1yyp

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:01, 14 February 2024) (edit) (undo)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1yyp.gif|left|200px]]
 
-
<!--
+
==Crystal structure of cytomegalovirus UL44 bound to C-terminal peptide from CMV UL54==
-
The line below this paragraph, containing "STRUCTURE_1yyp", creates the "Structure Box" on the page.
+
<StructureSection load='1yyp' size='340' side='right'caption='[[1yyp]], [[Resolution|resolution]] 2.50&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'>[[1yyp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_betaherpesvirus_5 Human betaherpesvirus 5] and [https://en.wikipedia.org/wiki/Human_herpesvirus_5_strain_AD169 Human herpesvirus 5 strain AD169]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YYP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YYP 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]] 2.5&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-
{{STRUCTURE_1yyp| PDB=1yyp | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yyp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yyp OCA], [https://pdbe.org/1yyp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yyp RCSB], [https://www.ebi.ac.uk/pdbsum/1yyp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yyp ProSAT]</span></td></tr>
-
 
+
</table>
-
'''Crystal structure of cytomegalovirus UL44 bound to C-terminal peptide from CMV UL54'''
+
== Function ==
-
 
+
[https://www.uniprot.org/uniprot/VPAP_HCMVA VPAP_HCMVA] Accessory subunit of the DNA polymerase that acts to increase the processivity of polymerization.<ref>PMID:20538862</ref>
-
 
+
== Evolutionary Conservation ==
-
==Overview==
+
[[Image:Consurf_key_small.gif|200px|right]]
-
The human cytomegalovirus DNA polymerase is composed of a catalytic subunit, UL54, and an accessory protein, UL44, which has a structural fold similar to that of other processivity factors, including herpes simplex virus UL42 and homotrimeric sliding clamps such as proliferating cell nuclear antigen. Several specific residues in the C-terminal region of UL54 and in the "connector loop" of UL44 are required for the association of these proteins. Here, we describe the crystal structure of residues 1-290 of UL44 in complex with a peptide from the extreme C terminus of UL54, which explains this interaction at a molecular level. The UL54 peptide binds to structural elements similar to those used by UL42 and the sliding clamps to associate with their respective binding partners. However, the details of the interaction differ from those of other processivity factor-peptide complexes. Crucial residues include a three-residue hydrophobic "plug" from the UL54 peptide and Ile(135) of UL44, which forms a critical intramolecular hydrophobic anchor for interactions between the connector loop and the peptide. As was the case for the unliganded UL44 structure, the UL44-peptide complex forms a head-to-head dimer that could potentially form a C-shaped clamp on DNA. However, the peptide-bound structure displays subtle differences in the relative orientation of the two subdomains of the protein, resulting in a more open clamp, which we predicted would affect its association with DNA. Indeed, filter binding assays revealed that peptide-bound UL44 binds DNA with higher affinity. Thus, interaction with the catalytic subunit appears to affect both the structure and function of UL44.
+
Check<jmol>
-
 
+
<jmolCheckbox>
-
==About this Structure==
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yy/1yyp_consurf.spt"</scriptWhenChecked>
-
1YYP is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Human_herpesvirus_5 Human herpesvirus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YYP OCA].
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
 
+
<text>to colour the structure by Evolutionary Conservation</text>
-
==Reference==
+
</jmolCheckbox>
-
Crystal structure of the cytomegalovirus DNA polymerase subunit UL44 in complex with the C terminus from the catalytic subunit. Differences in structure and function relative to unliganded UL44., Appleton BA, Brooks J, Loregian A, Filman DJ, Coen DM, Hogle JM, J Biol Chem. 2006 Feb 24;281(8):5224-32. Epub 2005 Dec 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16371349 16371349]
+
</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=1yyp ConSurf].
-
[[Category: DNA-directed DNA polymerase]]
+
<div style="clear:both"></div>
-
[[Category: Human herpesvirus 5]]
+
== References ==
-
[[Category: Protein complex]]
+
<references/>
-
[[Category: Appleton, B A.]]
+
__TOC__
-
[[Category: Brooks, J.]]
+
</StructureSection>
-
[[Category: Coen, D M.]]
+
[[Category: Human betaherpesvirus 5]]
-
[[Category: Filman, D J.]]
+
[[Category: Human herpesvirus 5 strain AD169]]
-
[[Category: Hogle, J M.]]
+
[[Category: Large Structures]]
-
[[Category: Loregian, A]]
+
[[Category: Appleton BA]]
-
[[Category: Pcna]]
+
[[Category: Brooks J]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 16:58:15 2008''
+
[[Category: Coen DM]]
 +
[[Category: Filman DJ]]
 +
[[Category: Hogle JM]]
 +
[[Category: Loregian A]]

Current revision

Crystal structure of cytomegalovirus UL44 bound to C-terminal peptide from CMV UL54

PDB ID 1yyp

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/1yyp"
Personal tools