Michael Kennedy

Metabonomic Studies of host response to Yersinia Pestis exposure through analysis of plasma and urine from mice

Lead Institution

Washington State University Tri-Cities

Principal Investigator

Kathleen McAteer

Project type

Capability Research

The first goal of this research project is to establish reliable methods for NMR analysis of urine and plasma from mice that lead to interpretable metabonomic data. The second goal is to investigate…

Interaction of Escherichia coli Formamidopyrimidine-DNA Glycosylase (Fpg) with Damaged DNA Containing an 7,8-Dihydro-8-oxoguanine Lesion.

Lead Institution

University of Vermont

Principal Investigator

Susan Wallace

Project type

Capability Research

7,8-Dihydro-8-oxoguanine (8OG) is a stable product of oxidative DNA damage, and is a substrate for base excision repair (BER) by DNA glycosylases that recognize and remove the damaged base. In…

Protein Interactions and Interfaces

Lead Institution

Rutgers University

Principal Investigator

Gaetano Montelione

Project type

Large-Scale EMSL Research

All proteins interact with other molecules: ligands, metals, membranes, surfaces or other proteins. Such interactions are intrinsic to protein function. We propose to leverage our successful program…

Characterization of the affects of specialized acyl carrier proteins on unusual LPS-hydroxy fatty acids in Geobacter metallireducens

Lead Institution

Miami University

Principal Investigator

Theresa Ramelot

Project type

Large-Scale EMSL Research

Many bacteria have specialized acyl carrier proteins (ACPs) that are involved in synthesis of diverse lipopolysaccharides (LPS). Diversity within LPS aids in survival of Gram-negative bacteria in…

NMR Studies of Nudix proteins from D.radiodurans

Lead Institution

Lawrence Berkeley National Laboratory

Principal Investigator

David Wemmer

Project type

Capability Research

We are in the process of cloning and expressing proteins from D.radiodurans that are involved in various aspects of DNA repair and maintaining DNA integrity. Among these some of the nucleotide…

Structural studies of Nudix hydrolyases from Bacillus anthracis, the bacteria the produces the deadly toxin antrax

Lead Institution

Lawrence Berkeley National Laboratory

Principal Investigator

Stephen Holbrook

Project type

Capability Research

Because of the interest in an anthrax due to issue related to Homeland Security, there is a great deal of interest in learning more about the bacteria that produces it, B. anthracis. Like…

Structural Proteomics of Myobacterium Tuberculosis

Lead Institution

Los Alamos National Laboratory

Principal Investigator

Thomas Terwilliger

Project type

Capability Research

Project Description: Due to the availability of the complete genome of M. tuberculosis and also in part to our development of a genetic system for studying gene function in M. tuberculosis, our…

Structural Biology of the Human High Mobility Group A (HMGA) Proteins: Characterizing the Hub of Nuclear Function

Lead Institution

Washington State University

Principal Investigator

Raymond Reeves

Project type

Capability Research

Chromatin high mobility group protein (HMGA1) belongs to a family of nonhistone mammalian proteins that are thought to be important structural components affecting the conformation and function of…

Structure of Allochromatium vinosum DsrC protein

Lead Institution

Los Alamos National Laboratory

Principal Investigator

Thomas Terwilliger

Project type

Capability Research

Project Description: The dsrC gene codes for the 12.7 kDa protein DsrC, also known as the gamma subunit of dissimilatory sulfite reductase, and occurs in all sulfate-reducing bacteria (e.g…

Structural Biology of the Human High Mobility Group A (HMGA) Proteins

Lead Institution

Washington State University

Principal Investigator

Raymond Reeves

Project type

Capability Research

HMGA1 proteins play a critical role in the adaptive immune response to infectious microorganisms and viruses, affecting gene regulation that stimulates resting lymphocytes into active T-cells by…

Structural Genomics of Eukaryotic Model Organisms

Lead Institution

Rutgers University

Principal Investigator

Gaetano Montelione

Project type

Capability Research

We have recently received a NIH Center Grant in Structural Genomics establishing the Northeast Structural Genomics Consortium for evaluating the feasibility, costs, economies of scale, and value of…

Structural Genomics: Determining the Structure of Proteins from the Infectious Agent Pseudomonas aeruginosa.

