1d3f: Difference between revisions

Revision as of 13:24, 2 May 2008

N-TERMINAL DOMAIN CORE METHIONINE MUTATION

OverviewOverview

Using heavily methionine-substituted T4 lysozyme as an example, it is shown how the addition or deletion of a small number of methionines can simplify the location of selenium sites for use in MAD phasing. By comparing the X-ray data for a large number of singly substituted lysozymes, it is shown that the optimal amino acid to be substituted by methionine is leucine, followed, in order of preference, by phenylalanine, isoleucine and valine. The identification of leucine as the first choice agrees with the ranking suggested by the Dayhoff mutation probability, i.e. by the frequency of amino-acid substitutions in the sequences of related proteins. The ranking of the second and subsequent choices, however, differ significantly.

About this StructureAbout this Structure

1D3F is a Single protein structure of sequence from Enterobacteria phage t4. Full crystallographic information is available from OCA.

ReferenceReference

Use of differentially substituted selenomethionine proteins in X-ray structure determination., Gassner NC, Matthews BW, Acta Crystallogr D Biol Crystallogr. 1999 Dec;55(Pt 12):1967-70. PMID:10666571 Page seeded by OCA on Fri May 2 13:24:28 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
 [[Image:1d3f.jpg|left|200px]]
- {{Structure
+<!--
-|PDB= 1d3f |SIZE=350|CAPTION= <scene name='initialview01'>1d3f</scene>, resolution 2.05&Aring;
+The line below this paragraph, containing "STRUCTURE_1d3f", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HED:2-HYDROXYETHYL+DISULFIDE'>HED</scene>
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span>
+or leave the SCENE parameter empty for the default display.
-|GENE= GENE E ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 Enterobacteria phage T4])
+-->
-|DOMAIN=
+{{STRUCTURE_1d3f|  PDB=1d3f  |  SCENE=  }}
-|RELATEDENTRY=[[1ctw|1CTW]], [[1cu0|1CU0]], [[1cu2|1CU2]], [[1cu3|1CU3]], [[1cu6|1CU6]], [[1cu5|1CU5]], [[1cup|1CUP]], [[1cuq|1CUQ]], [[1cv0|1CV0]], [[1cv1|1CV1]], [[1qsq|1QSQ]], [[1cv4|1CV4]], [[1cv3|1CV3]], [[1cv5|1CV5]], [[1cv6|1CV6]], [[1cvk|1CVK]], [[1d2w|1D2W]], [[1d2y|1D2Y]], [[1d3f|1D3F]], [[1d3j|1D3J]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1d3f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d3f OCA], [http://www.ebi.ac.uk/pdbsum/1d3f PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1d3f RCSB]</span>
-}}
 '''N-TERMINAL DOMAIN CORE METHIONINE MUTATION'''
@@ Line 28: / Line 25: @@
 [[Category: Gassner, N C.]]
 [[Category: Matthews, B W.]]
-[[Category: hydrolase (o-glycosyl)]]
+[[Category: Methionine core mutant]]
-[[Category: methionine core mutant]]
+[[Category: Protein engineering]]
-[[Category: protein engineering]]
+[[Category: Protein folding]]
-[[Category: protein folding]]
+[[Category: T4 lysozyme]]
-[[Category: t4 lysozyme]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 13:24:28 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 19:33:55 2008''