ESBG LAB

We are an inter-disciplinary research group using concepts and techniques from diverse disciplines including biophysics, biochemistry, and bioinformatics to understand how proteins, the molecular machines of life, work. Our current efforts are focused on protein kinases, a large and diverse family of enzymes that propagate cellular signals through the controlled phosphorylation of protein and small molecule substrates. We are using a combination of computational and experimental approaches to understand how natural sequence variation contributes to functional variation in protein kinases, and how non-natural variation contributes to disease.

ONGOING Research

This is an overview of the current Research in the ESBG lab. You can click on each item for the detailed information.

OVERVIEW

KINASE DESIGN PRINCIPLES

Protein kinases are exquisitely designed molecular machines that display remarkable diversity and complexity in their mechanisms of action. We are mining the wealth of evolutionary information embedded in protein kinase sequences from diverse organisms to obtain an in-depth understanding of the evolutionary rules that govern the structure and regulation of these proteins.

PREDICTING CANCER MUTATION IMPACT

Large scale cancer genome sequencing studies are beginning to reveal the mutational profiles of the 518 protein kinase genes encoded in the human genome from many different cancer types.
A detailed understanding of the structural and functional impact of these mutations can potentially lead to new therapies for cancer.

ANALYSIS OF PATHOGEN KINOMES

Apicomplexa is an evolutionary divergent phylum of eukaryotic pathogens responsible for human and agricultural diseases. Many cellular functions in apicomplexans are controlled by protein kinases, which have emerged as promising targets for infectious diseases. We are interested in understanding how parasitic kinases structurally and mechanistically differ from their eukaryotic hosts.

NEWS

New Publication in PLoS Genetics

Feb 29, 2016

Our Lab Receives New NIH Grant

August 1, 2015



  • TUAN NGUYEN RECEIVES THE GOLDWATER SCHOLARSHIP (June 27, 2014)
  • NEW PUBLICATION IN PLOS COMPUTATIONAL BIOLOGY (April 17, 2014)
  • ERIC TALEVICH SECURES A POST-DOCTORAL POSITION AT UCSF (August 1, 2013)
  • DR. KANNAN WINS THE NSF CAREER AWARD (June 5, 2012)

Software

1. ProKinO: Protein Kinase Ontology Browser

OVERVIEW

You can use this ontology browser to quickly locate protein kinase genes and a lot of information related to the genes, including the sequence, structure, function, mutation and pathway information on kinases.

RELATED PUBLICATIONS

"ProKinO: a unified resource for mining the cancer kinome."
"ProKinO: An Ontology for Integrative Analysis of Protein Kinases in Cancer."
"ProKinO: A Framework for Protein Kinase Ontology,"

COLLABORATION

ProKinO is a collaborative effort between the Evolutionary Systems Biology Group Lab of Dr. Natarajan Kannan at the Biochemistry and Molecular Biochemistry Department and Dr. Krys J. Kochut's lab at the Computer Science Department, both at University of Georgia, Athens, USA.

LATEST VERSION



Current version: 2.0
Date: 2015/12/27





2. Biocma

OVERVIEW

Consensus Multiple Alignment format, using Biopython alignments. I/O support and relevant functionality for the Consensus Alignment Format (CMA). This format represents protein sequence alignments.
It is used by a few tools by Dr. Andrew F. Neuwald, notably CHAIN and MAPGAPS.



3. Fammer

OVERVIEW

Utilities for curating a hierarchical set of sequence profiles representing a protein superfamily.
Freely distributed under the permissive BSD 2-clause license (see LICENSE).



4. CladeCompare

OVERVIEW

Compare protein sequence alignments. Identify diagnostic residues between the given "foreground" (FG) and "background" (BG) clades.
Freely distributed under the permissive BSD 2-clause license (see LICENSE).



5. MSAOnt

OVERVIEW

This software generates an instance of the multiple sequence alignment ontology (MSAOnt) from an aligned fasta or cma file.
Requires Python version 2.7
License: MIT

PEOPLE

Dr. Natarajan Kannan

Associate Professor & Principal Investigator

DR. SAMIKSHA KATIYAR

Research Professional IV

Carlos E Sanz

Post-doc Research Assistant

HYUNJIN ANNIE KWON

Graduate Research Assistant

ZHENG RUAN

Graduate Research Assistant

RAHIL TAUJALE

Graduate Research Assistant

LIANG-CHIN HUANG

Graduate Research Assistant

NAVID HASHEMI

Graduate Research Assistant

AYDA FARHADI

Graduate Research Assistant

STEVEN THOMAS SCOTT

Undergraduate Research Assistant


ALUMNI

DANIEL MCSKIMMING

Post-doc Fellow at UGA

SHIMA DASTGHEYB

Post-doc Fellow at Stanford

Tuan Nguyen

2014 Goldwater Scholar

Eric Talevich

Scientific Programmer Analyst at UCSF School of Medicine

Krishnadev Oruganty

Lead scientist at GVK Biosciences

Smita Mohanty

Scientist at GVK Biosciences

COLLABORATORS

Frank Sicheri

(Mount Sinai Hospital)

Alexandra Newton

(UC San Diego)

Susan S. Taylor

(UC San Diego)

Gerard Manning

(Genentech)

Christian Doerig

(Monash University)

Patrick Eyers

(University of Liverpool)

Art Edison

(UGA)

Contact