We apologize for Proteopedia being slow to respond. For the past two years, a new implementation of Proteopedia has been being built. Soon, it will replace this 18-year old system. All existing content will be moved to the new system at a date that will be announced here.

1ky8

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:29, 14 February 2024) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1ky8.jpg|left|200px]]
 
-
<!--
+
==Crystal Structure of the Non-phosphorylating glyceraldehyde-3-phosphate Dehydrogenase==
-
The line below this paragraph, containing "STRUCTURE_1ky8", creates the "Structure Box" on the page.
+
<StructureSection load='1ky8' size='340' side='right'caption='[[1ky8]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[1ky8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoproteus_tenax Thermoproteus tenax]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KY8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KY8 FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
-
{{STRUCTURE_1ky8| PDB=1ky8 | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ky8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ky8 OCA], [https://pdbe.org/1ky8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ky8 RCSB], [https://www.ebi.ac.uk/pdbsum/1ky8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ky8 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/GAPN_THETE GAPN_THETE] Catalyzes the irreversible NAD(P)-dependent non-phosphorylating oxidation of glyceraldehyde-3-phosphate (GAP) to 3-phosphoglycerate (3PG). It is highly specific for D-GAP.<ref>PMID:3121324</ref> <ref>PMID:9497334</ref>
 +
== 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/ky/1ky8_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=1ky8 ConSurf].
 +
<div style="clear:both"></div>
-
'''Crystal Structure of the Non-phosphorylating glyceraldehyde-3-phosphate Dehydrogenase'''
+
==See Also==
-
 
+
*[[Aldehyde dehydrogenase 3D structures|Aldehyde dehydrogenase 3D structures]]
-
 
+
*[[Glyceraldehyde-3-phosphate dehydrogenase 3D structures|Glyceraldehyde-3-phosphate dehydrogenase 3D structures]]
-
==Overview==
+
== References ==
-
The NAD(+)-dependent non-phosphorylating glyceraldehyde-3-phosphate dehydrogenase (GAPN) from the hyperthermophilic archaeum Thermoproteus tenax represents an archaeal member of the diverse superfamily of aldehyde dehydrogenases (ALDHs). GAPN catalyzes the irreversible oxidation of d-glyceraldehyde 3-phosphate to 3-phosphoglycerate. In this study, we present the crystal structure of GAPN in complex with its natural inhibitor NADP(+) determined by multiple anomalous diffraction methods. The structure was refined to a resolution of 2.4 A with an R-factor of 0.21. The overall fold of GAPN is similar to the structures of ALDHs described previously, consisting of three domains: a nucleotide-binding domain, a catalytic domain, and an oligomerization domain. Local differences in the active site are responsible for substrate specificity. The inhibitor NADP(+) binds at an equivalent site to the cosubstrate-binding site of other ALDHs and blocks the enzyme in its inactive state, possibly preventing the transition to the active conformation. Structural comparison between GAPN from the hyperthermophilic T. tenax and homologs of mesophilic organisms establishes several characteristics of thermostabilization. These include protection against heat-induced covalent modifications by reducing and stabilizing labile residues, a decrease in number and volume of empty cavities, an increase in beta-strand content, and a strengthening of subunit contacts by ionic and hydrophobic interactions.
+
<references/>
-
 
+
__TOC__
-
==About this Structure==
+
</StructureSection>
-
1KY8 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermoproteus_tenax Thermoproteus tenax]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KY8 OCA].
+
[[Category: Large Structures]]
-
 
+
-
==Reference==
+
-
The crystal structure of the allosteric non-phosphorylating glyceraldehyde-3-phosphate dehydrogenase from the hyperthermophilic archaeum Thermoproteus tenax., Pohl E, Brunner N, Wilmanns M, Hensel R, J Biol Chem. 2002 May 31;277(22):19938-45. Epub 2002 Feb 12. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11842090 11842090]
+
-
[[Category: Single protein]]
+
[[Category: Thermoproteus tenax]]
[[Category: Thermoproteus tenax]]
-
[[Category: Brunner, N.]]
+
[[Category: Brunner N]]
-
[[Category: Hensel, R.]]
+
[[Category: Hensel R]]
-
[[Category: Pohl, E.]]
+
[[Category: Pohl E]]
-
[[Category: Wilmanns, M.]]
+
[[Category: Wilmanns M]]
-
[[Category: Aldh]]
+
-
[[Category: Gapn]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 23:19:13 2008''
+

Current revision

Crystal Structure of the Non-phosphorylating glyceraldehyde-3-phosphate Dehydrogenase

PDB ID 1ky8

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/1ky8"
Personal tools