1ye5: Difference between revisions

Revision as of 16:46, 11 September 2015

Crystal structure of hypothetical protein of unknown function from pyrococcus horikoshii OT3Crystal structure of hypothetical protein of unknown function from pyrococcus horikoshii OT3

Structural highlights

1ye5 is a 2 chain structure with sequence from 'pyrococcus shinkaii'. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Related:	1v96
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, TOPSAN

Function

[VAPC4_PYRHO] Toxic component of a toxin-antitoxin (TA) module. An RNase.[HAMAP-Rule:MF_00265]

Evolutionary Conservation

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

Publication Abstract from PubMed

The Pyrococcus horikoshii OT3 protein PH0500 is highly conserved within the Pyrococcus genus of hyperthermophilic archaea and shows low amino-acid sequence similarity with a family of PIN-domain proteins. The protein has been expressed, purified and crystallized in two crystal forms: PH0500-I and PH0500-II. The structure was determined at 2.0 A by the multiple anomalous dispersion method using a selenomethionyl derivative of crystal form PH0500-I (PH0500-I-Se). The structure of PH0500-I has been refined at 1.75 A resolution to an R factor of 20.9% and the structure of PH0500-II has been refined at 2.0 A resolution to an R factor of 23.4%. In both crystal forms as well as in solution the molecule appears to be a dimer. Searches of the databases for protein-fold similarities confirmed that the PH0500 protein is a PIN-domain protein with possible exonuclease activity and involvement in DNA or RNA editing.

Structure of PIN-domain protein PH0500 from Pyrococcus horikoshii.,Jeyakanthan J, Inagaki E, Kuroishi C, Tahirov TH Acta Crystallogr Sect F Struct Biol Cryst Commun. 2005 May 1;61(Pt, 5):463-8. Epub 2005 Apr 26. PMID:16511069^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Jeyakanthan J, Inagaki E, Kuroishi C, Tahirov TH. Structure of PIN-domain protein PH0500 from Pyrococcus horikoshii. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2005 May 1;61(Pt, 5):463-8. Epub 2005 Apr 26. PMID:16511069 doi:10.1107/S1744309105012406

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OCA

[1] Jeyakanthan J, Inagaki E, Kuroishi C, Tahirov TH. Structure of PIN-domain protein PH0500 from Pyrococcus horikoshii. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2005 May 1;61(Pt, 5):463-8. Epub 2005 Apr 26. PMID:16511069 doi:10.1107/S1744309105012406

[1]

@@ Line 2: / Line 2: @@
 <StructureSection load='1ye5' size='340' side='right' caption='[[1ye5]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1ye5]] is a 2 chain structure with 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=1YE5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YE5 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1ye5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/'pyrococcus_shinkaii' 'pyrococcus shinkaii']. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YE5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YE5 FirstGlance]. <br>
 </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1v96|1v96]]</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ye5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ye5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ye5 RCSB], [http://www.ebi.ac.uk/pdbsum/1ye5 PDBsum], [http://www.topsan.org/Proteins/RSGI/1ye5 TOPSAN]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ye5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ye5 OCA], [http://pdbe.org/1ye5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ye5 RCSB], [http://www.ebi.ac.uk/pdbsum/1ye5 PDBsum], [http://www.topsan.org/Proteins/RSGI/1ye5 TOPSAN]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/O58236_PYRHO O58236_PYRHO]] Toxic component of a toxin-antitoxin (TA) module. An RNase (Potential).<ref>PMID:15718296</ref>
+[[http://www.uniprot.org/uniprot/VAPC4_PYRHO VAPC4_PYRHO]] Toxic component of a toxin-antitoxin (TA) module. An RNase.[HAMAP-Rule:MF_00265]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 26: / Line 26: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 1ye5" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Pyrococcus horikoshii]]
+[[Category: Pyrococcus shinkaii]]
 [[Category: Jeyakanthan, J]]
 [[Category: Structural genomic]]