Curriculum Vitae of James Stroud

Research Experience

9/04-Present

Postdoctoral Fellow/Staff Research Associate II with David Eisenberg, Ph.D.

University of California at Los Angeles

Bioinformatic and Structural Studies of Domain Swapping, Protein Misfolding Disease, and Protein Networks

1/04-9/04

Postdoctoral Research Associate with Lin Chen, Ph.D.

University of Colorado at Boulder

Structural Studies of Transcription Factors Involved in Language and T-Cell Anergy

3/99-12/03

Graduate Student with Lin Chen, Ph.D.

University of Colorado at Boulder

Structural and Functional Studies of Rel Homology Region Containing Proteins

10/94-8/98

Research Assistant with John McCarrey, Ph.D.

Southwest Foundation For Biomedical Research, San Antonio, TX

Regulation of Transcription, DNA Methylation, and Chromatin Structure During Gametogenesis

Education

Ph.D. Chemistry and Biochemistry University of Colorado at Boulder 2003

Lin Chen, Ph.D.

Structural and Functional Studies of Rel Homology Region Containing Proteins

M.A. Biochemistry and Molecular Biophysics Columbia University 1994

B.S. Molecular Biology University of Texas at Austin 1993

Research Interests

Protein misfolding and protein aggregation.

Mechanisms of Alzheimer's disease.

Combinatorial gene regulation.

Protein·DNA recognition.

Mechanisms of DNA repair.

DNA modification enzymes.

Honors and Awards

Ruth L. Kirschstein Postdoctoral Fellowship NIH 2007

Training Grant for Signal Transduction and Cell Cycle Regulation NIH 2000-2002

University Fellowship Recipient University of Colorado 1999

Graduate Fellowship Recipient Colorado Institute for Research in Biotechnology 1999

Presidential Scholar Incarnate Word College, San Antonio, TX 1988-1990

Research Articles

Number of citations given in square brackets.

0 Stroud JC Oltman A Han A Bates DL Chen L Structural basis of HIV-1 activation by NF-κB − a higher-order complex of p50:RelA bound to the HIV-1 LTR J Mol Biol 2009 Oct 16 393 1 98-112

7 Bates DL Barthel KKB Wu Y Kalhor R Stroud JC Giffin MJ Chen L Crystal structure of NFAT bound to the HIV-1 LTR tandem κB enhancer element Structure 2008 May 7 16 5 684-694

1 Dellisanti CD Yao Y Stroud JC Wang ZZ Chen L Structural determinants for alpha-neurotoxin sensitivity in muscle nAChR and their implications for the gating mechanism Channels (Austin) 2007 Jul-Aug 1 4 234-237

103 Dellisanti CD Yao Y Stroud JC Wang ZZ Chen L Crystal structure of the extracellular domain of nACHR α1 bound to α-bungarotoxin at 1.94 Å resolution Nat Neurosci 2007 Aug 10 10 2 953-962

285 Wu Y Borde M Heissmeyer V Feuerer M Lapan AD Stroud JC Bates DL Guo L Han A Ziegler SF Mathis D Benoist C Chen L Rao A FOXP3 controls regulatory T cell function through cooperation with NFAT Cell 2006 July 28 126 2 375-87

44 Stroud JC Wu Y Bates DL Han A Nowick K Paabo S Tong H Chen L Structure of the forkhead domain of FOXP2 bound to DNA Structure 2006 Jan 14 1 159-66

104 Lee T Hoofnagle AN Kabuyama Y Stroud J Min X Goldsmith EJ Chen L Resing KA Ahn NG Docking motif interactions in MAP kinases revealed by hydrogen exchange mass spectrometry Mol Cell 2004 Apr 9 14 1 43-55

15 Stroud JC Chen L Structure of NFAT1 bound to DNA as a monomer J Mol Biol 2003 Dec 12 334 5 1009-22

41 Giffin MJ Stroud JC Bates D von Koenig KD Hardin J Chen L Structure of NFAT1 bound as a dimer to the HIV-1 LTR kappa-B element Nat Struct Biol 2003 Oct 10 10 800-6

