, Proteins. 2005 Mar 1;58(4):790-801. PMID:15657928
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