This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


1brh

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1brh" size="450" color="white" frame="true" align="right" spinBox="true" caption="1brh, resolution 2.0&Aring;" /> '''BARNASE MUTANT WITH L...)
Current revision (06:38, 7 February 2024) (edit) (undo)
 
(18 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1brh.jpg|left|200px]]<br /><applet load="1brh" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1brh, resolution 2.0&Aring;" />
 
-
'''BARNASE MUTANT WITH LEU 14 REPLACED BY ALA'''<br />
 
-
==Overview==
+
==BARNASE MUTANT WITH LEU 14 REPLACED BY ALA==
-
We have solved the 2.0-A resolution crystal structures of four, cavity-creating Ile/Leu--&gt;Ala mutations in the hydrophobic core of barnase, and compare and contrast the structural responses to mutation with those, found for Leu--&gt;Ala mutations in T4 lysozyme. First, there are, rearrangements of structure of barnase that cause the cavities to collapse, partly, and there is an approximately linear relationship between the, changes in stability and the volume of the cavity similar to that found, for the mutants of T4 lysozyme. Second, although it is currently accepted, that hydrophobic cavities formed on the mutation of large hydrophobic side, chains to smaller ones are not occupied by water molecules, we found a, buried water molecule in the crystal structure of the barnase mutant, Ile76--&gt;Ala. A single hydrogen bond is formed between the water molecule, and a polar atom, the carbonyl oxygen of Phe7, in the hydrophobic cavity, that is formed on mutation. A survey of hydrophobic cavities produced by, similar mutations in different proteins reveals that they all contain a, proportion of polar atoms in their linings. The availability of such polar, sites has implications for understanding folding pathways because a, solvated core is presumed present in the transition state for folding and, unfolding. Notably, the hydrogen bond between the cavity-water and the, carbonyl group of Phe7 is also a marked early feature of very recent, molecular dynamics simulations of barnase denaturation [Caflisch, A., &amp;, Karplus, M. (1995) J. Mol. Biol. 252, 672-708]. It is possible that, cavities engineered into the hydrophobic cores of other proteins may, contain water molecules, even though they cannot be detected by, crystallographic analysis.
+
<StructureSection load='1brh' size='340' side='right'caption='[[1brh]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1brh]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_amyloliquefaciens Bacillus amyloliquefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BRH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BRH FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
 +
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1brh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1brh OCA], [https://pdbe.org/1brh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1brh RCSB], [https://www.ebi.ac.uk/pdbsum/1brh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1brh ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/RNBR_BACAM RNBR_BACAM] Hydrolyzes phosphodiester bonds in RNA, poly- and oligoribonucleotides resulting in 3'-nucleoside monophosphates via 2',3'-cyclophosphate intermediates.
 +
== Evolutionary Conservation ==
 +
[[Image:Consurf_key_small.gif|200px|right]]
 +
Check<jmol>
 +
<jmolCheckbox>
 +
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/br/1brh_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 +
<text>to colour the structure by Evolutionary Conservation</text>
 +
</jmolCheckbox>
 +
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1brh ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1BRH is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_amyloliquefaciens Bacillus amyloliquefaciens] with ZN as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1BRH OCA].
+
*[[Barnase 3D structures|Barnase 3D structures]]
-
 
+
*[[Ribonuclease 3D structures|Ribonuclease 3D structures]]
-
==Reference==
+
__TOC__
-
Structural and energetic responses to cavity-creating mutations in hydrophobic cores: observation of a buried water molecule and the hydrophilic nature of such hydrophobic cavities., Buckle AM, Cramer P, Fersht AR, Biochemistry. 1996 Apr 9;35(14):4298-305. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8605178 8605178]
+
</StructureSection>
[[Category: Bacillus amyloliquefaciens]]
[[Category: Bacillus amyloliquefaciens]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Buckle, A.]]
+
[[Category: Buckle A]]
-
[[Category: Cramer, P.C.]]
+
[[Category: Cramer PC]]
-
[[Category: Fersht, A.]]
+
[[Category: Fersht A]]
-
[[Category: ZN]]
+
-
[[Category: alpha/beta protein]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 11:51:32 2007''
+

Current revision

BARNASE MUTANT WITH LEU 14 REPLACED BY ALA

PDB ID 1brh

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1brh"
Personal tools