2k8c

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[[Image:2k8c.jpg|left|200px]]
 
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==Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin==
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The line below this paragraph, containing "STRUCTURE_2k8c", creates the "Structure Box" on the page.
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<StructureSection load='2k8c' size='340' side='right'caption='[[2k8c]]' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2k8c]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K8C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K8C FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [https://pdbe.org/2k8c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [https://www.ebi.ac.uk/pdbsum/2k8c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k8c ProSAT]</span></td></tr>
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{{STRUCTURE_2k8c| PDB=2k8c | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/UBC_HUMAN UBC_HUMAN] 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.<ref>PMID:16543144</ref> <ref>PMID:19754430</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k8/2k8c_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=2k8c ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Ubiquitin (Ub) is an essential modifier conserved in all eukaryotes from yeast to human. Phospholipase A(2)-activating protein (PLAA), a mammalian homolog of yeast DOA1/UFD3, has been proposed to be able to bind with Ub, which plays important roles in endoplasmic reticulum-associated degradation, vesicle formation, and DNA damage response. We have identified a core domain from the PLAA family ubiquitin-binding region of human PLAA (residues 386-465, namely PFUC) that can bind Ub and elucidated its solution structure and Ub-binding mode by NMR approaches. The PFUC domain possesses equal population of two conformers in solution by cis/trans-isomerization, whereas the two isomers exhibit almost equivalent Ub binding abilities. This domain structure takes a novel fold consisting of four beta-strands and two alpha-helices, and the Ub-binding site on PFUC locates in the surface of alpha2-helix, which is to some extent analogous to those of UBA, CUE, and UIM domains. This study provides structural basis and biochemical information for Ub recognition of the novel PFU domain from a PLAA family protein that may connect ubiquitination and degradation in endoplasmic reticulum-associated degradation.
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===Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin===
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Structural basis for ubiquitin recognition by a novel domain from human phospholipase A2-activating protein.,Fu QS, Zhou CJ, Gao HC, Jiang YJ, Zhou ZR, Hong J, Yao WM, Song AX, Lin DH, Hu HY J Biol Chem. 2009 Jul 10;284(28):19043-52. Epub 2009 May 7. PMID:19423704<ref>PMID:19423704</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 2k8c" style="background-color:#fffaf0;"></div>
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==About this Structure==
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==See Also==
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2K8C is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K8C OCA].
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*[[3D structures of ubiquitin|3D structures of ubiquitin]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Fu, Q S.]]
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[[Category: Large Structures]]
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[[Category: Gao, H C.]]
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[[Category: Fu QS]]
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[[Category: Hu, H Y.]]
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[[Category: Gao HC]]
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[[Category: Lin, D H.]]
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[[Category: Hu HY]]
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[[Category: Zhou, C J.]]
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[[Category: Lin DH]]
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[[Category: Cytoplasm]]
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[[Category: Zhou CJ]]
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[[Category: Nucleus]]
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[[Category: Phosphoprotein]]
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[[Category: Protein binding]]
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[[Category: Ubiquitin in complex with pfuc trans isomer]]
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[[Category: Ubl conjugation]]
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[[Category: Wd repeat]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 6 11:15:54 2009''
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Current revision

Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin

PDB ID 2k8c

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