X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Ffeatures%2Fpdbviewer.html;h=b29d2ae622289f30e5b5a76a02c9335bfaae7976;hb=66830878ef77fb7030de00ab6e302ef9936f0a3b;hp=97471a2e9899777db4c7c60ab162e9cf3d2dab82;hpb=bb105fcca41253815982584f4c8f6fae1f8e10a3;p=jalview.git diff --git a/help/html/features/pdbviewer.html b/help/html/features/pdbviewer.html index 97471a2..b29d2ae 100755 --- a/help/html/features/pdbviewer.html +++ b/help/html/features/pdbviewer.html @@ -1,14 +1,38 @@ + PDB Viewer +

The Jalview internal PDB Viewer
+Since Jalview 2.3, the Jmol PDB Viewer is +the main method for viewing PDB +structures. The documentation below concerns the original Jalview +PDB viewer, which is only used in situations where Jmol is unavailable +or cannot operate.

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.

+PDB structure, and the PDB Viewer will only be associated with the +particular alignment view from which it was opened.

Controls

The structure is rendered as an alpha-carbon trace. Moving the mouse over the structure brings up tooltips with a residue name and PDB @@ -121,9 +145,9 @@ and alpha carbon location.

  • Show All Chains
     When turned on, shows all chains in the PDB file, not just the one associated with a sequence in the alignment window.
    • -
  • Associate View
    +