2k39: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-{{Seed}}
-[[Image:2k39.png|left|200px]]
-<!--
+==Recognition dynamics up to microseconds revealed from RDC derived ubiquitin ensemble in solution==
-The line below this paragraph, containing "STRUCTURE_2k39", creates the "Structure Box" on the page.
+<StructureSection load='2k39' size='340' side='right'caption='[[2k39]]' 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'>[[2k39]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Xenopus_laevis Xenopus laevis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K39 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K39 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">Solution NMR</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=2k39 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k39 OCA], [https://pdbe.org/2k39 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k39 RCSB], [https://www.ebi.ac.uk/pdbsum/2k39 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k39 ProSAT]</span></td></tr>
-{{STRUCTURE_2k39|  PDB=2k39  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/UBIQP_XENLA UBIQP_XENLA] Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, DNA-damage responses as well as in signaling processes leading to activation of the transcription factor NF-kappa-B. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling (By similarity).
+== 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/k3/2k39_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=2k39 ConSurf].
+<div style="clear:both"></div>
-===Recognition dynamics up to microseconds revealed from RDC derived ubiquitin ensemble in solution===
+==See Also==
+*[[3D structures of ubiquitin|3D structures of ubiquitin]]
+__TOC__
-<!--
+</StructureSection>
-The line below this paragraph, {{ABSTRACT_PUBMED_18556554}}, adds the Publication Abstract to the page
+[[Category: Large Structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 18556554 is the PubMed ID number.
--->
-{{ABSTRACT_PUBMED_18556554}}
-==About this Structure==
-K39 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Xenopus_laevis Xenopus laevis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K39 OCA].
-==Reference==
-<ref group="xtra">PMID:18556554</ref><references group="xtra"/>
 [[Category: Xenopus laevis]]
-[[Category: Becker, S.]]
+[[Category: Becker S]]
-[[Category: Fares, C.]]
+[[Category: Fares C]]
-[[Category: Griesinger, C.]]
+[[Category: Griesinger C]]
-[[Category: Groot, B L.de.]]
+[[Category: Grubmuller H]]
-[[Category: Grubmuller, H.]]
+[[Category: Lakomek NA]]
-[[Category: Lakomek, N A.]]
+[[Category: Lange OF]]
-[[Category: Lange, O F.]]
+[[Category: Meiler J]]
-[[Category: Meiler, J.]]
+[[Category: Schroder G]]
-[[Category: Schroder, G.]]
+[[Category: Walter K]]
-[[Category: Walter, K.]]
+[[Category: De Groot BL]]
-[[Category: Cytoplasm]]
-[[Category: Nucleus]]
-[[Category: Rdc]]
-[[Category: Residual dipolar coupling]]
-[[Category: Signaling protein]]
-[[Category: Ubiquitin]]
-[[Category: Ubl conjugation]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 08:04:53 2009''