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.


1knc

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:26, 14 February 2024) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1knc.gif|left|200px]]
 
-
{{Structure
+
==Structure of AhpD from Mycobacterium tuberculosis, a novel enzyme with thioredoxin-like activity.==
-
|PDB= 1knc |SIZE=350|CAPTION= <scene name='initialview01'>1knc</scene>, resolution 2.00&Aring;
+
<StructureSection load='1knc' size='340' side='right'caption='[[1knc]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
+
<table><tr><td colspan='2'>[[1knc]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KNC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KNC FirstGlance]. <br>
-
|ACTIVITY=
+
</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>
-
|GENE=
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-
|DOMAIN=
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1knc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1knc OCA], [https://pdbe.org/1knc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1knc RCSB], [https://www.ebi.ac.uk/pdbsum/1knc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1knc ProSAT]</span></td></tr>
-
|RELATEDENTRY=
+
</table>
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1knc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1knc OCA], [http://www.ebi.ac.uk/pdbsum/1knc PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1knc RCSB]</span>
+
== Function ==
-
}}
+
[https://www.uniprot.org/uniprot/AHPD_MYCTU AHPD_MYCTU] Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity.<ref>PMID:10766746</ref> <ref>PMID:11799204</ref> <ref>PMID:12761216</ref> Together with AhpC, DlaT and Lpd, constitutes an NADH-dependent peroxidase active against hydrogen and alkyl peroxides as well as serving as a peroxynitrite reductase, thus protecting the bacterium against reactive nitrogen intermediates and oxidative stress generated by the host immune system.<ref>PMID:10766746</ref> <ref>PMID:11799204</ref> <ref>PMID:12761216</ref>
-
 
+
== Evolutionary Conservation ==
-
'''Structure of AhpD from Mycobacterium tuberculosis, a novel enzyme with thioredoxin-like activity.'''
+
[[Image:Consurf_key_small.gif|200px|right]]
-
 
+
Check<jmol>
-
 
+
<jmolCheckbox>
-
==Overview==
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kn/1knc_consurf.spt"</scriptWhenChecked>
-
Mycobacterium tuberculosis (Mtb) mounts a stubborn defense against oxidative and nitrosative components of the immune response. Dihydrolipoamide dehydrogenase (Lpd) and dihydrolipoamide succinyltransferase (SucB) are components of alpha-ketoacid dehydrogenase complexes that are central to intermediary metabolism. We find that Lpd and SucB support Mtb's antioxidant defense. The peroxiredoxin alkyl hydroperoxide reductase (AhpC) is linked to Lpd and SucB by an adaptor protein, AhpD. The 2.0 angstrom AhpD crystal structure reveals a thioredoxin-like active site that is responsive to lipoamide. We propose that Lpd, SucB (the only lipoyl protein detected in Mtb), AhpD, and AhpC together constitute a nicotinamide adenine dinucleotide (reduced)-dependent peroxidase and peroxynitrite reductase. AhpD thus represents a class of thioredoxin-like molecules that enables an antioxidant defense.
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
 
+
<text>to colour the structure by Evolutionary Conservation</text>
-
==About this Structure==
+
</jmolCheckbox>
-
1KNC is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KNC OCA].
+
</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=1knc ConSurf].
-
 
+
<div style="clear:both"></div>
-
==Reference==
+
== References ==
-
Metabolic enzymes of mycobacteria linked to antioxidant defense by a thioredoxin-like protein., Bryk R, Lima CD, Erdjument-Bromage H, Tempst P, Nathan C, Science. 2002 Feb 8;295(5557):1073-7. Epub 2002 Jan 17. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11799204 11799204]
+
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Mycobacterium tuberculosis]]
[[Category: Mycobacterium tuberculosis]]
-
[[Category: Single protein]]
+
[[Category: Bryk R]]
-
[[Category: Bryk, R.]]
+
[[Category: Erdjument-Bromage H]]
-
[[Category: Erdjument-Bromage, H.]]
+
[[Category: Lima CD]]
-
[[Category: Lima, C D.]]
+
[[Category: Nathan C]]
-
[[Category: Nathan, C.]]
+
[[Category: Tempst P]]
-
[[Category: Tempst, P.]]
+
-
[[Category: ahpd]]
+
-
[[Category: disulfide]]
+
-
[[Category: lpd]]
+
-
[[Category: peroxiredoxin]]
+
-
[[Category: redox]]
+
-
[[Category: thioredoxin]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:50:54 2008''
+

Current revision

Structure of AhpD from Mycobacterium tuberculosis, a novel enzyme with thioredoxin-like activity.

PDB ID 1knc

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/1knc"
Personal tools