34 Han A Pan F Stroud JC Youn HD Liu JO Chen L Sequence-specific recruitment of transcriptional co-repressor Cabin1 by myocyte enhancer factor-2 Nature 2003 Apr 17 422 6933 730-4

53 Stroud JC Lopez-Rodriguez C Rao A Chen L Structure of a TonEBP-DNA complex reveals DNA encircled by a transcription factor Nat Struct Biol 2002 Feb 9 2 90-4

22 Zhang LP Stroud J Eddy CA Walter CA McCarrey JR Multiple elements influence transcriptional regulation from the human testis-specific PGK2 promoter in transgenic mice Biol Reprod 1999 Jun 60 6 1329-37

23 Zhang LP Stroud JC Walter CA Adrian GS McCarrey JR A gene-specific promoter in transgenic mice directs testis-specific demethylation prior to transcriptional activation In vivo Biol Reprod 1998 Aug 59 2 284-92

27 Kumari M Stroud JC Anji A McCarrey JR Differential appearance of DNase I-hypersensitive sites correlates with differential transcription of Pgk genes during spermatogenesis in the mouse J Biol Chem 1996 Jun 14 271 24 14390-7

Book Chapters

Liu JO Chen L Pan F Stroud JC Chapter 17: NFAT and MEF2, Two Families of Calcium-dependent Transcription Regulators Gene Expression and Regulation Jun Ma Higher Education Press (Distributed by Springer Science and Business Media, LLC) Beijing P.R. China 2006

Submitted Manuscripts under Review

Stroud JC Teng PK Whitelegge JP Eisenberg D Toxic oligomers of Amyloid beta have cross-beta structure PNAS

Manuscripts in Preparation

Kellman L Stroud JC A recursive Bayesian estimation method for measuring kinetics of amyloid fibrillogenesis

Teaching

1998 Teaching Assistant General Chemistry 1 University of Colorado, Department of Chemistry and Biochemistry

1999 Teaching Assistant Introduction to Bioorganic Chemistry University of Colorado, Department of Chemistry and Biochemistry

Oral Presentations

Colorado Regional Transcription Meeting Denver, CO May 5, 2001 Talk Structural Basis of Combinatorial Gene Regulation in Eukaryotic Transcription

Rocky Mountain R-AXIS Users Meeting Boulder, CO May 19-20, 2001 Talk Crystallographic Analysis of the TonEBP/TonE Complex

Poster Presentations

Advanced Electron Microscopy in NanoMedicine Symposium UCLA, Los Angeles, CA Oct. 2-3, 2009 Poster Geometric Construct to Explain Amyloid Helicity

West Coast Protein Crystallography Workshop Asilomar, CA Apr. 5-8, 2009 Poster Using a Protein-DNA Complex to Template Protein Crystallization

West Coast Protein Crystallography Workshop Asilomar, CA Mar. 11-14, 2007 Poster YAMA: An Animation Engine for PyMOL

West Coast Protein Crystallography Workshop Asilomar, CA Mar. 20-23, 2005 Poster Fluorescence Studies of NFAT Support Crystallographic Observations

Keystone Symposia on NF-κB: From Bench to Bedside Keystone, CO Feb. 25-Mar. 3, 2002 Poster Structural Basis for Dimerization in the NFAT Family of Transcription Factors

Professional Service

Journal Reviews

Acta Crystallographica Section D

International Conference on Intelligent Systems for Molecular Biology

Journal of Cell Biology

Journal of Molecular Biology (co-reviewer with David Eisenberg)

PNAS

Structure (co-reviewer with Lin Chen)

Grant Reviews

National Science Foundation, NSF 08557: Faculty Early Career Development (CAREER) Program

Selected Open Source Software

make-na Automation of making nucleic acids by NAB.