3rk0

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (12:26, 14 March 2024) (edit) (undo)
 
(2 intermediate revisions not shown.)
Line 1: Line 1:
==X-ray crystal Structure of the putative N-type ATP pyrophosphatase (PF0828) in complex with AMP from Pyrococcus furiosus, Northeast Structural Genomics Consortium Target PfR23==
==X-ray crystal Structure of the putative N-type ATP pyrophosphatase (PF0828) in complex with AMP from Pyrococcus furiosus, Northeast Structural Genomics Consortium Target PfR23==
-
<StructureSection load='3rk0' size='340' side='right' caption='[[3rk0]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
+
<StructureSection load='3rk0' size='340' side='right'caption='[[3rk0]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3rk0]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrfu Pyrfu]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3h7e 3h7e]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RK0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RK0 FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3rk0]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus_DSM_3638 Pyrococcus furiosus DSM 3638]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3h7e 3h7e]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RK0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RK0 FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene></td></tr>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
-
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3rjz|3rjz]], [[3rk1|3rk1]]</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=3rk0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rk0 OCA], [https://pdbe.org/3rk0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rk0 RCSB], [https://www.ebi.ac.uk/pdbsum/3rk0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rk0 ProSAT]</span></td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PF0828 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=186497 PYRFU])</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=3rk0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rk0 OCA], [http://pdbe.org/3rk0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3rk0 RCSB], [http://www.ebi.ac.uk/pdbsum/3rk0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3rk0 ProSAT]</span></td></tr>
+
</table>
</table>
-
<div style="background-color:#fffaf0;">
+
== Function ==
-
== Publication Abstract from PubMed ==
+
[https://www.uniprot.org/uniprot/Q8U2K6_PYRFU Q8U2K6_PYRFU]
-
ATP pyrophosphatases (ATP PPases) are widely distributed in archaea and eukaryotes. They share an HUP domain at the N-terminus with a conserved PP-motif that interacts with the phosphates of ATP. The PF0828 protein from Pyrococcus furiosus is a member of the ATP PPase superfamily and it also has a 100-residue C-terminal extension that contains a strictly conserved EGG(E/D)xE(T/S) motif, which has been named the EGT-motif. Here, crystal structures of PF0828 alone and in complex with ATP or AMP are reported. The HUP domain contains a central five-stranded beta-sheet that is surrounded by four helices, as in other related structures. The C-terminal extension forms a separate domain, named the EGT domain, which makes tight interactions with the HUP domain, bringing the EGT-motif near to the PP-motif and defining the putative active site of PF0828. Both motifs interact with the phosphate groups of ATP. A loop in the HUP domain undergoes a large conformational change to recognize the adenine base of ATP. In solution and in the crystal PF0828 is a dimer formed by the side-by-side arrangement of the HUP domains of the two monomers. The putative active site is located far from the dimer interface.
+
-
 
+
-
A large conformational change in the putative ATP pyrophosphatase PF0828 induced by ATP binding.,Forouhar F, Saadat N, Hussain M, Seetharaman J, Lee I, Janjua H, Xiao R, Shastry R, Acton TB, Montelione GT, Tong L Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Nov 1;67(Pt, 11):1323-7. Epub 2011 Oct 25. PMID:22102225<ref>PMID:22102225</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
<div class="pdbe-citations 3rk0" style="background-color:#fffaf0;"></div>
+
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Pyrfu]]
+
[[Category: Large Structures]]
-
[[Category: Acton, T B]]
+
[[Category: Pyrococcus furiosus DSM 3638]]
-
[[Category: Cunningham, K]]
+
[[Category: Acton TB]]
-
[[Category: Everett, J K]]
+
[[Category: Cunningham K]]
-
[[Category: Forouhar, F]]
+
[[Category: Everett JK]]
-
[[Category: Hunt, J F]]
+
[[Category: Forouhar F]]
-
[[Category: Hussain, M]]
+
[[Category: Hunt JF]]
-
[[Category: Janjua, J]]
+
[[Category: Hussain M]]
-
[[Category: Ma, L]]
+
[[Category: Janjua J]]
-
[[Category: Montelione, G T]]
+
[[Category: Ma L]]
-
[[Category: Structural genomic]]
+
[[Category: Montelione GT]]
-
[[Category: Nair, R]]
+
[[Category: Nair R]]
-
[[Category: Rost, B]]
+
[[Category: Rost B]]
-
[[Category: Saadat, N]]
+
[[Category: Saadat N]]
-
[[Category: Seetharaman, J]]
+
[[Category: Seetharaman J]]
-
[[Category: Shastry, R]]
+
[[Category: Shastry R]]
-
[[Category: Tong, L]]
+
[[Category: Tong L]]
-
[[Category: Xiao, R]]
+
[[Category: Xiao R]]
-
[[Category: Alpha-beta protein that binds atp]]
+
-
[[Category: Amp and atp binding]]
+
-
[[Category: Hydrolase]]
+
-
[[Category: Nesg]]
+
-
[[Category: Possibly n-type atp pyrophosphatase]]
+
-
[[Category: Psi-biology]]
+

Current revision

X-ray crystal Structure of the putative N-type ATP pyrophosphatase (PF0828) in complex with AMP from Pyrococcus furiosus, Northeast Structural Genomics Consortium Target PfR23

PDB ID 3rk0

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/3rk0"
Personal tools