1w5l

From Proteopedia

(Difference between revisions)

Current revision

An anti-parallel to parallel switch.

Structural highlights

1w5l is a 2 chain structure with sequence from Saccharomyces cerevisiae. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.17Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

GCN4_YEAST Is a transcription factor that is responsible for the activation of more than 30 genes required for amino acid or for purine biosynthesis in response to amino acid or purine starvation. Binds and recognize the DNA sequence: 5'-TGA[CG]TCA-3'.

Publication Abstract from PubMed

A detailed understanding of the mechanisms by which particular amino acid sequences can give rise to more than one folded structure, such as for proteins that undergo large conformational changes or misfolding, is a long-standing objective of protein chemistry. Here, we describe the crystal structures of a single coiled-coil peptide in distinct parallel and antiparallel tetrameric configurations and further describe the parallel or antiparallel crystal structures of several related peptide sequences; the antiparallel tetrameric assemblies represent the first crystal structures of GCN4-derived peptides exhibiting such a configuration. Intriguingly, substitution of a single solvent-exposed residue enabled the parallel coiled-coil tetramer GCN4-pLI to populate the antiparallel configuration, suggesting that the two configurations are close enough in energy for subtle sequence changes to have important structural consequences. We present a structural analysis of the small changes to the helix register and side-chain conformations that accommodate the two configurations and have supplemented these results using solution studies and a molecular dynamics energetic analysis using a replica exchange methodology. Considering the previous examples of structural nonspecificity in coiled-coil peptides, the findings reported here not only emphasize the predisposition of the coiled-coil motif to adopt multiple configurations but also call attention to the associated risk that observed crytstal structures may not represent the only (or even the major) species present in solution.

Coiled coils at the edge of configurational heterogeneity. Structural analyses of parallel and antiparallel homotetrameric coiled coils reveal configurational sensitivity to a single solvent-exposed amino acid substitution.,Yadav MK, Leman LJ, Price DJ, Brooks CL 3rd, Stout CD, Ghadiri MR Biochemistry. 2006 Apr 11;45(14):4463-73. PMID:16584182^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Yadav MK, Leman LJ, Price DJ, Brooks CL 3rd, Stout CD, Ghadiri MR. Coiled coils at the edge of configurational heterogeneity. Structural analyses of parallel and antiparallel homotetrameric coiled coils reveal configurational sensitivity to a single solvent-exposed amino acid substitution. Biochemistry. 2006 Apr 11;45(14):4463-73. PMID:16584182 doi:10.1021/bi060092q

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1w5l"

@@ Line 3: / Line 3: @@
 <StructureSection load='1w5l' size='340' side='right'caption='[[1w5l]], [[Resolution|resolution]] 2.17&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1w5l]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1W5L FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1w5l]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1W5L FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1ce9|1ce9]], [[1dgc|1dgc]], [[1env|1env]], [[1fav|1fav]], [[1gcl|1gcl]], [[1gcm|1gcm]], [[1gk6|1gk6]], [[1gzl|1gzl]], [[1ihq|1ihq]], [[1ij0|1ij0]], [[1ij1|1ij1]], [[1ij2|1ij2]], [[1ij3|1ij3]], [[1kql|1kql]], [[1ld4|1ld4]], [[1llm|1llm]], [[1nkn|1nkn]], [[1piq|1piq]], [[1rb1|1rb1]], [[1rb4|1rb4]], [[1rb5|1rb5]], [[1rb6|1rb6]], [[1swi|1swi]], [[1tmz|1tmz]], [[1m6t|1m6t]], [[1unt|1unt]], [[1unu|1unu]], [[1unv|1unv]], [[1unw|1unw]], [[1unx|1unx]], [[1uny|1uny]], [[1unz|1unz]], [[1uo0|1uo0]], [[1uo1|1uo1]], [[1uo2|1uo2]], [[1uo3|1uo3]], [[1uo4|1uo4]], [[1uo5|1uo5]], [[1vzl|1vzl]], [[1ysa|1ysa]], [[1zii|1zii]], [[1zij|1zij]], [[1zik|1zik]], [[1zil|1zil]], [[1zim|1zim]], [[1zta|1zta]], [[2dgc|2dgc]], [[2zta|2zta]], [[1w5g|1w5g]], [[1w5h|1w5h]], [[1w5i|1w5i]], [[1w5j|1w5j]], [[1w5k|1w5k]]</div></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.17&#8491;</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=1w5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w5l OCA], [https://pdbe.org/1w5l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1w5l RCSB], [https://www.ebi.ac.uk/pdbsum/1w5l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1w5l ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/GCN4_YEAST GCN4_YEAST]] Is a transcription factor that is responsible for the activation of more than 30 genes required for amino acid or for purine biosynthesis in response to amino acid or purine starvation. Binds and recognize the DNA sequence: 5'-TGA[CG]TCA-3'.
+[https://www.uniprot.org/uniprot/GCN4_YEAST GCN4_YEAST] Is a transcription factor that is responsible for the activation of more than 30 genes required for amino acid or for purine biosynthesis in response to amino acid or purine starvation. Binds and recognize the DNA sequence: 5'-TGA[CG]TCA-3'.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 20: / Line 20: @@
 ==See Also==
+*[[Gcn4 3D Structures|Gcn4 3D Structures]]
 *[[Gnc4 3D Structures|Gnc4 3D Structures]]
 == References ==
@@ Line 26: / Line 27: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Ghadiri, M R]]
+[[Category: Saccharomyces cerevisiae]]
-[[Category: Leman, L J]]
+[[Category: Ghadiri MR]]
-[[Category: Stout, C D]]
+[[Category: Leman LJ]]
-[[Category: Yadav, M K]]
+[[Category: Stout CD]]
-[[Category: Four helix bundle]]
+[[Category: Yadav MK]]

1w5l

From Proteopedia

Current revision

An anti-parallel to parallel switch.

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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