X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Ffeatures%2Fpdbviewer.html;h=fd13f572162a6483f417d6640cf97714c1a53ed5;hb=c17661b22323a66090ea91e04751aa17461b17c5;hp=9e1e6e5275cfc34edf693f73e51de7d0f33c0a5c;hpb=bb5c8d98be1c4965b1a43b97f05b07e9ceb10343;p=jalview.git diff --git a/help/html/features/pdbviewer.html b/help/html/features/pdbviewer.html index 9e1e6e5..fd13f57 100755 --- a/help/html/features/pdbviewer.html +++ b/help/html/features/pdbviewer.html @@ -1,137 +1,176 @@ + PDB Viewer -

The PDB Viewer Window -

This interactive structure viewing window is opened by selecting -the "Sequence→View PDB entry:" entry in -the sequence id pop-up menu. This -can only be done for sequences which have an associated -PDB structure, and the PDB Viewer will only be associated with the -particular alignment view from which it was opened.

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Controls

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The structure is rendered as an alpha-carbon trace. Moving the -mouse over the structure brings up tooltips with a residue name and PDB -sequence position. If a mapping exists to a residue in the associated -sequence, then this will be highlighted in the associated view in its -alignment window, and vice versa for viewing the coordinates associated -with a particular residue in the sequence in a particular view on the -alignment.

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Selecting a residue highlights its associated sequence residue -and alpha carbon location.

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ActionWindowsUnixMac/OSX
Select/
- Deselect
- Residue
Left ClickLeft ClickClick
Rotate ViewLeft Click and DragLeft Click and DragClick and Drag
Roll ViewRight Click and dragRight Click and DragTODO
Move OriginMiddle-Button and DragMiddle-Button and DragTODO
Zoom InUp ArrowUp ArrowUp Arrow
Zoom OutDown ArrowDown ArrowDown Arrow
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There are three menus: -

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Notes for PDB Viewing in the Jalview Applet -

The applet can only load PDB files by copying and pasting the -text into the popup window which appears when "Show PDB -Structure" is selected after right clicking on a sequence name.

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+ Notes for PDB Viewing in the Jalview Applet +

The applet can only load PDB files by copying and pasting the + text into the popup window which appears when "Show PDB + Structure" is selected after right clicking on a sequence name.