2v2b
From Proteopedia
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|PDB= 2v2b |SIZE=350|CAPTION= <scene name='initialview01'>2v2b</scene>, resolution 1.50Å | |PDB= 2v2b |SIZE=350|CAPTION= <scene name='initialview01'>2v2b</scene>, resolution 1.50Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/Rhamnulose-1-phosphate_aldolase Rhamnulose-1-phosphate aldolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.19 4.1.2.19] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Rhamnulose-1-phosphate_aldolase Rhamnulose-1-phosphate aldolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.19 4.1.2.19] </span> |
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[2uyu|2UYU]], [[2v9n|2V9N]], [[2v29|2V29]], [[2uyv|2UYV]], [[2v9g|2V9G]], [[2v9e|2V9E]], [[1gt7|1GT7]], [[2v9l|2V9L]], [[2v2a|2V2A]], [[2v9m|2V9M]], [[2v9f|2V9F]], [[1ojr|1OJR]], [[2v9o|2V9O]], [[2v9i|2V9I]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2v2b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v2b OCA], [http://www.ebi.ac.uk/pdbsum/2v2b PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2v2b RCSB]</span> | ||
}} | }} | ||
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[[Category: Grueninger, D.]] | [[Category: Grueninger, D.]] | ||
[[Category: Schulz, G E.]] | [[Category: Schulz, G E.]] | ||
| - | [[Category: ACT]] | ||
| - | [[Category: PGR]] | ||
| - | [[Category: PO4]] | ||
| - | [[Category: ZN]] | ||
[[Category: 2-ketose degradation]] | [[Category: 2-ketose degradation]] | ||
[[Category: aldolase]] | [[Category: aldolase]] | ||
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[[Category: zinc enzyme]] | [[Category: zinc enzyme]] | ||
| - | ''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 05:07:48 2008'' |
Revision as of 02:07, 31 March 2008
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| , resolution 1.50Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , | ||||||
| Activity: | Rhamnulose-1-phosphate aldolase, with EC number 4.1.2.19 | ||||||
| Related: | 2UYU, 2V9N, 2V29, 2UYV, 2V9G, 2V9E, 1GT7, 2V9L, 2V2A, 2V9M, 2V9F, 1OJR, 2V9O, 2V9I
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| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
L-RHAMNULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI (MUTANT E117S-E192A-K248G-R253A-E254A)
Overview
The enzyme l-rhamnulose-1-phosphate aldolase from Escherichia coli participates in the degradation pathway of l-rhamnose, a ubiquitous deoxy-hexose. It is a homotetramer of the rare C4-symmetric type with N-terminal domains protruding like antennas from the main body. A mobility analysis of the enzyme gave rise to the hypothesis that an anisotropic thermal antenna motion may support the catalysis (Kroemer et al., Biochemistry 42, 10560, 2003). We checked this hypothesis by generating four single mutants and one disulfide bridge that were designed to reduce the mobility of the antenna domain without disturbing the chain-fold or the active center. The catalytic rates of the mutants revealed activity reductions that correlated well with the expected antenna fixation. Among these mutants, K15W was crystallized, structurally elucidated, and used as a guide for modeling the others. The structure confirmed the design because the mutation introduced a tight nonpolar contact to a neighboring subunit that fixed the antenna but did not affect the main chain. The fixation was confirmed by a comparison of the anisotropic B-factors describing the mobility of the domains. It turned out that the distinctly anisotropic mobility of the wild-type antenna domain has become isotropic in K15W, in agreement with the design. We suggest that, like K15W, the other mutations also followed the design, validating the correlation between antenna mobility and activity. This correlation suggests that the domain mobility facilitates the reaction.
About this Structure
2V2B is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.
Reference
Antenna domain mobility and enzymatic reaction of L-rhamnulose-1-phosphate aldolase., Grueninger D, Schulz GE, Biochemistry. 2008 Jan 15;47(2):607-14. Epub 2007 Dec 18. PMID:18085797
Page seeded by OCA on Mon Mar 31 05:07:48 2008
Categories: Escherichia coli | Rhamnulose-1-phosphate aldolase | Single protein | Grueninger, D. | Schulz, G E. | 2-ketose degradation | Aldolase | Bacterial l-rhamnose metabolism | Class ii | Cleavage of l-rhamnulose-1-phosphate to dihydroxyacetone phosphate | Domain motion for mechanical support of catalysis | Lyase | Metal-binding | Protein engineering | Protein-protein interface | Rare sugar | Rhamnose metabolism | Surface mutation | Zinc | Zinc enzyme
