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Last modified
31 March 98
by N.Guex

 

SPDBV Index


This index is provided with the sole purpose of pointing to a page where you can find more information about the subject. You might have to read a good part of the page to actually find the information, and I do apologise. In any case, the best way to learn how to use Swiss-PdbViewer is to take the time to do the tutorials.


 

A

Adding Residues

AMBER

 

B

B-factor

Backbone (colour)

Backbone (angles)

Building Loops

Building Residues

 

C

Changing the chain name for some aa

Changing the size of the slab

Changing Phi/Psi angles for an amino-acid

CHARMm

Clearing user labels (distances, angles...)

Colours

Comparing two proteins

Crystallographic Symmetries (building)

 

D

Deleting residues

Detecting Secondary Structures

Discarding molecule(s)

Display Menu

Distortions (identifying)

Downlaoding

 

E

Electron Density Maps

Energy Minimisation

Energy (Threading)

 

F

Feedback, Questions

Files

Fitting Molecules

Fitting (Residues into electron density)

Force Fields

 

G

Gromos

 

H

H-bonds

Homology Modelling

 

I

Identifying distorted parts of the protein

Image Gallery

 

L

Local Coordinates

Labels

Loading Protein

Loops (Building)

 

M

Measuring Distances, Angles, Torsions

Mean Force Potential (used during threading)

Menus

Merging several files

Modelling Proteins

Moving a molecule independently of others

Moving a subpart of the molecule only

Moving the slab along the Z axis

Mutations

 

P

Phi/Psi (changing)

Phi/Psi (viewing)

Pov-Ray

Preferences

 

R

Ramachandran Plots

Ray tracing

References

Rendering Quality (comparison)

Renumbering Amino-acids

Ribbon representations

RMS deviation

Rotate the molecule around a specific axis (X or Y or Z)

 

S

Saving a structural alignment

Saving an image

Saving only a part of a file

Secondary Structures

Selecting Residues (general considerations)

Select (menu)

Slab

Structural Alignments

Superposing Proteins

Symmetries (crystallographic)

Symmetries (non-crystallographic)

 

T

Threading Energy

Tips & Tricks

Tools (accessible from main window)

Tools (menu)

Torsions tools.

Tutorial (basic manipulation)

Tutorial (advanced examples)

 

V-Z

Viewing only the interior of the protein (slab mode)

World Coordinates