1y6h: Difference between revisions

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{{Seed}}
[[Image:1y6h.png|left|200px]]


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==Crystal structure of LIPDF==
The line below this paragraph, containing "STRUCTURE_1y6h", creates the "Structure Box" on the page.
<StructureSection load='1y6h' size='340' side='right'caption='[[1y6h]], [[Resolution|resolution]] 2.20&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'>[[1y6h]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Leptospira_interrogans Leptospira interrogans]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1rn5 1rn5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Y6H 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]] 2.2&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GLY:GLYCINE'>GLY</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
{{STRUCTURE_1y6h|  PDB=1y6h  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1y6h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6h OCA], [https://pdbe.org/1y6h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1y6h RCSB], [https://www.ebi.ac.uk/pdbsum/1y6h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1y6h ProSAT]</span></td></tr>
 
</table>
===Crystal structure of LIPDF===
== Function ==
 
[https://www.uniprot.org/uniprot/DEF_LEPIN DEF_LEPIN] Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions (By similarity).[HAMAP-Rule:MF_00163]
 
== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
(as it appears on PubMed at http://www.pubmed.gov), where 15123432 is the PubMed ID number.
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    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/y6/1y6h_consurf.spt"</scriptWhenChecked>
{{ABSTRACT_PUBMED_15123432}}
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    <text>to colour the structure by Evolutionary Conservation</text>
==About this Structure==
  </jmolCheckbox>
1Y6H is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Leptospira_interrogans Leptospira interrogans]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1rn5 1rn5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6H 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=1y6h ConSurf].
 
<div style="clear:both"></div>
==Reference==
__TOC__
Unique structural characteristics of peptide deformylase from pathogenic bacterium Leptospira interrogans., Zhou Z, Song X, Li Y, Gong W, J Mol Biol. 2004 May 21;339(1):207-15. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15123432 15123432]
</StructureSection>
[[Category: Large Structures]]
[[Category: Leptospira interrogans]]
[[Category: Leptospira interrogans]]
[[Category: Peptide deformylase]]
[[Category: Gong W]]
[[Category: Single protein]]
[[Category: Li Y]]
[[Category: Gong, W.]]
[[Category: Song X]]
[[Category: Li, Y.]]
[[Category: Zhou Z]]
[[Category: Song, X.]]
[[Category: Zhou, Z.]]
[[Category: Open and close conformation]]
[[Category: Pdf]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 09:57:33 2008''

Latest revision as of 13:37, 13 March 2024

Crystal structure of LIPDF

1y6h, resolution 2.20Å

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