Literature DB >> 1304880

The kinemage: a tool for scientific communication.

D C Richardson1, J S Richardson.   

Abstract

A "kinemage" (kinetic image) is a scientific illustration presented as an interactive computer display. Operations on the displayed kinemage respond within a fraction of a second: the entire image can be rotated in real time, parts of the display can be turned on or off, points can be identified by selecting them, and the change between different forms can be animated. A kinemage is prepared and specified by the author(s) of a journal article, in order to better communicate ideas that depend on three-dimensional information. The kinemages are distributed as plain text files of commented display lists and accompanying explanations. They are viewed and explored in an open-ended way by the reader using a simple graphics program, such as the one described here (called MAGE), which presently runs on Macintosh computers. A utility (called PREKIN) helps authors prepare the kinemages. Kinemages are being implemented under the auspices of the Innovative Technology Fund.

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Year:  1992        PMID: 1304880      PMCID: PMC2142077          DOI: 10.1002/pro.5560010102

Source DB:  PubMed          Journal:  Protein Sci        ISSN: 0961-8368            Impact factor:   6.725


  5 in total

1.  The Protein Data Bank: a computer-based archival file for macromolecular structures.

Authors:  F C Bernstein; T F Koetzle; G J Williams; E F Meyer; M D Brice; J R Rodgers; O Kennard; T Shimanouchi; M Tasumi
Journal:  J Mol Biol       Date:  1977-05-25       Impact factor: 5.469

2.  Structure of bovine pancreatic trypsin inhibitor. Results of joint neutron and X-ray refinement of crystal form II.

Authors:  A Wlodawer; J Walter; R Huber; L Sjölin
Journal:  J Mol Biol       Date:  1984-12-05       Impact factor: 5.469

3.  Refined crystal structure of carboxypeptidase A at 1.54 A resolution.

Authors:  D C Rees; M Lewis; W N Lipscomb
Journal:  J Mol Biol       Date:  1983-08-05       Impact factor: 5.469

4.  X-ray crystallographic investigation of substrate binding to carboxypeptidase A at subzero temperature.

Authors:  D W Christianson; W N Lipscomb
Journal:  Proc Natl Acad Sci U S A       Date:  1986-10       Impact factor: 11.205

5.  Refined structure of human carbonic anhydrase II at 2.0 A resolution.

Authors:  A E Eriksson; T A Jones; A Liljas
Journal:  Proteins       Date:  1988
  5 in total
  52 in total

1.  Automated diagnosis of data-model conflicts using metadata.

Authors:  R O Chen; R B Altman
Journal:  J Am Med Inform Assoc       Date:  1999 Sep-Oct       Impact factor: 4.497

2.  Exploring steric constraints on protein mutations using MAGE/PROBE.

Authors:  J M Word; R C Bateman; B K Presley; S C Lovell; D C Richardson
Journal:  Protein Sci       Date:  2000-11       Impact factor: 6.725

3.  Ser45 plays an important role in managing both the equilibrium and transition state energetics of the streptavidin-biotin system.

Authors:  D E Hyre; I Le Trong; S Freitag; R E Stenkamp; P S Stayton
Journal:  Protein Sci       Date:  2000-05       Impact factor: 6.725

4.  Natural beta-sheet proteins use negative design to avoid edge-to-edge aggregation.

Authors:  Jane S Richardson; David C Richardson
Journal:  Proc Natl Acad Sci U S A       Date:  2002-03-05       Impact factor: 11.205

5.  Structural basis for mobility in the 1.1 A crystal structure of the NG domain of Thermus aquaticus Ffh.

Authors:  Ursula D Ramirez; George Minasov; Pamela J Focia; Robert M Stroud; Peter Walter; Peter Kuhn; Douglas M Freymann
Journal:  J Mol Biol       Date:  2002-07-19       Impact factor: 5.469

6.  The nucleic acid database. A comprehensive relational database of three-dimensional structures of nucleic acids.

Authors:  H M Berman; W K Olson; D L Beveridge; J Westbrook; A Gelbin; T Demeny; S H Hsieh; A R Srinivasan; B Schneider
Journal:  Biophys J       Date:  1992-09       Impact factor: 4.033

7.  MOLPROBITY: structure validation and all-atom contact analysis for nucleic acids and their complexes.

Authors:  Ian W Davis; Laura Weston Murray; Jane S Richardson; David C Richardson
Journal:  Nucleic Acids Res       Date:  2004-07-01       Impact factor: 16.971

8.  Conformational changes in cubic insulin crystals in the pH range 7-11.

Authors:  O Gursky; J Badger; Y Li; D L Caspar
Journal:  Biophys J       Date:  1992-11       Impact factor: 4.033

Review 9.  Looking at proteins: representations, folding, packing, and design. Biophysical Society National Lecture, 1992.

Authors:  J S Richardson; D C Richardson; N B Tweedy; K M Gernert; T P Quinn; M H Hecht; B W Erickson; Y Yan; R D McClain; M E Donlan
Journal:  Biophys J       Date:  1992-11       Impact factor: 4.033

10.  RNA backbone is rotameric.

Authors:  Laura J W Murray; W Bryan Arendall; David C Richardson; Jane S Richardson
Journal:  Proc Natl Acad Sci U S A       Date:  2003-11-11       Impact factor: 11.205

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