3b5l
From Proteopedia
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|PDB= 3b5l |SIZE=350|CAPTION= <scene name='initialview01'>3b5l</scene>, resolution 1.800Å | |PDB= 3b5l |SIZE=350|CAPTION= <scene name='initialview01'>3b5l</scene>, resolution 1.800Å | ||
|SITE= <scene name='pdbsite=AC1:So4+Binding+Site+For+Residue+B+195'>AC1</scene> and <scene name='pdbsite=AC2:So4+Binding+Site+For+Residue+B+196'>AC2</scene> | |SITE= <scene name='pdbsite=AC1:So4+Binding+Site+For+Residue+B+195'>AC1</scene> and <scene name='pdbsite=AC2:So4+Binding+Site+For+Residue+B+196'>AC2</scene> | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= xyn11A ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=103836 Thermopolyspora flexuosa]) | |GENE= xyn11A ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=103836 Thermopolyspora flexuosa]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b5l OCA], [http://www.ebi.ac.uk/pdbsum/3b5l PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=3b5l RCSB]</span> | ||
}} | }} | ||
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[[Category: Doyle, L A.]] | [[Category: Doyle, L A.]] | ||
[[Category: Stoddard, B L.]] | [[Category: Stoddard, B L.]] | ||
| - | [[Category: NH4]] | ||
| - | [[Category: SO4]] | ||
[[Category: alpha-beta]] | [[Category: alpha-beta]] | ||
[[Category: computationally designed]] | [[Category: computationally designed]] | ||
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[[Category: xylan degradation]] | [[Category: xylan degradation]] | ||
| - | ''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 05:23:12 2008'' |
Revision as of 02:23, 31 March 2008
| |||||||
| , resolution 1.800Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | and | ||||||
| Ligands: | , | ||||||
| Gene: | xyn11A (Thermopolyspora flexuosa) | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal Structure of a Novel Engineered Retroaldolase: RA-61
Overview
The creation of enzymes capable of catalyzing any desired chemical reaction is a grand challenge for computational protein design. Using new algorithms that rely on hashing techniques to construct active sites for multistep reactions, we designed retro-aldolases that use four different catalytic motifs to catalyze the breaking of a carbon-carbon bond in a nonnatural substrate. Of the 72 designs that were experimentally characterized, 32, spanning a range of protein folds, had detectable retro-aldolase activity. Designs that used an explicit water molecule to mediate proton shuffling were significantly more successful, with rate accelerations of up to four orders of magnitude and multiple turnovers, than those involving charged side-chain networks. The atomic accuracy of the design process was confirmed by the x-ray crystal structure of active designs embedded in two protein scaffolds, both of which were nearly superimposable on the design model.
About this Structure
3B5L is a Single protein structure of sequence from Thermopolyspora flexuosa. Full crystallographic information is available from OCA.
Reference
De novo computational design of retro-aldol enzymes., Jiang L, Althoff EA, Clemente FR, Doyle L, Rothlisberger D, Zanghellini A, Gallaher JL, Betker JL, Tanaka F, Barbas CF 3rd, Hilvert D, Houk KN, Stoddard BL, Baker D, Science. 2008 Mar 7;319(5868):1387-91. PMID:18323453
Page seeded by OCA on Mon Mar 31 05:23:12 2008
