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.


2ga8

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (14:42, 29 December 2021) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:2ga8.png|left|200px]]
 
-
<!--
+
==Crystal structure of YFH7 from Saccharomyces cerevisiae: a putative P-loop containing kinase with a circular permutation.==
-
The line below this paragraph, containing "STRUCTURE_2ga8", creates the "Structure Box" on the page.
+
<StructureSection load='2ga8' size='340' side='right'caption='[[2ga8]], [[Resolution|resolution]] 1.77&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'>[[2ga8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GA8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GA8 FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-
-->
+
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>
-
{{STRUCTURE_2ga8| PDB=2ga8 | SCENE= }}
+
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1uj2|1uj2]]</div></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=2ga8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ga8 OCA], [https://pdbe.org/2ga8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ga8 RCSB], [https://www.ebi.ac.uk/pdbsum/2ga8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ga8 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[[https://www.uniprot.org/uniprot/YFH7_YEAST YFH7_YEAST]] ATP-dependent kinase that could be involved in endoplasmic reticulum membrane assembly.<ref>PMID:12868057</ref>
 +
== 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/ga/2ga8_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=2ga8 ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Genome sequencing projects have revealed that P-loop proteins are highly represented in all organisms and that many of them have no attributed function. They are characterized by a conserved nucleotide-binding domain and carry different activities implicated in many cellular processes. Saccharomyces cerevisiae YFH7 is one of these P-loop proteins of unknown function. In this work we tried to integrate bioinformatics, structure, and enzymology to discover the function of YFH7. Sequence analysis revealed that yeast YFH7 is a yeast-specific protein showing weak similarity with the phosphoribulokinase/uridine kinase/bacterial pantothenate kinase (PRK/URK/PANK) subfamily of P-loop containing kinases. A large insertion of about 100 residues distinguishes YFH7 from other members of the family. The 1.95 A resolution crystal structure of YFH7 solved using the SAD method confirmed that YFH7 has a fold similar to the PRK/URK/PANK family, with the characteristic core, lid, and NMP(bind) domains. An additional alpha/beta domain of novel topology corresponds to the large sequence insertion. Structural and ligand binding analysis combined with enzymatic assays suggest that YFH7 is an ATP-dependent small molecule kinase with new substrate specificity. Proteins 2007. (c) 2007 Wiley-Liss, Inc.
-
===Crystal structure of YFH7 from Saccharomyces cerevisiae: a putative P-loop containing kinase with a circular permutation.===
+
Crystal structure and functional analysis identify the P-loop containing protein YFH7 of Saccharomyces cerevisiae as an ATP-dependent kinase.,Gueguen-Chaignon V, Chaptal V, Lariviere L, Costa N, Lopes P, Morera S, Nessler S Proteins. 2007 Nov 14;. PMID:18004758<ref>PMID:18004758</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_18004758}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 2ga8" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 18004758 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_18004758}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Atcc 18824]]
-
2GA8 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GA8 OCA].
+
[[Category: Large Structures]]
-
 
+
[[Category: Chaptal, V]]
-
==Reference==
+
[[Category: Morera, S]]
-
Crystal structure and functional analysis identify the P-loop containing protein YFH7 of Saccharomyces cerevisiae as an ATP-dependent kinase., Gueguen-Chaignon V, Chaptal V, Lariviere L, Costa N, Lopes P, Morera S, Nessler S, Proteins. 2007 Nov 14;. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18004758 18004758]
+
-
[[Category: Saccharomyces cerevisiae]]
+
-
[[Category: Single protein]]
+
-
[[Category: Chaptal, V.]]
+
-
[[Category: Morera, S.]]
+
[[Category: Unknown function]]
[[Category: Unknown function]]
[[Category: Yfh7]]
[[Category: Yfh7]]
[[Category: Yfr007w]]
[[Category: Yfr007w]]
- 
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 07:15:48 2008''
 

Current revision

Crystal structure of YFH7 from Saccharomyces cerevisiae: a putative P-loop containing kinase with a circular permutation.

PDB ID 2ga8

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/2ga8"
Personal tools