Macromolecular Visualization & Structural Bioinformatics
Professor Emeritus, Department of Microbiology
University of Massachusetts, Amherst MA 01003-9298
- 1963, B.A., Oberlin College, Chemistry (with high honors)
- 1969, Ph.D., Johns Hopkins University, Biology
- 1981-Present: Department of Microbiology, University of Massachusetts, Professor 1992, Retired 2004
- 1977-82: Research Career Development Award, NIAID
- 1971-80: Dept. Pathology, Harvard Medical School (with Baruj Benacerraf), Assoc. Prof. 1977
- 1966-71: Dept. Biology, Princeton Univ., dissertation and first postdoctoral.
Since 1995, my focus has been in molecular visualization in biological
science education, and in visual analysis of macromolecular structure.
During 1965-1997, I did research in cell biology and cellular immunology, especially mechanisms of
lysis by cytotoxic T lymphocytes, and interaction with the target
cell via LFA-1 (see Publications below).
Major Macromolecular Visualization Projects
Awards and recognition
- Protein Explorer, 1999-present (main project).
- ConSurf Server, 2001-present.
- Visitor-Maintained World Index of Chime Resources, 1999-present.
with Trevor D. Kramer)
- PDB Lite, 1998-present.
with Jaime Prilusky)
- Noncovalent Bond Finder, 1998.
- Protein Morpher, 1998.
- Template for presentation of RasMol-saved scripts in Chemscape Chime,
- Tutorials on DNA, Hemoglobin, Antibody, MHC, 1995-98.
- Founded (1995) and maintain the RasMol Home Page/Molecular Visualization
Freeware/UMass Chime Resources website visited by over 8,000 people
per week during Spring 2000.
- Founded (1995) and maintain the International RasMol/Chime Educational
Molecular Visualization Freeware Email Discussion, 500
subscribers, average one message/day. 11/95-present.
Collaborative visits of one week or longer
- Protein Explorer, 2003: MERLOT Classic award for Exemplary Online
Learning Resources in the field of Biology. "The Protein Explorer has revolutionized the teaching of biology at a molecular level."
- Noncovalent Bond Finder, 2003: Selected by Physical Sciences Information
- Protein Explorer, 2002: Five star peer-review ratings in all categories
by Project MERLOT. www.merlot.org
- Atlas of Macromolecules, 2002: Selected by SciLinks of the National
Science Teachers Association as a site of excellence.
Seminars on Macromolecular Visualization (Host)
- 3/01 (1 week) University of Barcelona, Spain, Gabriel Pons.
- 7/00 (1.5 weeks) Weizmann Institute of Science, Rehovot, Israel,
Joel Sussman, Meir Edelman, Haim Wolfson.
- 7/99 (4 weeks) Protein Data Bank, San Diego Supercomputer Center, Phil
Bourne, development and installation of Protein
Explorer version on PDB website.
- 5/98 (1.5 weeks) Protein Data Bank, Brookhaven National Laboratory, Joel Sussman,
development and installation of PDB Lite on PDB website.
(Contact information and links at
Molecular Visualization Software Training Workshops (Host)
- University of Barcelona, Spain (Gabriel Pons), 2/05.
- Washington University, Saint Louis MO US (Sarah Elgin) 4/04.
- Wyeth Pharmaceuticals, Cambridge MA US, (Steve Herrman) 7/03.
- Gordon Conference, Scientific Education and Visualization, Mt. Holyoke College, South Hadley MA, 8/01 (Poster).
- University of Wisconsin, Madison WI US, (Jean-Yves Sgro), 7/01.
- University of Barcelona, Spain (Gabriel Pons), 3/01.
- Vertex Pharmaceuticals, Cambridge MA US, (Mark Murcko) 3/01.
- Center for Molecular Modeling, National Institutes of Health, Bethesda MD US (Peter Steinbach) 1/01.
- National Center for Biotechnology Information, Bethesda, MD US (Stephen Bryant) 1/01.
- Weizmann Institute of Science, Rehovot, Israel, (Joel Sussman) 7/00.
- American Society of Biochemisty and Molecular Biology, Symposium
"Multimedia in Biochemistry Education" (Judith Voet, Carl Rhodes) Boston MA, 6/00.
- College Biochemistry Teacher's Workshop, Boston University (with
BioQuest and Univ. Illinois), 6/00.
- Protein Data Bank, San Diego Supercomputer Center, (Phil Bourne) 7/99.
- American Chemical Society, Northeast Division (Boston), Education
Awards Banquet, 5/99.
- San Francisco State University, Ray Trautman, 11/98.
- San Diego Supercomputer Center, Phil Bourne, 11/98.
- San Francisco State Univ., Ray Trautman, 11/98.
- ScienceMedia, Inc., Arnie Hagler, 11/98.
- Yale University, Mark Gerstein, 8/98.
- MDL Information Systems, Inc., Robert Dunkle 8/98.
- Brookhaven National Laboratory, Protein Data Bank, Joel Sussman, 5/98.
(Host contact information, syllabi and links at
- Invited four-day course, University of Barcelona, Spain
(Gabriel Pons), 2/05.
- Three-day course, Washington University, Saint Louis MO USA
(Sarah Elgin), 8/04.
- Invited three-day course, Wyeth Research, Cambridge MA US,
(Steve Herrmann) 7/03.
- Afternoon workshop, Gordon Conference, Scientific Education and
Visualization, Mt. Holyoke College, South Hadley MA US, 8/01.
- Invited one-day segment in SEPA Professional Development Program for High School
Science Teachers, Milwaukee School of Engineering/Medical College of
Wisconsin, (Tim Herman) 7/01.
