2o9b: Difference between revisions
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|PDB= 2o9b |SIZE=350|CAPTION= <scene name='initialview01'>2o9b</scene>, resolution 2.15Å | |PDB= 2o9b |SIZE=350|CAPTION= <scene name='initialview01'>2o9b</scene>, resolution 2.15Å | ||
|SITE= | |SITE= | ||
|LIGAND= <scene name='pdbligand=LBV:3-{(2Z)-2-{[3-(2-CARBOXYETHYL)-5-{(Z)-[(3E,4S)-3-ETHYLIDENE-4-METHYL-5-OXOPYRROLIDIN-2-YLIDENE]METHYL}-4-METHYL-1H-PYRROL-2-YL]METHYLENE}-4-METHYL-5-[(Z)-(3-METHYL-5-OXO-4-VINYL-1,5-DIHYDRO-2H-PYRROL-2-YLIDENE)METHYL]-2H-PYRROL-3-YL}PROPANOIC ACID'>LBV</scene> | |LIGAND= <scene name='pdbligand=LBV:3-{(2Z)-2-{[3-(2-CARBOXYETHYL)-5-{(Z)-[(3E,4S)-3-ETHYLIDENE-4-METHYL-5-OXOPYRROLIDIN-2-YLIDENE]METHYL}-4-METHYL-1H-PYRROL-2-YL]METHYLENE}-4-METHYL-5-[(Z)-(3-METHYL-5-OXO-4-VINYL-1,5-DIHYDRO-2H-PYRROL-2-YLIDENE)METHYL]-2H-PYRROL-3-YL}PROPANOIC+ACID'>LBV</scene> | ||
|ACTIVITY= [http://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] </span> | ||
|GENE= bphP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1299 Deinococcus radiodurans]) | |GENE= bphP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1299 Deinococcus radiodurans]) | ||
|DOMAIN= | |||
|RELATEDENTRY=[[1ztu|1ZTU]] | |||
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2o9b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o9b OCA], [http://www.ebi.ac.uk/pdbsum/2o9b PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2o9b RCSB]</span> | |||
}} | }} | ||
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[[Category: Vierstra, R D.]] | [[Category: Vierstra, R D.]] | ||
[[Category: Wagner, J R.]] | [[Category: Wagner, J R.]] | ||
[[Category: biliverdin]] | [[Category: biliverdin]] | ||
[[Category: figure-of-eight knot]] | [[Category: figure-of-eight knot]] | ||
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[[Category: phytochromobilin]] | [[Category: phytochromobilin]] | ||
''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 04:14:34 2008'' | ||
Revision as of 04:14, 31 March 2008
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| , resolution 2.15Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | |||||||
| Gene: | bphP (Deinococcus radiodurans) | ||||||
| Activity: | Histidine kinase, with EC number 2.7.13.3 | ||||||
| Related: | 1ZTU
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal Structure of Bacteriophytochrome chromophore binding domain
OverviewOverview
Phytochromes are red/far red light photochromic photoreceptors that direct many photosensory behaviors in the bacterial, fungal, and plant kingdoms. They consist of an N-terminal domain that covalently binds a bilin chromophore and a C-terminal region that transmits the light signal, often through a histidine kinase relay. Using x-ray crystallography, we recently solved the first three-dimensional structure of a phytochrome, using the chromophore-binding domain of Deinococcus radiodurans bacterial phytochrome assembled with its chromophore, biliverdin IXalpha. Now, by engineering the crystallization interface, we have achieved a significantly higher resolution model. This 1.45A resolution structure helps identify an extensive buried surface between crystal symmetry mates that may promote dimerization in vivo. It also reveals that upon ligation of the C3(2) carbon of biliverdin to Cys(24), the chromophore A-ring assumes a chiral center at C2, thus becoming 2(R),3(E)-phytochromobilin, a chemistry more similar to that proposed for the attached chromophores of cyanobacterial and plant phytochromes than previously appreciated. The evolution of bacterial phytochromes to those found in cyanobacteria and higher plants must have involved greater fitness using more reduced bilins, such as phycocyanobilin, combined with a switch of the attachment site from a cysteine near the N terminus to one conserved within the cGMP phosphodiesterase/adenyl cyclase/FhlA domain. From analysis of site-directed mutants in the D. radiodurans phytochrome, we show that this bilin preference was partially driven by the change in binding site, which ultimately may have helped photosynthetic organisms optimize shade detection. Collectively, these three-dimensional structural results better clarify bilin/protein interactions and help explain how higher plant phytochromes evolved from prokaryotic progenitors.
About this StructureAbout this Structure
2O9B is a Single protein structure of sequence from Deinococcus radiodurans. Full crystallographic information is available from OCA.
ReferenceReference
High resolution structure of Deinococcus bacteriophytochrome yields new insights into phytochrome architecture and evolution., Wagner JR, Zhang J, Brunzelle JS, Vierstra RD, Forest KT, J Biol Chem. 2007 Apr 20;282(16):12298-309. Epub 2007 Feb 23. PMID:17322301
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