2cw8: Difference between revisions

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[[Image:2cw8.gif|left|200px]]


{{Structure
==Crystal structure of intein homing endonuclease II==
|PDB= 2cw8 |SIZE=350|CAPTION= <scene name='initialview01'>2cw8</scene>, resolution 2.50&Aring;
<StructureSection load='2cw8' size='340' side='right'caption='[[2cw8]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
<table><tr><td colspan='2'>[[2cw8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_kodakarensis_KOD1 Thermococcus kodakarensis KOD1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CW8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CW8 FirstGlance]. <br>
|ACTIVITY=  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#8491;</td></tr>
|GENE=  
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
|DOMAIN=
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2cw8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cw8 OCA], [https://pdbe.org/2cw8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cw8 RCSB], [https://www.ebi.ac.uk/pdbsum/2cw8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cw8 ProSAT]</span></td></tr>
|RELATEDENTRY=[[2cw7|2CW7]]
</table>
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2cw8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cw8 OCA], [http://www.ebi.ac.uk/pdbsum/2cw8 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2cw8 RCSB]</span>
== Function ==
}}
[https://www.uniprot.org/uniprot/DPOL_THEKO DPOL_THEKO] Intein encoded endonucleases are thought to mediate intein mobility by site-specific recombination initiated by endonuclease cleavage at the "homing site" in gene that lack the intein. PI-PkoI recognizes 5'-GATTTAGATCCCTGTACC-3' and PI-PkoII recognizes 5'-CAGCTACTACGGTTAC-3'.
== 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/cw/2cw8_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=2cw8 ConSurf].
<div style="clear:both"></div>


'''Crystal structure of intein homing endonuclease II'''
==See Also==
 
*[[Endonuclease 3D structures|Endonuclease 3D structures]]
 
__TOC__
==About this Structure==
</StructureSection>
2CW8 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CW8 OCA].
[[Category: Large Structures]]
 
[[Category: Thermococcus kodakarensis KOD1]]
==Reference==
[[Category: Fujiwara S]]
Crystal structure of intein homing endonuclease II encoded in DNA polymerase gene from hyperthermophilic archaeon Thermococcus kodakaraensis strain KOD1., Matsumura H, Takahashi H, Inoue T, Yamamoto T, Hashimoto H, Nishioka M, Fujiwara S, Takagi M, Imanaka T, Kai Y, Proteins. 2006 May 15;63(3):711-5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16493661 16493661]
[[Category: Hashimoto H]]
[[Category: Single protein]]
[[Category: Imanaka T]]
[[Category: Thermococcus kodakarensis]]
[[Category: Inoue T]]
[[Category: Fujiwara, S.]]
[[Category: Kai Y]]
[[Category: Hashimoto, H.]]
[[Category: Matsumura H]]
[[Category: Imanaka, T.]]
[[Category: Nishioka M]]
[[Category: Inoue, T.]]
[[Category: Takagi M]]
[[Category: Kai, Y.]]
[[Category: Takahashi H]]
[[Category: Matsumura, H.]]
[[Category: Nishioka, M.]]
[[Category: Takagi, M.]]
[[Category: Takahashi, H.]]
[[Category: hydrolase]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:27:10 2008''

Latest revision as of 14:31, 22 May 2024

Crystal structure of intein homing endonuclease IICrystal structure of intein homing endonuclease II

Structural highlights

2cw8 is a 1 chain structure with sequence from Thermococcus kodakarensis KOD1. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.5Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

DPOL_THEKO Intein encoded endonucleases are thought to mediate intein mobility by site-specific recombination initiated by endonuclease cleavage at the "homing site" in gene that lack the intein. PI-PkoI recognizes 5'-GATTTAGATCCCTGTACC-3' and PI-PkoII recognizes 5'-CAGCTACTACGGTTAC-3'.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

2cw8, resolution 2.50Å

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