- Two-day course, University of Wisconsin, Madison WI US,
(Jean-Yves Sgro) 7/01
- Three-day course, University of Massachusetts, Amherst MA US,
- Invited four-day course, University of Barcelona, Spain,
(Gabriel Pons) 4/01.
- Invited afternoon workshop for Peter Kim's lab group, Whitehead Institute, Cambridge MA US, (Steve Johnston) 3/01.
- One and one-half day short course,
Center for Molecular Modeling, National Institutes of Health, Bethesda MD US, (Meir Edelman) 1/01.
- Two invited full-day workshops (one for novices, one for advanced
users), Weizmann Institute of Science, Rehovot, Israel. 7/00
- Invited 3-hour workshop for participants in Midwestern
Association of Chemistry Teachers in Liberal Arts Colleges,
Augustana College, Rock Island IL, 11/99.
- Five sets of NSF-funded 3-day workshops (13 meetings)
attended by 94 college faculty from 80
colleges and 11 states. UMass, Amherst MA and Long Island U,
Brooklyn NY. 6/97-6/99.
- Invited 3-hour workshops for about 30 faculty, NSF-funded
MASTEP (Math/Sci Teacher Ed Program), San Francisco State U/San
Jose State U, November, 1998.
- Invited 1-hour workshops for about 100 participants in the
Education Satellite Meeting, International Union of Biochemistry
and Molecular Biology, 8/97, San Francisco CA US.
- Booth on educational molecular visualization at the exhibit
floor of the International Union of Biochemistry and Molecular
Biology, 8/97, San Francisco CA US. Visited by about 250 people.
- 2000-2006: $499,000, NSF EHR DUE: "The Protein Explorer:
interactive web-based learning and access to 3D protein
- 1997-2000: $180,000, NSF EHR DUE UFE: "Molecular
visualization in undergraduate biological science education".
- 1991-1994: $240,000, NSF DCB: "Regulation of leukocyte
adhesion receptor function"
Most of my work since 1995 is disseminated via the web. I created
and maintain the RasMol Home Page and UMass Chime Resources Site,
devoted to educational molecular visualization. During 2003,
these sites were visted by 9,000-13,000 people per week. Cumulatively,
have been visited by roughly 1,000,000 people
(half from within the USA) from over 115 countries who viewed documents
and tutorials at these sites
more than 20,000,000 times. Educational tutorials I authored
have been downloaded over 200,000 times; some have been translated
into French (redistributed by the French National Inst for
Pedagogic Research), Spanish, German and Portuguese.
Protein Explorer (proteinexplorer.org) has been downloaded 40 times/day
for the past several years.
An email survey conducted in 1999 revealed that thousands of educators
had downloaded educational tutorials I authored, and that
hundreds of thousands of students worldwide have experienced molecular
visualization using these tutorials.
Martz, Eric, and Timothy Driscoll, 2004. "Introduction to
Macromolecular Visualization", Chapter 9 (pp. 161-189)
in The Internet for Molecular Biologists: A Practical Approach,
Clare E. Sansom and Robert M. Horton, eds., Oxford University Press.
Martz, Eric, 2004, "Visualization, Molecular" plus twelve other
entries listed below for the Dictionary of Bioinformatics and Computational
Biology, John M.
Hancock and Marketa J. Zvelebil, eds., Wiley-Liss.
- Atomic coordinate file; Backbone models; Ball-and-stick models;
MIME types; Modeling, macromolecular; Models, molecular; Protein Data Bank;
Schematic (ribbon, cartoon) models; Space-filling models; Surface models;
Visualization, molecular; Wire-frame models; XML.
- (Martz also provided the graphic used on the top of the front and back
Duncan, Gary A., Eric Martz, and Sam Donovan, 2003. "Proteins:
historians of life on earth", in "Microbes count! Problem
posing, problem solving, and peer persuasion in
microbiology", John R. Jungck, Marion Field Fass, and Ethel
D. Stanley, eds. BioQUEST Curriculum Consortium, pp. 181-190.
(Available through the American Society of Microbiology
Martz, Eric, 2003. "3D Molecular Visualization with Protein
Explorer", Chapter 32, pages 565-586 in Introduction to
Bioinformatics, Stephen A. Krawetz and David D. Womble, eds,
Humana Press, Totowa NJ. (Includes Challenges to help you
learn Protein Explorer based on myoglobin and lipase.)
Glaser, Fabian, Tal Pupko, Inbal Paz, Rachel E. Bell, Eric Martz, and Nir Ben-Tal. 2003. ConSurf: Identification of Functional Regions in Proteins by
Surface-Mapping of Phylogenetic Information. Bioinformatics 19:163-4.
[PubMed abstract and free full text]
Martz, Eric. 2002. Protein Explorer: Easy Yet Powerful Macromolecular Visualization, Trends in Biochemical Sciences, 27 (February):107-109.
(PDF available on request.)
Martz, Eric. 2000. Protein Explorer: Freeware for 3D visualization of macromolecular structure, FASEB J. 14:22 (Abstract).
From 1965 through 1992, I published 65 papers and reviews in
cell biology and immunology, 47 of which were peer-reviewed.
I retired from teaching effective January, 2004.
- Infectious Disease and Defense (3 cr, sophomores and juniors).
- Immunology* (3 cr, juniors, seniors, graduate students).
- Immunology Laboratory (2 cr, juniors, seniors, graduate students).
- Immunology Journal Club (1 cr, graduate students).
- Macromolecular Visualization Lab (1 cr, seniors and graduate students).
* Alternate years (all other courses are taught annually).