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1gji

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(New page: 200px<br /><applet load="1gji" size="450" color="white" frame="true" align="right" spinBox="true" caption="1gji, resolution 2.85&Aring;" /> '''Crystal structure of...)
Current revision (06:00, 3 April 2024) (edit) (undo)
 
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[[Image:1gji.gif|left|200px]]<br /><applet load="1gji" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1gji, resolution 2.85&Aring;" />
 
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'''Crystal structure of c-Rel bound to DNA'''<br />
 
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==Overview==
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==Crystal structure of c-Rel bound to DNA==
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BACKGROUND: The proto-oncogene product c-Rel is a Rel/NF-kappaB family, transcription factor that plays a critical role in lymphoid cell, development and mediates CD28-induced expression of interleukin 2 (IL-2)., The CD28 response element (CD28RE) in the IL-2 enhancer is nonameric and, similar to the kappaB DNA target sites recognized by p65 homodimers., RESULTS: We have determined and refined the X-ray crystal structure of the, c-Rel homodimer complexed to the CD28RE DNA site, 5'-AGAAATTCC-3', to 2.85, A resolution. The c-Rel homodimer binds CD28RE in a mode similar to that, observed in the p65/IL-8 kappaB crystallographic complex. Binding studies, reveal that the c-Rel homodimer recognizes the CD28RE with higher affinity, as compared to other canonical kappaB sequences despite the nonconsensus, A:T base pair at the 5' end of the CD28RE. Preferential recognition of the, CD28RE by c-Rel results from the direct contacts between the protein and, the DNA as well as intrasubunit interactions between the beta(f)-beta(g), loop in the dimerization domain and the DNA-contacting loop L1 of the, N-terminal domain. Not only do these loops have different conformations in, other Rel/DNA crystallographic complexes, but they also contain two of the, five oncogenic point mutations found in v-Rel. CONCLUSIONS: The current, structure indicates that a non-DNA-contacting loop in the dimerization, domain and the DNA-contacting loop L1 may play critical roles in defining, affinity and specificity. Two amino acid changes in these segments may, account for the differential DNA binding by v-Rel as compared to that of, c-Rel.
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<StructureSection load='1gji' size='340' side='right'caption='[[1gji]], [[Resolution|resolution]] 2.85&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1gji]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GJI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GJI FirstGlance]. <br>
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1GJI is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1GJI OCA].
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.85&#8491;</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=1gji FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gji OCA], [https://pdbe.org/1gji PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gji RCSB], [https://www.ebi.ac.uk/pdbsum/1gji PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gji ProSAT]</span></td></tr>
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==Reference==
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</table>
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X-ray crystal structure of proto-oncogene product c-Rel bound to the CD28 response element of IL-2., Huang DB, Chen YQ, Ruetsche M, Phelps CB, Ghosh G, Structure. 2001 Aug;9(8):669-78. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11587641 11587641]
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== Function ==
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[https://www.uniprot.org/uniprot/REL_CHICK REL_CHICK] Proto-oncogene that may play a role in differentiation and lymphopoiesis. NF-kappa-B is a pleiotropic transcription factor which is present in almost all cell types and is involved in many biological processed such as inflammation, immunity, differentiation, cell growth, tumorigenesis and apoptosis. NF-kappa-B is a homo- or heterodimeric complex formed by the Rel-like domain-containing proteins RELA/p65, RELB, NFKB1/p105, NFKB1/p50, REL and NFKB2/p52. The dimers bind at kappa-B sites in the DNA of their target genes and the individual dimers have distinct preferences for different kappa-B sites that they can bind with distinguishable affinity and specificity. Different dimer combinations act as transcriptional activators or repressors, respectively. NF-kappa-B is controlled by various mechanisms of post-translational modification and subcellular compartmentalization as well as by interactions with other cofactors or corepressors. NF-kappa-B complexes are held in the cytoplasm in an inactive state complexed with members of the NF-kappa-B inhibitor (I-kappa-B) family. In a conventional activation pathway, I-kappa-B is phosphorylated by I-kappa-B kinases (IKKs) in response to different activators, subsequently degraded thus liberating the active NF-kappa-B complex which translocates to the nucleus. The NF-kappa-B heterodimer RELA/p65-c-Rel is a transcriptional activator (By similarity).
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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/gj/1gji_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=1gji ConSurf].
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<div style="clear:both"></div>
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__TOC__
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</StructureSection>
[[Category: Gallus gallus]]
[[Category: Gallus gallus]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Chen, Y.Q.]]
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[[Category: Chen YQ]]
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[[Category: Ghosh, G.]]
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[[Category: Ghosh G]]
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[[Category: Huang, D.B.]]
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[[Category: Huang DB]]
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[[Category: Phelps, C.B.]]
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[[Category: Phelps CB]]
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[[Category: Ruetsche, M.]]
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[[Category: Ruetsche M]]
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[[Category: c-rel homodimer]]
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[[Category: nf-kb/dna complex]]
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[[Category: transcription factor]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 16:06:44 2007''
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Current revision

Crystal structure of c-Rel bound to DNA

PDB ID 1gji

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