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4wyn

From Proteopedia

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The crystal structure of the A109G mutant of RNase A

Structural highlights

4wyn is a 2 chain structure with sequence from Bos taurus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.805Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

RNAS1_BOVIN Endonuclease that catalyzes the cleavage of RNA on the 3' side of pyrimidine nucleotides. Acts on single stranded and double stranded RNA.^[1]

Publication Abstract from PubMed

The role of internal dynamics in enzyme function is highly debated. Specifically, how small changes in structure far away from the reaction site alter protein dynamics and overall enzyme mechanisms is of wide interest in protein engineering. Using RNase A as a model, we demonstrate that elimination of a single methyl group located >10 A away from the reaction site significantly alters conformational integrity and binding properties of the enzyme. This A109G mutation does not perturb structure or thermodynamic stability, both in the apo and ligand-bound states. However, significant enhancement in conformational dynamics was observed for the bound variant, as probed over nano- to millisecond timescales, resulting in major ligand repositioning. These results illustrate the large effects caused by small changes in structure on long-range conformational dynamics and ligand specificities within proteins, further supporting the importance of preserving wild-type dynamics in enzyme systems that rely on flexibility for function.

Perturbation of the Conformational Dynamics of an Active-Site Loop Alters Enzyme Activity.,Gagne D, French RL, Narayanan C, Simonovic M, Agarwal PK, Doucet N Structure. 2015 Dec 1;23(12):2256-66. doi: 10.1016/j.str.2015.10.011. Epub 2015, Nov 19. PMID:26655472^[2]

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

References

↑ delCardayre SB, Ribo M, Yokel EM, Quirk DJ, Rutter WJ, Raines RT. Engineering ribonuclease A: production, purification and characterization of wild-type enzyme and mutants at Gln11. Protein Eng. 1995 Mar;8(3):261-73. PMID:7479688
↑ Gagne D, French RL, Narayanan C, Simonovic M, Agarwal PK, Doucet N. Perturbation of the Conformational Dynamics of an Active-Site Loop Alters Enzyme Activity. Structure. 2015 Dec 1;23(12):2256-66. doi: 10.1016/j.str.2015.10.011. Epub 2015, Nov 19. PMID:26655472 doi:http://dx.doi.org/10.1016/j.str.2015.10.011

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4wyn"

@@ Line 1: / Line 1: @@
 ==The crystal structure of the A109G mutant of RNase A==
-<StructureSection load='4wyn' size='340' side='right' caption='[[4wyn]], [[Resolution|resolution]] 1.81&Aring;' scene=''>
+<StructureSection load='4wyn' size='340' side='right'caption='[[4wyn]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4wyn]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WYN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WYN FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4wyn]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WYN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4WYN FirstGlance]. <br>
-</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pancreatic_ribonuclease Pancreatic ribonuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.27.5 3.1.27.5] </span></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]] 1.805&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4wyn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wyn OCA], [http://pdbe.org/4wyn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4wyn RCSB], [http://www.ebi.ac.uk/pdbsum/4wyn PDBsum]</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=4wyn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wyn OCA], [https://pdbe.org/4wyn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4wyn RCSB], [https://www.ebi.ac.uk/pdbsum/4wyn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4wyn ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/RNAS1_BOVIN RNAS1_BOVIN]] Endonuclease that catalyzes the cleavage of RNA on the 3' side of pyrimidine nucleotides. Acts on single stranded and double stranded RNA.<ref>PMID:7479688</ref>
+[https://www.uniprot.org/uniprot/RNAS1_BOVIN RNAS1_BOVIN] Endonuclease that catalyzes the cleavage of RNA on the 3' side of pyrimidine nucleotides. Acts on single stranded and double stranded RNA.<ref>PMID:7479688</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 22: @@
 __TOC__
 </StructureSection>
-[[Category: Pancreatic ribonuclease]]
+[[Category: Bos taurus]]
-[[Category: Doucet, N]]
+[[Category: Large Structures]]
-[[Category: French, R L]]
+[[Category: Doucet N]]
-[[Category: Gagne, D]]
+[[Category: French RL]]
-[[Category: Simonovic, M]]
+[[Category: Gagne D]]
-[[Category: Conformational dynamic]]
+[[Category: Simonovic M]]
-[[Category: Hydrolase]]

4wyn

From Proteopedia

Current revision

The crystal structure of the A109G mutant of RNase A

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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