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Garry Buchko

Project type

Capability Research

The antibiotic resistance of Pseudomonas aeruginosa in chronic infections of the lungs of Cystic Fibrosis (CF) patients remains an important health issue to more than 30,000 children and adults in…

Structural Biology of the Nudix Proteins from the Extremely Radiation-Resistant Bacterium Deinococcus radiodurans

Lead Institution

Lawrence Berkeley National Laboratory

Principal Investigator

Stephen Holbrook

Project type

Capability Research

The bacterium Deinococcus radiodurans is able to withstand high doses of ionizing and UV radiation that are lethal to virtually all other organisms (Battista, 1997). It has been suggested that this…

Structure and Recognition in Microbial Membranes Proteins, and DNA

Lead Institution

Oak Ridge National Laboratory

Principal Investigator

T. Straatsma

Project type

Capability Research

Developments in simulation methodologies as well as computer hardware have enabled the molecular simulation of biological systems of increasing size and with increasing accuracy, providing molecular…

Structural Proteomics of Myobacterium Tuberculosis

Lead Institution

Los Alamos National Laboratory

Principal Investigator

Thomas Terwilliger

Project type

Capability Research

Project Description: Due to the availability of the complete genome of M. tuberculosis and also in part to our development of a genetic system for studying gene function in M. tuberculosis, our…

Structural Studies of Riboswitches

Lead Institution

Miami University

Principal Investigator

Michael Kennedy

Project type

Capability Research

Riboswitches are metabolite-binding domains in certain messenger RNAs that modulate gene expression in response to changing concentrations of metabolites. Riboswitches are composed of two functional…

Structural Proteomics of Myobacterium Tuberculosis

Lead Institution

Los Alamos National Laboratory

Principal Investigator

Thomas Terwilliger

Project type

Capability Research

Project Description: Due to the availability of the complete genome of M. tuberculosis and also in part to our development of a genetic system for studying gene function in M. tuberculosis, our…

NMR Structural Studies of Clustered DNA Damage

Lead Institution

Miami University

Principal Investigator

Michael Kennedy

Project type

Capability Research

The primary objective of this research is to characterize the qualitative and quantitative similarities and differences in repair characteristics between clustered damage sites formed by ionizing…

Structural Genomics of Eukaryotic Model Organisms

Lead Institution

Rutgers University

Principal Investigator

Gaetano Montelione

Project type

Capability Research

Lead Institution

Rutgers University

Principal Investigator

Gaetano Montelione

Project type

Large-Scale EMSL Research

The Northeast Structural Genomics Consortium (NESGC, www.nesg.org) is one of four large protein structure production centers supported by the NIH Protein Structure Initiative II (the PSI II). The…

EMSL Science Overview

Michael Kennedy

Projects

Metabonomic Studies of host response to Yersinia Pestis exposure through analysis of plasma and urine from mice

Interaction of Escherichia coli Formamidopyrimidine-DNA Glycosylase (Fpg) with Damaged DNA Containing an 7,8-Dihydro-8-oxoguanine Lesion.

Protein Interactions and Interfaces

Characterization of the affects of specialized acyl carrier proteins on unusual LPS-hydroxy fatty acids in Geobacter metallireducens

NMR Studies of Nudix proteins from D.radiodurans

Structural studies of Nudix hydrolyases from Bacillus anthracis, the bacteria the produces the deadly toxin antrax

Structural Proteomics of Myobacterium Tuberculosis

Structural Biology of the Human High Mobility Group A (HMGA) Proteins: Characterizing the Hub of Nuclear Function

Structure of Allochromatium vinosum DsrC protein

Structural Biology of the Human High Mobility Group A (HMGA) Proteins

Structural Genomics of Eukaryotic Model Organisms

Structural Genomics: Determining the Structure of Proteins from the Infectious Agent Pseudomonas aeruginosa.

Structural Biology of the Nudix Proteins from the Extremely Radiation-Resistant Bacterium Deinococcus radiodurans

Structure and Recognition in Microbial Membranes Proteins, and DNA

Structural Proteomics of Myobacterium Tuberculosis

Structural Studies of Riboswitches

Structural Proteomics of Myobacterium Tuberculosis

NMR Structural Studies of Clustered DNA Damage

Structural Genomics of Eukaryotic Model Organisms

Structural Genomics Collaborative Access Team (CAT)

Structural Biology of DNA Repair Proteins: The Nudix Protein Family from the Extremely Radiation-Resistant Bacterium Deinococcus radiodurans.

Structural Biology of the Human High Mobility Group A (HMGA) Proteins: Characterizing the Hub of Nuclear Function

Structural Proteomics: annotating the genome using 3D structure

Structural Biology of the Human High Mobility Group A (HMGA) Proteins: Characterizing the Hub of Nuclear Function

Structural Proteomics: annotating the genome using 3D structure

Structural Biology of the Human High Mobility Group A (HMGA) Proteins: Characterizing the Hub of Nuclear Function

Structural Proteomics: annotating the genome using 3D structure

Structural Studies of a Novel Family of Manganese Uptake Proteins in Cyanothece Containing a Repeated Five-Residues Domain (RFR).

Structural Biology of Mammalian Chromatin High Mobility Group Protein HMGA1 and UV-Damaged DNA

Structural Studies of a Family of Proteins from the Diurnal Cyanobacteria Cyanothece 51142 that Contain an Unusual Repeated Five-Residues Domain (RFR).

High-Throughput Structure Determination of Proteins and Protein Complexes