1u08

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
m (Protected "1u08" [edit=sysop:move=sysop])
Current revision (07:29, 25 October 2023) (edit) (undo)
 
(6 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1u08.png|left|200px]]
 
-
{{STRUCTURE_1u08| PDB=1u08 | SCENE= }}
+
==Crystal Structure and Reactivity of YbdL from Escherichia coli Identify a Methionine Aminotransferase Function.==
 +
<StructureSection load='1u08' size='340' side='right'caption='[[1u08]], [[Resolution|resolution]] 2.35&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1u08]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1U08 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1U08 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]] 2.35&#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>
 +
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1u08 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1u08 OCA], [https://pdbe.org/1u08 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1u08 RCSB], [https://www.ebi.ac.uk/pdbsum/1u08 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1u08 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/YBDL_ECOLI YBDL_ECOLI] Shows aminotransferase activity with methionine and histidine as substrates, and to a lesser extent also with phenylalanine.
 +
== 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/u0/1u08_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=1u08 ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The ybdL gene of Escherichia coli codes for a protein of unknown function. Sequence analysis showed moderate homology to several vitamin B(6) dependent enzymes, suggesting that it may bind pyridoxal-5'-phosphate. The structure analysis of YbdL to 2.35 A resolution by protein crystallography verifies that it is a PLP dependent enzyme of fold type I, the typical aspartate aminotransferase fold. The active site contains a bound pyridoxal-5'-phosphate, covalently attached to the conserved active site lysine residue Lys236. The pattern of conserved amino acids in the putative substrate binding pocket of the enzyme reveals that it is most closely related to a hyperthermophilic aromatic residue aminotransferase from the archeon Pyrococcus horikoshii. Activity tests with 10 amino acids as amino-donors reveal, however, a preference for Met, followed by His and Phe, results which can be rationalized by modelization studies.
-
===Crystal Structure and Reactivity of YbdL from Escherichia coli Identify a Methionine Aminotransferase Function.===
+
Crystal structure and reactivity of YbdL from Escherichia coli identify a methionine aminotransferase function.,Dolzan M, Johansson K, Roig-Zamboni V, Campanacci V, Tegoni M, Schneider G, Cambillau C FEBS Lett. 2004 Jul 30;571(1-3):141-6. PMID:15280032<ref>PMID:15280032</ref>
-
{{ABSTRACT_PUBMED_15280032}}
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
 
+
</div>
-
==About this Structure==
+
<div class="pdbe-citations 1u08" style="background-color:#fffaf0;"></div>
-
[[1u08]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1U08 OCA].
+
== References ==
-
 
+
<references/>
-
==Reference==
+
__TOC__
-
<ref group="xtra">PMID:015280032</ref><references group="xtra"/>
+
</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
-
[[Category: Cambillau, C.]]
+
[[Category: Large Structures]]
-
[[Category: Campanacci, V.]]
+
[[Category: Cambillau C]]
-
[[Category: Dolzan, M.]]
+
[[Category: Campanacci V]]
-
[[Category: Johansson, K.]]
+
[[Category: Dolzan M]]
-
[[Category: Roig-Zamboni, V.]]
+
[[Category: Johansson K]]
-
[[Category: Schneider, G.]]
+
[[Category: Roig-Zamboni V]]
-
[[Category: Tegoni, M.]]
+
[[Category: Schneider G]]
-
[[Category: Alpha beta protein]]
+
[[Category: Tegoni M]]
-
[[Category: Transferase]]
+

Current revision

Crystal Structure and Reactivity of YbdL from Escherichia coli Identify a Methionine Aminotransferase Function.

PDB ID 1u08

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/1u08"
Personal tools