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.




4ccp

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="4ccp" size="450" color="white" frame="true" align="right" spinBox="true" caption="4ccp, resolution 2.2&Aring;" /> '''X-RAY STRUCTURES OF R...)
Current revision (10:40, 1 March 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:4ccp.gif|left|200px]]<br /><applet load="4ccp" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="4ccp, resolution 2.2&Aring;" />
 
-
'''X-RAY STRUCTURES OF RECOMBINANT YEAST CYTOCHROME C PEROXIDASE AND THREE HEME-CLEFT MUTANTS PREPARED BY SITE-DIRECTED MUTAGENESIS'''<br />
 
-
==Overview==
+
==X-RAY STRUCTURES OF RECOMBINANT YEAST CYTOCHROME C PEROXIDASE AND THREE HEME-CLEFT MUTANTS PREPARED BY SITE-DIRECTED MUTAGENESIS==
-
The 2.2-A X-ray structure for CCP(MI), a plasmid-encoded form of, Saccharomyces cerevisiae cytochrome c peroxidase (CCP) expressed in, Escherichia coli [Fishel, L.A., Villafranca, J. E., Mauro, J. M., &amp; Kraut, J. (1987) Biochemistry 26, 351-360], has been solved, together with the, structures of three specifically designed single-site heme-cleft mutants., The structure of CCP(MI) was solved by using molecular replacement, methods, since its crystals grow differently from the crystals of CCP, isolated from bakers' yeast used previously for structural solution. Small, distal-side differences between CCP(MI) and bakers' yeast CCP are, observed, presumably due to a strain-specific Thr-53----Ile substitution, in CCP(MI). A Trp-51----Phe mutant remains pentacoordinated and exhibits, only minor distal structural adjustments. The observation of a vacant, sixth coordination site in this structure differs from the results of, solution resonance Raman studies, which predict hexacoordinated high-spin, iron [Smulevich, G., Mauro, J.M., Fishel, L. A., English, A. M., Kraut, J., &amp; Spiro, T. G. (1988) Biochemistry 27, 5477-5485]. The coordination, behavior of this W51F mutant is apparently altered in the presence of a, precipitating agent, 30% 2-methyl-2,4-pentanediol. A proximal, Trp-191----Phe mutant that has substantially diminished enzyme activity, and altered magnetic properties [Mauro, J. M., Fishel, L. F., Hazzard, J., T., Meyer, T. E., Tollin, G., Cusanovich, M. A., &amp; Kraut, J. (1988), Biochemistry 27, 6243-6256] accommodates the substitution by allowing the, side chain of Phe-191, together with the segment of backbone to which it, is attached, to move toward the heme. This relatively large (ca. 1 A), local perturbation is accompanied by numerous small adjustments resulting, in a slight overall compression of the enzyme's proximal domain; however, the iron coordination sphere is essentially unchanged. This structure, rules out a major alteration in protein conformation as a reason for the, dramatically decreased activity of the W191F mutant. Changing proximal, Asp-235 to Asn results in two significant localized structural changes., First, the heme iron moves toward the porphyrin plane, and distal water, 595 now clearly resides in the iron coordination sphere at a distance of, 2.0 A. The observation of hexacoordinated iron for the D235N mutant is in, accord with previous resonance Raman results. Second, the indole side, chain of Trp-191 has flipped over as a result of the mutation; the, tryptophan N epsilon takes part in a new hydrogen bond with the backbone, carbonyl oxygen of Leu-177.(ABSTRACT TRUNCATED AT 400 WORDS)
+
<StructureSection load='4ccp' size='340' side='right'caption='[[4ccp]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[4ccp]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CCP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CCP 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]] 2.2&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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=4ccp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ccp OCA], [https://pdbe.org/4ccp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ccp RCSB], [https://www.ebi.ac.uk/pdbsum/4ccp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ccp ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/CCPR_YEAST CCPR_YEAST] Destroys radicals which are normally produced within the cells and which are toxic to biological systems.
 +
== 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/cc/4ccp_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=4ccp ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
4CCP is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] with HEM as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=4CCP OCA].
+
*[[Cytochrome c peroxidase 3D structures|Cytochrome c peroxidase 3D structures]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
X-ray structures of recombinant yeast cytochrome c peroxidase and three heme-cleft mutants prepared by site-directed mutagenesis., Wang JM, Mauro M, Edwards SL, Oatley SJ, Fishel LA, Ashford VA, Xuong NH, Kraut J, Biochemistry. 1990 Aug 7;29(31):7160-73. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=2169873 2169873]
+
[[Category: Large Structures]]
-
[[Category: Cytochrome-c peroxidase]]
+
[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
-
[[Category: Single protein]]
+
[[Category: Ashford VA]]
-
[[Category: Ashford, V.A.]]
+
[[Category: Edwards SL]]
-
[[Category: Edwards, S.L.]]
+
[[Category: Fishel LA]]
-
[[Category: Fishel, L.A.]]
+
[[Category: Kraut J]]
-
[[Category: Kraut, J.]]
+
[[Category: Mauro JM]]
-
[[Category: Mauro, J.M.]]
+
[[Category: Oatley SJ]]
-
[[Category: Oatley, S.J.]]
+
[[Category: Wang J]]
-
[[Category: Wang, J.]]
+
[[Category: Xuong N-H]]
-
[[Category: Xuong, N.H.]]
+
-
[[Category: HEM]]
+
-
[[Category: oxidoreductase (h2o2 (a))]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 19:27:34 2007''
+

Current revision

X-RAY STRUCTURES OF RECOMBINANT YEAST CYTOCHROME C PEROXIDASE AND THREE HEME-CLEFT MUTANTS PREPARED BY SITE-DIRECTED MUTAGENESIS

PDB ID 4ccp

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/4ccp"
Personal tools