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.


1y4i

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:52, 23 August 2023) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1y4i.gif|left|200px]]
 
-
<!--
+
==Crystal structure of Citrobacter Freundii L-methionine-lyase==
-
The line below this paragraph, containing "STRUCTURE_1y4i", creates the "Structure Box" on the page.
+
<StructureSection load='1y4i' size='340' side='right'caption='[[1y4i]], [[Resolution|resolution]] 1.90&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'>[[1y4i]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Citrobacter_freundii Citrobacter freundii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y4I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Y4I 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]] 1.9&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-
{{STRUCTURE_1y4i| PDB=1y4i | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1y4i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y4i OCA], [https://pdbe.org/1y4i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1y4i RCSB], [https://www.ebi.ac.uk/pdbsum/1y4i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1y4i ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q84AR1_CITFR Q84AR1_CITFR]
 +
== 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/y4/1y4i_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=1y4i ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
L-Methionine gamma-lyase (MGL) is a pyridoxal 5'-phosphate (PLP) dependent enzyme that catalyzes gamma-elimination of L-methionine. The crystal structure of MGL from Citrobacter freundii has been determined at 1.9 A resolution. The spatial fold of the protein is similar to those of MGLs from Pseudomonas putida and Trichomonas vaginalis. The comparison of these structures revealed that there are differences in PLP-binding residues and positioning of the surrounding flexible loops.
-
'''Crystal structure of Citrobacter Freundii L-methionine-lyase'''
+
Structure of Citrobacter freundii L-methionine gamma-lyase.,Mamaeva DV, Morozova EA, Nikulin AD, Revtovich SV, Nikonov SV, Garber MB, Demidkina TV Acta Crystallogr Sect F Struct Biol Cryst Commun. 2005 Jun 1;61(Pt, 6):546-9. Epub 2005 Jun 1. PMID:16511092<ref>PMID:16511092</ref>
-
 
+
-
 
+
-
==Overview==
+
-
L-Methionine gamma-lyase (MGL) is a pyridoxal 5'-phosphate (PLP) dependent enzyme that catalyzes gamma-elimination of L-methionine. The crystal structure of MGL from Citrobacter freundii has been determined at 1.9 A resolution. The spatial fold of the protein is similar to those of MGLs from Pseudomonas putida and Trichomonas vaginalis. The comparison of these structures revealed that there are differences in PLP-binding residues and positioning of the surrounding flexible loops.
+
-
==About this Structure==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
1Y4I is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Citrobacter_freundii Citrobacter freundii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y4I OCA].
+
</div>
 +
<div class="pdbe-citations 1y4i" style="background-color:#fffaf0;"></div>
-
==Reference==
+
==See Also==
-
Structure of Citrobacter freundii L-methionine gamma-lyase., Mamaeva DV, Morozova EA, Nikulin AD, Revtovich SV, Nikonov SV, Garber MB, Demidkina TV, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2005 Jun 1;61(Pt, 6):546-9. Epub 2005 Jun 1. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16511092 16511092]
+
*[[Methionine gamma-lyase 3D structures|Methionine gamma-lyase 3D structures]]
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
[[Category: Citrobacter freundii]]
[[Category: Citrobacter freundii]]
-
[[Category: Methionine gamma-lyase]]
+
[[Category: Large Structures]]
-
[[Category: Single protein]]
+
[[Category: Demidkina TV]]
-
[[Category: Demidkina, T V.]]
+
[[Category: Garber MB]]
-
[[Category: Garber, M B.]]
+
[[Category: Mamaeva DV]]
-
[[Category: Mamaeva, D V.]]
+
[[Category: Morozova EA]]
-
[[Category: Morozova, E A.]]
+
[[Category: Nikonov SV]]
-
[[Category: Nikonov, S V.]]
+
[[Category: Nikulin AD]]
-
[[Category: Nikulin, A D.]]
+
[[Category: Revtovich SV]]
-
[[Category: Revtovich, S V.]]
+
-
[[Category: Plp-dependent enzyme]]
+
-
[[Category: Pyridoxal-5'-phosphate]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 15:52:03 2008''
+

Current revision

Crystal structure of Citrobacter Freundii L-methionine-lyase

PDB ID 1y4i

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/1y4i"
Personal tools