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EM Database Data integration - PowerPoint PPT Presentation


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EM Database Data integration. Role model – protein crystallography CCP4 – common interface to coordinate and integrate most of the software in the field; workshops, training; well established validation tools based on bond geometry, free R factor

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Presentation Transcript
slide1

EM Database

Data integration

slide4

Role model – protein crystallography

CCP4 – common interface to coordinate and integrate most of the software in the field; workshops, training; well established validation tools based on bond geometry, free R factor

PDB – Complete public repository with user-friendly visualization and integration tools, sophisticated searching, validation information, used by experts and non-specialists

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Basic featuresfor the EMDB

  • A nice front page – for both novice and expert users
  • Searching on entry number, author, keyword,..
  • A friendly data page with a picture of the map
  • Bug-free map header
  • Links to sequence and function databases
  • Experimental information
  • Validation information
  • Links to and from the PDB
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Desirable featuresfor the EMDB

  • A Rasmol for maps
  • Tools for moving and aligning maps
  • A button to shift the EM map from the center of the box to the origin of the coordinate system, needed for symmetry operations and for matching up with pdb files
  • Searching densities by cross correlation
  • Integrate with cell structure data
  • Validation with Rosenthal/Henderson tilt data
  • Fold searching for maps at <7 Å
  • Full integration into the PDB