NDLI: Shared traits on the reaction coordinates of ribonuclease and an RNA enzyme

Content Provider	PubMed Central
Author	Torelli, Andrew T. Spitale, Robert C. Krucinska, Jolanta Wedekind, Joseph E.
Abstract	Reaction-intermediate analogs have been used to understand how phosphoryl-transfer enzymes promote catalysis. Herein we report the first structure of a small ribozyme crystallized with a 3′-OH, 2′,5′-linkage in lieu of the normal phosphodiester substrate. The new structure shares features of the reaction coordinate exhibited in prior ribozyme structures including a vanadate complex that mimicked the oxyphosphorane transition state. As such, the structure exhibits reaction-intermediate traits that allow direct comparison of stabilizing interactions to the 3′-OH, 2′,5′-linkage contributed by the RNA enzyme and its protein counterpart, ribonuclease. Clear similarities are observed between the respective structures including hydrogen bonds to the non-bridging oxygens of the scissile-phosphate. Other commonalities include carefully poised water molecules that may alleviate charge build-up in the transition state and placement of a positive charge near the leaving group. The advantages of 2′,5′-linkages to investigate phosphoryl-transfer reactions are discussed, and argue for their expanded use in structural studies.
Related Links	http://dx.doi.org/10.1016/j.bbrc.2008.04.036
Ending Page	158
Page Count	5
Starting Page	154
File Format	PDF
ISSN	0006291X
e-ISSN	10902104
Journal	Biochemical and biophysical research communications
Issue Number	1
Volume Number	371
Language	English
Publisher Date	2008-06-01
Access Restriction	Open
Subject Keyword	Biophysics Cell Biology Biochemistry Molecular Biology Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Cell Biology Molecular Biology Biochemistry Biophysics

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

Ribonuclease P: The Evolution of an Ancient RNA Enzyme

Characterization of the Drosophila melanogaster Dis3 ribonuclease

Bovine Brain Ribonuclease Is the Functional Homolog of Human Ribonuclease 1

Interaction of onconase with the human ribonuclease inhibitor protein

Broadening the Mission of an RNA Enzyme

A Continuous Fluorometric Assay for the Assessment of MazF Ribonuclease Activity

The reaction of ribonuclease inhibitor with modified ribonucleases

Theoretical treatment of tight-binding inhibition of an enzyme. Ribonuclease inhibitor as special case.

The Activity of an Enzyme in the Crystalline State: Ribonuclease S

Shared traits on the reaction coordinates of ribonuclease and an RNA enzyme

Similar Documents

Ribonuclease P: The Evolution of an Ancient RNA Enzyme

Characterization of the Drosophila melanogaster Dis3 ribonuclease

Bovine Brain Ribonuclease Is the Functional Homolog of Human Ribonuclease 1

Interaction of onconase with the human ribonuclease inhibitor protein

Broadening the Mission of an RNA Enzyme

A Continuous Fluorometric Assay for the Assessment of MazF Ribonuclease Activity

The reaction of ribonuclease inhibitor with modified ribonucleases

Theoretical treatment of tight-binding inhibition of an enzyme. Ribonuclease inhibitor as special case.

The Activity of an Enzyme in the Crystalline State: Ribonuclease S

Shared traits on the reaction coordinates of ribonuclease and an RNA enzyme