2dfe

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of Tk-RNase HII(1-200)-C

Structural highlights

2dfe is a 1 chain structure with sequence from Thermococcus kodakarensis KOD1. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.4Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

RNH2_THEKO Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Certain sequences, known as chameleon sequences, take both alpha- and beta-conformations in natural proteins. We demonstrate that a wild chameleon sequence fused to the C-terminal alpha-helix or beta-sheet in foreign stable proteins from hyperthermophiles forms the same conformation as the host secondary structure. However, no secondary structural formation is observed when the sequence is attached to the outside of the secondary structure. These results indicate that this sequence inherently possesses an ability to make either alpha- or beta-conformation, depending on the sequentially neighboring secondary structure if little other nonlocal interaction occurs. Thus, chameleon sequences take on a satellite state through contagion by the power of a secondary structure. We propose this "conformational contagion" as a new nonlocal determinant factor in protein structure and misfolding related to protein conformational diseases.

Conformational contagion in a protein: structural properties of a chameleon sequence.,Takano K, Katagiri Y, Mukaiyama A, Chon H, Matsumura H, Koga Y, Kanaya S Proteins. 2007 Aug 15;68(3):617-25. PMID:17510955^[1]

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

References

↑ Takano K, Katagiri Y, Mukaiyama A, Chon H, Matsumura H, Koga Y, Kanaya S. Conformational contagion in a protein: structural properties of a chameleon sequence. Proteins. 2007 Aug 15;68(3):617-25. PMID:17510955 doi:10.1002/prot.21451

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2dfe"

@@ Line 3: / Line 3: @@
 <StructureSection load='2dfe' size='340' side='right'caption='[[2dfe]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_kodakaraensis_(strain_kod1) Pyrococcus kodakaraensis (strain kod1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DFE FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_kodakarensis_KOD1 Thermococcus kodakarensis KOD1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DFE 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;'>[[1io2|1io2]], [[2dff|2dff]], [[2dfg|2dfg]], [[2dfh|2dfh]]</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]] 2.4&#8491;</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] </span></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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [https://pdbe.org/2dfe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [https://www.ebi.ac.uk/pdbsum/2dfe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dfe ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/RNH2_THEKO RNH2_THEKO]] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.
+[https://www.uniprot.org/uniprot/RNH2_THEKO RNH2_THEKO] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 37: / Line 36: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Ribonuclease H]]
+[[Category: Thermococcus kodakarensis KOD1]]
-[[Category: Chon, H]]
+[[Category: Chon H]]
-[[Category: Kanaya, S]]
+[[Category: Kanaya S]]
-[[Category: Katagiri, Y]]
+[[Category: Katagiri Y]]
-[[Category: Koga, Y]]
+[[Category: Koga Y]]
-[[Category: Matsumura, H]]
+[[Category: Matsumura H]]
-[[Category: Takano, K]]
+[[Category: Takano K]]
-[[Category: Chameleon sequence]]
-[[Category: Fusion protein]]
-[[Category: Hydrolase]]
-[[Category: Ribonuclease hii]]
-[[Category: Thermococcus kodakaraensis]]

2dfe

From Proteopedia

Current revision

Crystal structure of Tk-RNase HII(1-200)-C

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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