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.


1joa

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:04, 3 April 2024) (edit) (undo)
 
(18 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1joa.gif|left|200px]]<br />
 
-
<applet load="1joa" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1joa, resolution 2.8&Aring;" />
 
-
'''NADH PEROXIDASE WITH CYSTEINE-SULFENIC ACID'''<br />
 
-
==Overview==
+
==NADH PEROXIDASE WITH CYSTEINE-SULFENIC ACID==
-
In order to obtain the crystal structure of the flavoprotein NADH, peroxidase with its native Cys42-sulfenic acid redox center, a strategy, combining reduced exposure of crystals to ambient oxygen and data, collection at -160 degrees C was applied. The structure of the native, enzyme to 2.8 A resolution is described; these results conclusively, establish the existence of the Cys42-sulfenic acid as the functional, non-flavin redox center of the peroxidase and provide the first structure, for any naturally occurring protein-sulfenic acid. The Cys42-sulfenic acid, atoms C alpha-C beta-S gamma-O roughly define a planar arrangement which, is stacked parallel to the si face of the FAD isoalloxazine and positions, the sulfenyl oxygen atom only 3.3 A from FAD-C4A. His10-N epsilon 2, contributes a hydrogen bond to the sulfenic acid oxygen, at a distance of, 3.2 A. Although one oxygen atom (OX1) of the non-native Cys42-sulfonic, acid derivative identified in the earlier wild-type peroxidase structure, was taken to represent the native Cys42-sulfenic acid oxygen [Stehle, T., Ahmed, S. A., Claiborne, A., &amp; Schulz, G. E. (1991) J. Mol. Biol. 221, 1325-1344], this structure shows that the sulfenic acid oxygen does not, occupy this position, nor is it hydrogen-bonded to Cys42-N as was OX1., Comparison of the native Cys42-sulfenic acid structure with that of, two-electron reduced glutathione reductase provides an insight into the, sulfenic acid FAD charge-transfer interaction observed with both wild-type, and His10 mutant peroxidases. A model of the E.NADH intermediate recently, observed in stopped-flow analyses of the enzyme [Crane, E. J., III, Parsonage, D., Poole, L. B., &amp; Claiborne, A. (1995) Biochemistry 34, 14114-14124] has also been generated to assist in analyzing the chemical, mechanism of sulfenic acid reduction.
+
<StructureSection load='1joa' size='340' side='right'caption='[[1joa]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1joa]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterococcus_faecalis Enterococcus faecalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JOA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JOA 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]] 2.8&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CSO:S-HYDROXYCYSTEINE'>CSO</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</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=1joa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1joa OCA], [https://pdbe.org/1joa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1joa RCSB], [https://www.ebi.ac.uk/pdbsum/1joa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1joa ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/NAPE_ENTFA NAPE_ENTFA] Peroxidase whose active site is a redox-active cysteine-sulfenic acid.
 +
== 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/jo/1joa_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=1joa ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1JOA is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Enterococcus_faecalis Enterococcus faecalis] with FAD as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/NADH_peroxidase NADH peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.1 1.11.1.1] Structure known Active Site: ACT. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1JOA OCA].
+
*[[NADH peroxidase|NADH peroxidase]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
Structure of the native cysteine-sulfenic acid redox center of enterococcal NADH peroxidase refined at 2.8 A resolution., Yeh JI, Claiborne A, Hol WG, Biochemistry. 1996 Aug 6;35(31):9951-7. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8756456 8756456]
+
[[Category: Enterococcus faecalis]]
[[Category: Enterococcus faecalis]]
-
[[Category: NADH peroxidase]]
+
[[Category: Large Structures]]
-
[[Category: Single protein]]
+
[[Category: Claiborne AC]]
-
[[Category: Claiborne, A.C.]]
+
[[Category: Hol WGJ]]
-
[[Category: Hol, W.G.J.]]
+
[[Category: Yeh JI]]
-
[[Category: Yeh, J.I.]]
+
-
[[Category: FAD]]
+
-
[[Category: cysteine-sulfenic acid]]
+
-
[[Category: oxidoreductase]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 5 13:59:22 2007''
+

Current revision

NADH PEROXIDASE WITH CYSTEINE-SULFENIC ACID

PDB ID 1joa

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/1joa"
Personal tools