1gd9

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (23:30, 27 December 2023) (edit) (undo)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:1gd9.png|left|200px]]
 
-
<!--
+
==CRYSTALL STRUCTURE OF PYROCOCCUS PROTEIN-A1==
-
The line below this paragraph, containing "STRUCTURE_1gd9", creates the "Structure Box" on the page.
+
<StructureSection load='1gd9' size='340' side='right'caption='[[1gd9]], [[Resolution|resolution]] 1.80&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'>[[1gd9]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GD9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GD9 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]] 1.8&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
-
{{STRUCTURE_1gd9| PDB=1gd9 | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1gd9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gd9 OCA], [https://pdbe.org/1gd9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gd9 RCSB], [https://www.ebi.ac.uk/pdbsum/1gd9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gd9 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/O59096_PYRHO O59096_PYRHO]
 +
== 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/gd/1gd9_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=1gd9 ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
We determined the crystal structure of the liganded form of alpha-aminotransferase from a hyperthermophile, Pyrococcus horikoshii. This hyperthermophilic enzyme did not show domain movement upon binding of an acidic substrate, glutamate, except for a small movement of the alpha-helix from Glu16 to Ala25. The omega-carboxyl group of the acidic substrate was recognized by Tyr70* without its side-chain movement, but not by positively charged Arg or Lys. Compared with the homologous enzymes from Thermus thermophilus HB8 and Escherichia coli, it was suggested that the more thermophilic the enzyme is, the smaller the domain movement is. This rule seems to be applicable to many other enzymes already reported.
-
===CRYSTALL STRUCTURE OF PYROCOCCUS PROTEIN-A1===
+
Temperature dependence of the enzyme-substrate recognition mechanism.,Ura H, Harata K, Matsui I, Kuramitsu S J Biochem. 2001 Jan;129(1):173-8. PMID:11134972<ref>PMID:11134972</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 1gd9" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_11134972}}, adds the Publication Abstract to the page
+
*[[Aspartate aminotransferase 3D structures|Aspartate aminotransferase 3D structures]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 11134972 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_11134972}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Large Structures]]
-
1GD9 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GD9 OCA].
+
-
 
+
-
==Reference==
+
-
Temperature dependence of the enzyme-substrate recognition mechanism., Ura H, Harata K, Matsui I, Kuramitsu S, J Biochem. 2001 Jan;129(1):173-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11134972 11134972]
+
[[Category: Pyrococcus horikoshii]]
[[Category: Pyrococcus horikoshii]]
-
[[Category: Single protein]]
+
[[Category: Harata K]]
-
[[Category: Harata, K.]]
+
[[Category: Kuramitsu S]]
-
[[Category: Kuramitsu, S.]]
+
[[Category: Matsui I]]
-
[[Category: Matsui, I.]]
+
[[Category: Ura H]]
-
[[Category: Ura, H.]]
+
-
[[Category: Aminotransferase]]
+
-
[[Category: Pyridoxal enzyme]]
+
-
[[Category: Temperature dependence of substrate recognition]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 05:07:43 2008''
+

Current revision

CRYSTALL STRUCTURE OF PYROCOCCUS PROTEIN-A1

PDB ID 1gd9

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/1gd9"
Personal tools