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Life Science Research Tools

Structural Biology Tools

Protein Data Bank: Collection of experimentally determined protein structural models

ModWeb: Protein structure modeling

Phyre2: Protein homology modeling

ProtMod: Protein structure modeling

I-TASSER: Protein structure and function predictions

QwikMD: Molecular dynamics simulation tool

DALI: Protein structure comparison

PyMol: Molecular visualization system (beginner)

VMD: Molecular visualization program

Chimera: Interactive visualization and analysis tool

 

Structural Biology Guides

COOT User Reference Guide

PyMol Intermediate User Reference Guide

Bioinformatic Tools

NCBI: Biomedical and genomic information

NCBI BLASTp: Protein sequence alignment

PSI-PRED: Secondary structure prediction

ClustalOmega: Sequence alignment

PFAM Database: Collection of protein families

FATCAT: Flexible structure alignment

POSA: Flexible multiple structure alignment

XtalPred: Prediction of protein crystallizability

FFAS: Fold and function assignment

SERp: Surface entropy reduction

CheckMyMetal: Metal binding site validation

 

Literature Search Tools

NCBI PubMed: Collection of biomedical literature

PaperBLAST: Locate papers about a specific protein and homologs


The True Advantage Research Training Program

 

Trainee Testimonial

"Michele’s multi-faceted approach to mentorship guides students through science in a way that fosters independence and critical thinking. Her supportive and dedicated mentorship sets students up for success."

- Jason Gosschalk, M.S., UCLA

 
 

About

The True Advantage Research Training Program provides relevant training and career development for the Life Science Industry.  Participants will conduct research, prepare a career portfolio,  and connect with established professionals for internship opportunties. We are also pursuing avenues to provide educational credits.

 

Training curriculum

  • Molecular Cloning
  • Protein Expression and Purification
  • Protein Crystallography
  • Lipidic Cubic Phase Crystallography
  • High-throughput Screen Assay Development
  • Immunoassay Development
  • Protein Conjugation Techniques

 

Career Development

  • Resumes and Cover letters
  • LinkedIn profile
  • Interviewing skills
  • Offer negotiation
  • Internship placement
  • Communication skills
  • Scientific Writing

 

Science Outreach

Our training program will promote science outreach by engaging the local community through the art of protein crystals, like the microscopy images shown on this page. By sharing the beauty of protein crystallography, we hope to educate and inspire youth to enter the STEM field.


Qualifications of Michele Kattke, PhD

Education and experience

  • Project Manager, Center for Structural Genomics of Infectious Disease, Northwestern University, 2017
  • PhD in Molecular Biology, UCLA, 2011-2017
  • gRED Intern in Protein Chemistry and Structural Biology, Genentech, 2016
  • ORISE Research Fellow, U.S. Army ERDC-CERL, 2009-2011
  • BS in Biochemistry with Distinction, UIUC, 2009

Research Publications

  • Kattke M.D., Sawaya M.R., Cascio D., Brown E.D., Clubb R.T. The wall teichoic acid TarA glycosyltransferase provides structural insights of a novel glycosyltransferase class. 2017 (In preparation).
  • Noland C.N., Kattke M.D., and Murray J.M. Structural insights into lipoprotein N-acylation by Escherichia coli apolipoprotein N-acyltransferase. PNAS 2017 (In press).
  • Jacobitz A.W., Kattke M.D., Clubb R.T. Structures and mechanism of the sortase enzyme super-family of transpeptidases. Adv. Protein Chem. Struct. Biol. 2017;109:223-264
  • Kattke M.D., Chan A.H., Duong A., Sexton D.L., Sawaya M.R., Cascio D., Elliot M.A., and Clubb R.T. Crystal Structure of the Streptomyces coelicolor Sortase E1 Transpeptidase Provides Insight into the Binding Mode of the Novel Class E Sorting Signal. PLoS ONE 2016 Dec 9;11(12)e0167763.
  • Kattke M.D., Gao E.J., Sapsford K.E., Stephenson L.D., and Kumar A. “FRET-based quantum dot immunoassay for rapid and sensitive detection of Aspergillus amstelodami.” Sensors 2011, 11, 6396-6410.